Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 120 of 187
Found at i:36151954 original size:19 final size:19
Alignment explanation
Indices: 36151930--36151971 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
36151920 AAGATTAGAA
36151930 AATATTTATCA-ATCATAAT
1 AATATTTATCACATCAT-AT
*
36151949 AATATTTGTCACATCATAT
1 AATATTTATCACATCATAT
36151968 AATA
1 AATA
36151972 AAAATCAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (19 bp):
AATATTTATCACATCATAT
Found at i:36152633 original size:11 final size:11
Alignment explanation
Indices: 36152612--36152675 Score: 67
Period size: 11 Copynumber: 5.8 Consensus size: 11
36152602 GGTACGGTTT
*
36152612 TGATGTGGTGG
1 TGATTTGGTGG
*
36152623 TGGTTTGGTGG
1 TGATTTGGTGG
**
36152634 TGATAGGGTGG
1 TGATTTGGTGG
36152645 TGATTTGGTGG
1 TGATTTGGTGG
*
36152656 TTG-TTGGGTGG
1 -TGATTTGGTGG
36152667 TGATTTGGT
1 TGATTTGGT
36152676 TTGCGATACA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
10 2 0.05
11 38 0.90
12 2 0.05
ACGTcount: A:0.08, C:0.00, G:0.50, T:0.42
Consensus pattern (11 bp):
TGATTTGGTGG
Found at i:36152637 original size:22 final size:22
Alignment explanation
Indices: 36152611--36152675 Score: 87
Period size: 22 Copynumber: 2.9 Consensus size: 22
36152601 TGGTACGGTT
*
36152611 TTGATGTGGTGGTGGTTTGGTGG
1 TTGATG-GGTGGTGATTTGGTGG
36152634 -TGATAGGGTGGTGATTTGGTGG
1 TTGAT-GGGTGGTGATTTGGTGG
*
36152656 TTGTTGGGTGGTGATTTGGT
1 TTGATGGGTGGTGATTTGGT
36152676 TTGCGATACA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
22 34 0.89
23 4 0.11
ACGTcount: A:0.08, C:0.00, G:0.49, T:0.43
Consensus pattern (22 bp):
TTGATGGGTGGTGATTTGGTGG
Found at i:36153736 original size:17 final size:18
Alignment explanation
Indices: 36153702--36153736 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36153692 TCACGCACGG
36153702 AAGAGCTCACCGAAACAC
1 AAGAGCTCACCGAAACAC
*
36153720 AAGAGCTCGCC-AAACAC
1 AAGAGCTCACCGAAACAC
36153737 GGAATGAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.43, C:0.34, G:0.17, T:0.06
Consensus pattern (18 bp):
AAGAGCTCACCGAAACAC
Found at i:36155342 original size:18 final size:19
Alignment explanation
Indices: 36155319--36155367 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
36155309 AAGTTTTATT
*
36155319 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
36155337 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
36155356 TTTAATTTTTAT
1 TTT-ATTTTTAT
36155368 GTAAATATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Found at i:36155347 original size:22 final size:22
Alignment explanation
Indices: 36155310--36155367 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
36155300 CAAGTTGTAA
* *
36155310 AGTTTTATTTTTATTTTTATTT
1 AGTTTAATTTTTATTTTTACTT
*
36155332 A-TTTATTTATTTATTTTTACTT
1 AGTTTAATT-TTTATTTTTACTT
36155354 AGTTTAATTTTTAT
1 AGTTTAATTTTTAT
36155368 GTAAATATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 5 0.17
22 19 0.63
23 6 0.20
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (22 bp):
AGTTTAATTTTTATTTTTACTT
Found at i:36157777 original size:26 final size:26
Alignment explanation
Indices: 36157740--36157810 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
36157730 CGTTTCGACC
* *
36157740 CACAACTCGTGTGAGCATGCCCATTT
1 CACAGCTCGTGTGAGCATACCCATTT
* * * *
36157766 CACAGCTTGTGTAAGAATACTCATTT
1 CACAGCTCGTGTGAGCATACCCATTT
*
36157792 CATAGCTCGTGTGAGCATA
1 CACAGCTCGTGTGAGCATA
36157811 TATGTACCGG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCATACCCATTT
Found at i:36158616 original size:52 final size:52
Alignment explanation
Indices: 36158451--36158617 Score: 153
Period size: 52 Copynumber: 3.2 Consensus size: 52
36158441 CATTGGTGTA
*
36158451 GGTTTATATTTAACCTTTAAATTTCATTATTGAAATGTAATATTATGCTTAT
1 GGTTTATATTTAACCTATAAATTTCATTATTGAAATGTAATATTATGCTTAT
* * * * * * ** * *
36158503 GGTTTATA-CTAGCTTACTAAGCATTT-ACTGTTTATGTGGTTATCTT-T-CTATAT
1 GGTTTATATTTAACCTA-TAA--ATTTCATTATTGAAAT-GTAATATTATGCT-TAT
36158556 AGGTTTATATTTAACCTATAAATTTCATTATTGAAATGTAATATTATGCTTAT
1 -GGTTTATATTTAACCTATAAATTTCATTATTGAAATGTAATATTATGCTTAT
36158609 GGTTTATAT
1 GGTTTATAT
36158618 GAGCTTACTA
Statistics
Matches: 84, Mismatches: 21, Indels: 20
0.67 0.17 0.16
Matches are distributed among these distances:
51 4 0.05
52 32 0.38
53 20 0.24
54 23 0.27
55 5 0.06
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (52 bp):
GGTTTATATTTAACCTATAAATTTCATTATTGAAATGTAATATTATGCTTAT
Found at i:36158634 original size:106 final size:106
Alignment explanation
Indices: 36158449--36158657 Score: 375
Period size: 106 Copynumber: 2.0 Consensus size: 106
36158439 GACATTGGTG
*
36158449 TAGGTTTATATTTAACCTTTAAATTTCATTATTGAAATGTAATATTATGCTTATGGTTTATACTA
1 TAGGTTTATATTTAACCTATAAATTTCATTATTGAAATGTAATATTATGCTTATGGTTTATACTA
*
36158514 GCTTACTAAGCATTTACTGTTTATGTGGTTATCTTTCTATA
66 GCTTACTAAGCATTTACTGCTTATGTGGTTATCTTTCTATA
36158555 TAGGTTTATATTTAACCTATAAATTTCATTATTGAAATGTAATATTATGCTTATGGTTTATA-TG
1 TAGGTTTATATTTAACCTATAAATTTCATTATTGAAATGTAATATTATGCTTATGGTTTATACT-
*
36158619 AGCTTACTAAGCATTTATTGCTTATGTGGTTATCTTTCT
65 AGCTTACTAAGCATTTACTGCTTATGTGGTTATCTTTCT
36158658 CTTACTTTAC
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
105 1 0.01
106 98 0.99
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (106 bp):
TAGGTTTATATTTAACCTATAAATTTCATTATTGAAATGTAATATTATGCTTATGGTTTATACTA
GCTTACTAAGCATTTACTGCTTATGTGGTTATCTTTCTATA
Found at i:36160384 original size:21 final size:22
Alignment explanation
Indices: 36160329--36160384 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 22
36160319 GTGAAGGTCT
36160329 CACACGCCCATGTGCCCACCAA
1 CACACGCCCATGTGCCCACCAA
* * * *
36160351 -ACACGACCGTGTGTCCA-GAA
1 CACACGCCCATGTGCCCACCAA
*
36160371 CACACGCCCTTGTG
1 CACACGCCCATGTG
36160385 GAATCCTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.25, C:0.41, G:0.20, T:0.14
Consensus pattern (22 bp):
CACACGCCCATGTGCCCACCAA
Found at i:36170994 original size:32 final size:31
Alignment explanation
Indices: 36170953--36171013 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 31
36170943 TATCCTTGGT
36170953 TAAACAAGTATCTTATTTAATAAAATTTTTGA
1 TAAACAAGTATCTT-TTTAATAAAATTTTTGA
* *
36170985 TAAACAAGTATCTTTTTGATAAACTTTTT
1 TAAACAAGTATCTTTTTAATAAAATTTTT
36171014 CATACACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 13 0.48
32 14 0.52
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (31 bp):
TAAACAAGTATCTTTTTAATAAAATTTTTGA
Found at i:36174320 original size:23 final size:24
Alignment explanation
Indices: 36174290--36174337 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
36174280 CTAACAAATT
36174290 AATAGATGG-TTTTTAATGATTTC
1 AATAGATGGCTTTTTAATGATTTC
36174313 AATAGATGGCTTTTTAATGATTTC
1 AATAGATGGCTTTTTAATGATTTC
36174337 A
1 A
36174338 GTACCCGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (24 bp):
AATAGATGGCTTTTTAATGATTTC
Found at i:36181709 original size:25 final size:25
Alignment explanation
Indices: 36181646--36181709 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
36181636 GTAAAAGAAC
* * *
36181646 AAAACT-GAAATAAACCTAAAGCCT
1 AAAACTAGGAATAAAACTAAAGACT
*
36181670 AAAA-AAGAGAA-AAAACTAAAGACT
1 AAAACTAG-GAATAAAACTAAAGACT
36181694 AAAACTAGGAATAAAA
1 AAAACTAGGAATAAAA
36181710 TTATACAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
24 23 0.74
25 8 0.26
ACGTcount: A:0.64, C:0.12, G:0.11, T:0.12
Consensus pattern (25 bp):
AAAACTAGGAATAAAACTAAAGACT
Found at i:36185472 original size:49 final size:51
Alignment explanation
Indices: 36185410--36185552 Score: 166
Period size: 51 Copynumber: 2.8 Consensus size: 51
36185400 AATGTGAAAG
* * *
36185410 CAGTGGCAATATATTTGCAAATCAATGGTGGCTTGTCCACAAAA-T-TTAT
1 CAGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
* ** *
36185459 CAGTGGCAGTATATCTACATCTTAGTGGTGGCTTGTCCACAAAAGTGTTAT
1 CAGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
* * *
36185510 AAGTGGC-GATTTATCTGCAAATCAGTGGTGGTTTGTCCACAAA
1 CAGTGGCAG-TATATCTGCAAATCAGTGGTGGCTTGTCCACAAA
36185553 TGGTGTTTTG
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 37 0.48
50 2 0.03
51 38 0.49
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (51 bp):
CAGTGGCAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
Found at i:36190664 original size:22 final size:22
Alignment explanation
Indices: 36190607--36190666 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
36190597 AGAATATCGT
**
36190607 CTAAGCTCTCATGGCTAACGTA
1 CTAAGCTCTCATGTTTAACGTA
*
36190629 CTAAGCTCTCATGTTTCACGTA
1 CTAAGCTCTCATGTTTAACGTA
36190651 CTAAGCTCTCATGTTT
1 CTAAGCTCTCATGTTT
36190667 GAACAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (22 bp):
CTAAGCTCTCATGTTTAACGTA
Found at i:36193003 original size:23 final size:23
Alignment explanation
Indices: 36192944--36193005 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 23
36192934 TTTAAGGAGG
*
36192944 TATAATGCTCTCCTATTTAATTGATA
1 TATAATGCT-TCC--TTTAAATGATA
36192970 TAATAA--C-TCCTTTAAATGATA
1 T-ATAATGCTTCCTTTAAATGATA
36192991 TATAATGCTTCCTTT
1 TATAATGCTTCCTTT
36193006 GTATGTAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
20 4 0.13
21 11 0.35
22 1 0.03
23 9 0.29
25 1 0.03
26 1 0.03
27 4 0.13
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (23 bp):
TATAATGCTTCCTTTAAATGATA
Found at i:36196296 original size:34 final size:34
Alignment explanation
Indices: 36196253--36196344 Score: 177
Period size: 34 Copynumber: 2.7 Consensus size: 34
36196243 AACACTTAAC
36196253 TTATTCCAGCAATTAAATAAACTAAGATAAACAT
1 TTATTCCAGCAATTAAATAAACTAAGATAAACAT
36196287 TTATTCCAGCAATTAAATAAACTAAGATAAACAT
1 TTATTCCAGCAATTAAATAAACTAAGATAAACAT
36196321 TTATTCCAGCAATTAAAT-AACTAA
1 TTATTCCAGCAATTAAATAAACTAA
36196345 AATGAGTTAA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 6 0.10
34 52 0.90
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.30
Consensus pattern (34 bp):
TTATTCCAGCAATTAAATAAACTAAGATAAACAT
Found at i:36211367 original size:17 final size:17
Alignment explanation
Indices: 36211345--36211378 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36211335 CTTGTGAATA
36211345 CTTAGGATACAAATGAC
1 CTTAGGATACAAATGAC
36211362 CTTAGGATACAAATGAC
1 CTTAGGATACAAATGAC
36211379 ATGTCTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (17 bp):
CTTAGGATACAAATGAC
Found at i:36213601 original size:25 final size:27
Alignment explanation
Indices: 36213567--36213621 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
36213557 AAACCTCTTC
* * *
36213567 TAAAAGAAAAC-TCAAGAGAA-ATTCT
1 TAAAAAAAAACTTAAAGAGAATATTAT
36213592 TAAAAAAAAACTTAAAGAGAATATTAT
1 TAAAAAAAAACTTAAAGAGAATATTAT
36213619 TAA
1 TAA
36213622 CTCAAACCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.40
26 8 0.32
27 7 0.28
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.24
Consensus pattern (27 bp):
TAAAAAAAAACTTAAAGAGAATATTAT
Found at i:36214751 original size:35 final size:35
Alignment explanation
Indices: 36214679--36214912 Score: 113
Period size: 34 Copynumber: 6.8 Consensus size: 35
36214669 CACATTCGTT
* *
36214679 TACCTCATTCAATTAATATCTCGCCACGACGACAA
1 TACCTCATTCAATTAATATCTTGCCACAACGACAA
* *
36214714 TACCTCATTCACTTAATATCTTGCCATAAC-ACTAA
1 TACCTCATTCAATTAATATCTTGCCACAACGAC-AA
* * * * * *
36214749 TA-CTCATCCATTTGATATCCTGCCACAATGCCAA
1 TACCTCATTCAATTAATATCTTGCCACAACGACAA
* * ** ** * *
36214783 TA-CTCATTCATTTAACATCCCGTGACAATGCCAA
1 TACCTCATTCAATTAATATCTTGCCACAACGACAA
* * * * * *
36214817 TA-CTCATTCATTTAACATCCTACCACAAAGCCAA
1 TACCTCATTCAATTAATATCTTGCCACAACGACAA
*** * *
36214851 TA-CTCATTC-ATATAATATCCCACCACAATGCCAA
1 TACCTCATTCAAT-TAATATCTTGCCACAACGACAA
* * *
36214885 TA-CTCATTCATTTAACATCCTGCCACAA
1 TACCTCATTCAATTAATATCTTGCCACAA
36214913 TGCCAATATT
Statistics
Matches: 165, Mismatches: 30, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
33 1 0.01
34 132 0.80
35 32 0.19
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.29
Consensus pattern (35 bp):
TACCTCATTCAATTAATATCTTGCCACAACGACAA
Found at i:36214785 original size:34 final size:34
Alignment explanation
Indices: 36214711--36214920 Score: 240
Period size: 34 Copynumber: 6.1 Consensus size: 34
36214701 GCCACGACGA
* * * * **
36214711 CAATACCTCATTCACTTAATATCTTGCCATAACAC
1 CAATA-CTCATTCATTTAACATCCTGCCACAATGC
* * * *
36214746 TAATACTCATCCATTTGATATCCTGCCACAATGC
1 CAATACTCATTCATTTAACATCCTGCCACAATGC
* **
36214780 CAATACTCATTCATTTAACATCCCGTGACAATGC
1 CAATACTCATTCATTTAACATCCTGCCACAATGC
* *
36214814 CAATACTCATTCATTTAACATCCTACCACAAAGC
1 CAATACTCATTCATTTAACATCCTGCCACAATGC
* * **
36214848 CAATACTCATTCATATAATATCCCACCACAATGC
1 CAATACTCATTCATTTAACATCCTGCCACAATGC
36214882 CAATACTCATTCATTTAACATCCTGCCACAATGC
1 CAATACTCATTCATTTAACATCCTGCCACAATGC
36214916 CAATA
1 CAATA
36214921 TTTCATAACA
Statistics
Matches: 147, Mismatches: 28, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
34 143 0.97
35 4 0.03
ACGTcount: A:0.35, C:0.31, G:0.05, T:0.29
Consensus pattern (34 bp):
CAATACTCATTCATTTAACATCCTGCCACAATGC
Found at i:36215183 original size:14 final size:15
Alignment explanation
Indices: 36215165--36215193 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36215155 AATAATTATT
36215165 AAAAATC-ATATTAA
1 AAAAATCAATATTAA
36215179 AAAAATCAATATTAA
1 AAAAATCAATATTAA
36215194 GATTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAATCAATATTAA
Found at i:36227257 original size:13 final size:13
Alignment explanation
Indices: 36227239--36227267 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
36227229 GGATGAGGAG
36227239 ACACGAAGAGCAC
1 ACACGAAGAGCAC
36227252 ACACGAAGAGCAC
1 ACACGAAGAGCAC
36227265 ACA
1 ACA
36227268 GTGTTCGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.31, G:0.21, T:0.00
Consensus pattern (13 bp):
ACACGAAGAGCAC
Found at i:36229481 original size:11 final size:11
Alignment explanation
Indices: 36229467--36229492 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36229457 ATTTATCAGC
36229467 TATTATTATTT
1 TATTATTATTT
36229478 TATTATTATTT
1 TATTATTATTT
36229489 TATT
1 TATT
36229493 CCTAATTTTT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTATTATTT
Found at i:36232166 original size:9 final size:9
Alignment explanation
Indices: 36232152--36232176 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
36232142 AAACCATTTC
36232152 CATGTAATT
1 CATGTAATT
36232161 CATGTAATT
1 CATGTAATT
36232170 CATGTAA
1 CATGTAA
36232177 ATACCTGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (9 bp):
CATGTAATT
Found at i:36232319 original size:25 final size:25
Alignment explanation
Indices: 36232288--36232349 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
36232278 ACGAGTTGTA
*
36232288 AACGGTAAGGTCCTCCGAGCTGAAT
1 AACGGTAAGCTCCTCCGAGCTGAAT
* *
36232313 AATGGTAAGCTCCTCCGAGTTGAAT
1 AACGGTAAGCTCCTCCGAGCTGAAT
36232338 AACGGTAAGCTC
1 AACGGTAAGCTC
36232350 ATTCAAGCTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (25 bp):
AACGGTAAGCTCCTCCGAGCTGAAT
Found at i:36236370 original size:34 final size:34
Alignment explanation
Indices: 36236326--36236401 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
36236316 GAGTTAGTTT
* *
36236326 ATTAACTTTAGTTCAGCTCAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAGCTCAAAAAAGTGTTAGTA
* *
36236360 ATTAATTTTAGTTTAGCTTAAAAAAGTGTTAGTA
1 ATTAATTTTAGTTCAGCTCAAAAAAGTGTTAGTA
36236394 ATTAATTT
1 ATTAATTT
36236402 GTTTAAATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (34 bp):
ATTAATTTTAGTTCAGCTCAAAAAAGTGTTAGTA
Found at i:36237935 original size:17 final size:18
Alignment explanation
Indices: 36237915--36237955 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
36237905 AAAAAAAGTT
*
36237915 ACGAAAATTA-AAAAAAA
1 ACGAAAAGTATAAAAAAA
36237932 ACGAAAAGTATAAAAAAA
1 ACGAAAAGTATAAAAAAA
36237950 A-GAAAA
1 ACGAAAA
36237956 AAGTGAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.76, C:0.05, G:0.10, T:0.10
Consensus pattern (18 bp):
ACGAAAAGTATAAAAAAA
Found at i:36238914 original size:10 final size:10
Alignment explanation
Indices: 36238901--36238956 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
36238891 AGCTCAAATA
36238901 AGCTCATTTT
1 AGCTCATTTT
36238911 AGCTCATTTT
1 AGCTCATTTT
* *
36238921 AGCTCGTTTG
1 AGCTCATTTT
*
36238931 AGCTCAATTT
1 AGCTCATTTT
* *
36238941 ACCTTATTTT
1 AGCTCATTTT
36238951 CAGCTC
1 -AGCTC
36238957 GTTTCTTTTA
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
10 32 0.91
11 3 0.09
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (10 bp):
AGCTCATTTT
Found at i:36238924 original size:20 final size:20
Alignment explanation
Indices: 36238891--36238956 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
36238881 GACTACACTG
* *
36238891 AGCTCAAATAAGCTCATTTT
1 AGCTCAATTTAGCTCATTTT
* * *
36238911 AGCTCATTTTAGCTCGTTTG
1 AGCTCAATTTAGCTCATTTT
* *
36238931 AGCTCAATTTACCTTATTTT
1 AGCTCAATTTAGCTCATTTT
36238951 CAGCTC
1 -AGCTC
36238957 GTTTCTTTTA
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
20 30 0.86
21 5 0.14
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (20 bp):
AGCTCAATTTAGCTCATTTT
Found at i:36238935 original size:30 final size:31
Alignment explanation
Indices: 36238901--36238960 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
36238891 AGCTCAAATA
* *
36238901 AGCTCATTTTAGCTCATTTT-AGCTCGTTTG
1 AGCTCAATTTACCTCATTTTCAGCTCGTTTG
*
36238931 AGCTCAATTTACCTTATTTTCAGCTCGTTT
1 AGCTCAATTTACCTCATTTTCAGCTCGTTT
36238961 CTTTTATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.18, C:0.22, G:0.13, T:0.47
Consensus pattern (31 bp):
AGCTCAATTTACCTCATTTTCAGCTCGTTTG
Found at i:36239057 original size:20 final size:21
Alignment explanation
Indices: 36239004--36239059 Score: 80
Period size: 20 Copynumber: 2.7 Consensus size: 21
36238994 TAATTTATTC
*
36239004 AATTTCATATAGCTCATGACCG
1 AATTTCA-CTAGCTCATGACCG
36239026 AATTTCAC-AGCTCATGACCG
1 AATTTCACTAGCTCATGACCG
36239046 AATTTC-CTAGCTCA
1 AATTTCACTAGCTCA
36239060 AATTAGTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 24 0.75
22 7 0.22
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.30
Consensus pattern (21 bp):
AATTTCACTAGCTCATGACCG
Found at i:36240427 original size:6 final size:6
Alignment explanation
Indices: 36240418--36240471 Score: 72
Period size: 6 Copynumber: 9.0 Consensus size: 6
36240408 AACAAAGAGG
** * *
36240418 AAGAAA AAGAAA AAGAAA GTGAAA AAGAAA TAGAAA ACGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
36240466 AAGAAA
1 AAGAAA
36240472 TTGCAAGCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.04
Consensus pattern (6 bp):
AAGAAA
Found at i:36240484 original size:24 final size:24
Alignment explanation
Indices: 36240438--36240489 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
36240428 AAAAGAAAGT
*
36240438 GAAAAAGAAATAGAAAACGAAAAA
1 GAAAAAGAAATAGAAAACAAAAAA
* * *
36240462 GAAAAAGAAATTGCAAGCAAAAAA
1 GAAAAAGAAATAGAAAACAAAAAA
36240486 GAAA
1 GAAA
36240490 TCGAAAAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.71, C:0.06, G:0.17, T:0.06
Consensus pattern (24 bp):
GAAAAAGAAATAGAAAACAAAAAA
Found at i:36240489 original size:36 final size:36
Alignment explanation
Indices: 36240420--36240498 Score: 97
Period size: 36 Copynumber: 2.2 Consensus size: 36
36240410 CAAAGAGGAA
*
36240420 GAAAAAGAAAAAGAAAGTGAAAAAGAAATAGAAAAC
1 GAAAAAGAAAAAGAAAGTGAAAAAGAAAAAGAAAAC
* ** *
36240456 GAAAAAGAAAAAGAAATTGCAAGCA-AAAAAGAAATC
1 GAAAAAGAAAAAGAAAGTG-AAAAAGAAAAAGAAAAC
36240492 GAAAAAG
1 GAAAAAG
36240499 TGGGAGAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 34 0.92
37 3 0.08
ACGTcount: A:0.70, C:0.05, G:0.19, T:0.06
Consensus pattern (36 bp):
GAAAAAGAAAAAGAAAGTGAAAAAGAAAAAGAAAAC
Found at i:36240571 original size:16 final size:18
Alignment explanation
Indices: 36240550--36240588 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
36240540 ATTGAGATTG
36240550 AGAAAAA-A-ATTGAAAA
1 AGAAAAATATATTGAAAA
*
36240566 AGAAAAATATGTTGAAAA
1 AGAAAAATATATTGAAAA
36240584 AGAAA
1 AGAAA
36240589 CGAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (18 bp):
AGAAAAATATATTGAAAA
Found at i:36242445 original size:34 final size:34
Alignment explanation
Indices: 36242401--36242476 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
36242391 GAGTTAGTTT
*
36242401 ATTAACTTTAGTTCAGCTCAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTAGTA
*
36242435 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTAGTA
36242469 ATTAATTT
1 ATTAATTT
36242477 GTTTCTGGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (34 bp):
ATTAATTTTAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:36254622 original size:22 final size:21
Alignment explanation
Indices: 36254597--36254640 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
36254587 TGATAAACTT
36254597 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
36254619 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
36254640 T
1 T
36254641 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:36260175 original size:17 final size:17
Alignment explanation
Indices: 36260155--36260187 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36260145 AGTGGGAAAT
*
36260155 GATTTATAGTGAGTGAG
1 GATTTATAGTAAGTGAG
36260172 GATTTATAGTAAGTGA
1 GATTTATAGTAAGTGA
36260188 AAGAGGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.36
Consensus pattern (17 bp):
GATTTATAGTAAGTGAG
Found at i:36268558 original size:34 final size:30
Alignment explanation
Indices: 36268519--36268582 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 30
36268509 TCTCTGTTGG
*
36268519 CCGAATCTCCTTTCTCTTCTCCTCTTTTTTTTGA
1 CCGAATATCC-TTCTCTT-T-CT-TTTTTTTTGA
36268553 CCGAATATCCTTCTCTTTCTTTTTTTTTGA
1 CCGAATATCCTTCTCTTTCTTTTTTTTTGA
36268583 TTTCTACCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 10 0.34
31 2 0.07
32 1 0.03
33 7 0.24
34 9 0.31
ACGTcount: A:0.11, C:0.28, G:0.06, T:0.55
Consensus pattern (30 bp):
CCGAATATCCTTCTCTTTCTTTTTTTTTGA
Found at i:36269581 original size:53 final size:54
Alignment explanation
Indices: 36269495--36269634 Score: 156
Period size: 53 Copynumber: 2.6 Consensus size: 54
36269485 AAAGGTCAAT
* * * *
36269495 AAATAACCGAAATACCCCCATAGGTTAAAATGATTCAAATAACCCTATAGGGTA
1 AAATAACCGAAATACCCCCATAGGGTAAAATGATACAAATAACCCCATAAGGTA
* * * *
36269549 AAATGACCGACATA-CCCCATAGGGTAAAATGATAGAAATACCCCCATAAGGTA
1 AAATAACCGAAATACCCCCATAGGGTAAAATGATACAAATAACCCCATAAGGTA
*** * *
36269602 AAATATTTGAAATATCACCATAGGGTAAAATGA
1 AAATAACCGAAATACCCCCATAGGGTAAAATGA
36269635 CCGAAATACC
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 42 0.59
54 29 0.41
ACGTcount: A:0.45, C:0.19, G:0.15, T:0.21
Consensus pattern (54 bp):
AAATAACCGAAATACCCCCATAGGGTAAAATGATACAAATAACCCCATAAGGTA
Found at i:36269640 original size:27 final size:27
Alignment explanation
Indices: 36269495--36269646 Score: 148
Period size: 27 Copynumber: 5.7 Consensus size: 27
36269485 AAAGGTCAAT
* *
36269495 AAATAACCGAAATACCCCCATAGGTTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
36269522 AAATGATTC-AAATAACCCTATAGGGTA
1 AAATGA-CCGAAATACCCCCATAGGGTA
*
36269549 AAATGACCGACATA-CCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
36269575 AAATGATAGAAATACCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** * *
36269602 AAAT-ATTTGAAATATCACCATAGGGTA
1 AAATGA-CCGAAATACCCCCATAGGGTA
36269629 AAATGACCGAAATACCCC
1 AAATGACCGAAATACCCC
36269647 TAAGAGATGA
Statistics
Matches: 100, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
26 24 0.24
27 74 0.74
28 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:36269702 original size:25 final size:26
Alignment explanation
Indices: 36269661--36269710 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
36269651 AGATGAAATG
36269661 ACTGATATTGCCTTATG-TGATGTATA
1 ACTGATATTGCCTTATGAT-ATGTATA
36269687 ACTGAT-TTG-CTCTATGATATGTAT
1 ACTGATATTGCCT-TATGATATGTAT
36269711 GACTATGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
24 2 0.09
25 13 0.59
26 7 0.32
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (26 bp):
ACTGATATTGCCTTATGATATGTATA
Found at i:36269837 original size:26 final size:26
Alignment explanation
Indices: 36269798--36269860 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
36269788 TGGAGGTAGT
*
36269798 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
*
36269824 ATACTGTTATTGGCAGCTTTACTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
36269850 ATACTGTTACT
1 ATACTGTTACT
36269861 TAAATATTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTACTGCG
Found at i:36270178 original size:20 final size:20
Alignment explanation
Indices: 36270155--36270208 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
36270145 AGTTTTTCCC
*
36270155 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
36270175 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
36270195 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
36270209 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:36270190 original size:30 final size:30
Alignment explanation
Indices: 36270155--36270228 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
36270145 AGTTTTTCCC
36270155 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
36270185 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
36270215 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
36270229 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:36270218 original size:20 final size:20
Alignment explanation
Indices: 36270155--36270219 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
36270145 AGTTTTTCCC
* * * *
36270155 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
36270175 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
36270194 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
36270215 AGCTC
1 AGCTC
36270220 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:36271735 original size:33 final size:33
Alignment explanation
Indices: 36271693--36271758 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
36271683 TAAGGCCCAC
* *
36271693 ACTGTTACTGTATTGGGCTAAGGCCTACACTGT
1 ACTGTTACTGAATAGGGCTAAGGCCTACACTGT
* *
36271726 ACTGTTACTGAATAGGGCTTAGGCCTAGACTGT
1 ACTGTTACTGAATAGGGCTAAGGCCTACACTGT
36271759 CATTGCTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.32
Consensus pattern (33 bp):
ACTGTTACTGAATAGGGCTAAGGCCTACACTGT
Found at i:36279073 original size:27 final size:27
Alignment explanation
Indices: 36278958--36279083 Score: 171
Period size: 27 Copynumber: 4.7 Consensus size: 27
36278948 AGAGGTCAAT
** *
36278958 AAATGACCGAAATACCCCTATAGGGTA
1 AAATGACTAAAATACCCCCATAGGGTA
*
36278985 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACTAAAATACCCCCATAGGGTA
**
36279012 AAATGACTAAAATACCCCCATAGAATA
1 AAATGACTAAAATACCCCCATAGGGTA
*
36279039 AAATGACTAAAATACCTCCATAGGGTA
1 AAATGACTAAAATACCCCCATAGGGTA
**
36279066 AAATGACTATTATACCCC
1 AAATGACTAAAATACCCC
36279084 TAGGAGATGA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.44, C:0.23, G:0.13, T:0.20
Consensus pattern (27 bp):
AAATGACTAAAATACCCCCATAGGGTA
Found at i:36280462 original size:99 final size:99
Alignment explanation
Indices: 36280291--36280490 Score: 400
Period size: 99 Copynumber: 2.0 Consensus size: 99
36280281 GGACATCAGC
36280291 AGTAGGTTAAACTTGAAAAATCACCATAAATTGTAAAAATAGAATTACAGTATGAATAAAATATG
1 AGTAGGTTAAACTTGAAAAATCACCATAAATTGTAAAAATAGAATTACAGTATGAATAAAATATG
36280356 AAAATAAAGCTTATTGATTCTAGTTTCTCATAGA
66 AAAATAAAGCTTATTGATTCTAGTTTCTCATAGA
36280390 AGTAGGTTAAACTTGAAAAATCACCATAAATTGTAAAAATAGAATTACAGTATGAATAAAATATG
1 AGTAGGTTAAACTTGAAAAATCACCATAAATTGTAAAAATAGAATTACAGTATGAATAAAATATG
36280455 AAAATAAAGCTTATTGATTCTAGTTTCTCATAGA
66 AAAATAAAGCTTATTGATTCTAGTTTCTCATAGA
36280489 AG
1 AG
36280491 AAACGGTGTA
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 101 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.31
Consensus pattern (99 bp):
AGTAGGTTAAACTTGAAAAATCACCATAAATTGTAAAAATAGAATTACAGTATGAATAAAATATG
AAAATAAAGCTTATTGATTCTAGTTTCTCATAGA
Found at i:36281528 original size:19 final size:18
Alignment explanation
Indices: 36281495--36281530 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36281485 GTTAAAAATT
36281495 TGAAAGTTTTAATTCGGA
1 TGAAAGTTTTAATTCGGA
*
36281513 TGAAATTTTGTAATTCGG
1 TGAAAGTTT-TAATTCGG
36281531 TTTAATACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.42
Consensus pattern (18 bp):
TGAAAGTTTTAATTCGGA
Found at i:36281710 original size:26 final size:26
Alignment explanation
Indices: 36281667--36281787 Score: 161
Period size: 26 Copynumber: 4.7 Consensus size: 26
36281657 GGTGTTATAA
** * *
36281667 GCAGCTTTGCTATGATACTGTTATTG
1 GCAGCTTTGCTGCGATACTATTACTG
* *
36281693 GCAGCTTTGCTGCAATACTGTTACTG
1 GCAGCTTTGCTGCGATACTATTACTG
* *
36281719 ACAGCTTTACTGCGATACTATTACTG
1 GCAGCTTTGCTGCGATACTATTACTG
*
36281745 GCAGCTTTACTGCGATACTATTACTG
1 GCAGCTTTGCTGCGATACTATTACTG
36281771 GCAGCTTTGCTGCGATA
1 GCAGCTTTGCTGCGATA
36281788 TTAGTGCGTT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 85 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
GCAGCTTTGCTGCGATACTATTACTG
Found at i:36281744 original size:14 final size:14
Alignment explanation
Indices: 36281725--36281770 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
36281715 ACTGACAGCT
36281725 TTACTGCGATACTA
1 TTACTGCGATACTA
*
36281739 TTACTG-GCA-GCT-
1 TTACTGCG-ATACTA
36281751 TTACTGCGATACTA
1 TTACTGCGATACTA
36281765 TTACTG
1 TTACTG
36281771 GCAGCTTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
12 7 0.27
13 6 0.23
14 13 0.50
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (14 bp):
TTACTGCGATACTA
Found at i:36287410 original size:9 final size:9
Alignment explanation
Indices: 36287398--36287428 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36287388 GTTAATCGAA
36287398 TCGAGTTAT
1 TCGAGTTAT
*
36287407 TCGAGTTAA
1 TCGAGTTAT
36287416 TCGAGTTAT
1 TCGAGTTAT
36287425 TCGA
1 TCGA
36287429 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:36287499 original size:9 final size:9
Alignment explanation
Indices: 36287482--36287518 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
36287472 TGAGTTTTCG
36287482 AATTCGAAT
1 AATTCGAAT
*
36287491 AACTCGAAT
1 AATTCGAAT
36287500 AATTCGAAT
1 AATTCGAAT
36287509 AATTCGAAT
1 AATTCGAAT
36287518 A
1 A
36287519 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:36289499 original size:28 final size:28
Alignment explanation
Indices: 36289464--36289596 Score: 167
Period size: 28 Copynumber: 4.8 Consensus size: 28
36289454 ATAAGGAGTC
**
36289464 CACCACAAAGGCTTATTCTTTTGTAGTT
1 CACCACAAAGGCTTATTCTTTCATAGTT
**
36289492 CGGCACAAAGGCTTATTCTTTCATAGTT
1 CACCACAAAGGCTTATTCTTTCATAGTT
* * * **
36289520 CATCACAAAGGTTTAATCAGTCATAGTT
1 CACCACAAAGGCTTATTCTTTCATAGTT
* *
36289548 CTCCATAAAGGCTTATTCTTTCATAGTT
1 CACCACAAAGGCTTATTCTTTCATAGTT
36289576 CACCACAAAGGCTTATTCTTT
1 CACCACAAAGGCTTATTCTTT
36289597 TCTGACATGT
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 86 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.37
Consensus pattern (28 bp):
CACCACAAAGGCTTATTCTTTCATAGTT
Found at i:36295598 original size:19 final size:19
Alignment explanation
Indices: 36295574--36295614 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
36295564 AATAAATATT
36295574 TTCTTTAATGCTAAGTAAG
1 TTCTTTAATGCTAAGTAAG
36295593 TTCTTTAATGCTAAGTAAG
1 TTCTTTAATGCTAAGTAAG
36295612 TTC
1 TTC
36295615 GCAACTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (19 bp):
TTCTTTAATGCTAAGTAAG
Found at i:36296112 original size:35 final size:35
Alignment explanation
Indices: 36296056--36296260 Score: 135
Period size: 35 Copynumber: 5.6 Consensus size: 35
36296046 TTTACCGGTT
* * *
36296056 TATCCGACTAGCGCTGAGCTCAAATATTGTTGGTA
1 TATCCAACTAGAGCTGGGCTCAAATATTGTTGGTA
* * * * *
36296091 AATCCAACTAGAGCTGGGCTCACTATTTATTCTTTAGTT
1 TATCCAACTAGAGCTGGGCTCA--A-ATATT-GTTGGTA
** * *
36296130 TATCCGGCTAGCA-CTGGGCGCAAATATCGTTGGTA
1 TATCCAACTAG-AGCTGGGCTCAAATATTGTTGGTA
* *
36296165 TATCCAACTAGAGCTGGGCTCACAATTTATTCTTCGGTT
1 TATCCAACTAGAGCTGGGCTCA-AA--TATTGTT-GGTA
* * * *
36296204 TAT-CAGACTAGCGCTCGGCGCAAATATCGTTGGTA
1 TATCCA-ACTAGAGCTGGGCTCAAATATTGTTGGTA
*
36296239 TATCCAACTAGAGTTGGGCTCA
1 TATCCAACTAGAGCTGGGCTCA
36296261 CTAATTATTC
Statistics
Matches: 125, Mismatches: 33, Indels: 24
0.69 0.18 0.13
Matches are distributed among these distances:
34 1 0.01
35 57 0.46
36 12 0.10
37 2 0.02
38 13 0.10
39 39 0.31
40 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (35 bp):
TATCCAACTAGAGCTGGGCTCAAATATTGTTGGTA
Found at i:36296162 original size:74 final size:74
Alignment explanation
Indices: 36296053--36296300 Score: 325
Period size: 74 Copynumber: 3.4 Consensus size: 74
36296043 TTATTTACCG
* * * *
36296053 GTTTATCCGACTAGCGCTGAGCTCAAATATTGTTGGTAAATCCAACTAGAGCTGGGCTCACTATT
1 GTTTATCCGACTAGCGCTGGGCGCAAATATCGTTGGTATATCCAACTAGAGCTGGGCTCACTATT
*
36296118 TATTCTTTA
66 TATTCTTCA
* * *
36296127 GTTTATCCGGCTAGCACTGGGCGCAAATATCGTTGGTATATCCAACTAGAGCTGGGCTCACAATT
1 GTTTATCCGACTAGCGCTGGGCGCAAATATCGTTGGTATATCCAACTAGAGCTGGGCTCACTATT
*
36296192 TATTCTTCG
66 TATTCTTCA
* * * *
36296201 GTTTATCAGACTAGCGCTCGGCGCAAATATCGTTGGTATATCCAACTAGAGTTGGGCTCACTAAT
1 GTTTATCCGACTAGCGCTGGGCGCAAATATCGTTGGTATATCCAACTAGAGCTGGGCTCACTATT
* *
36296266 TATTCGTCG
66 TATTCTTCA
** * *
36296275 GTTTATCTTACTAGTGCTCGGCGCAA
1 GTTTATCCGACTAGCGCTGGGCGCAA
36296301 CTTCCGTCAG
Statistics
Matches: 154, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 154 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (74 bp):
GTTTATCCGACTAGCGCTGGGCGCAAATATCGTTGGTATATCCAACTAGAGCTGGGCTCACTATT
TATTCTTCA
Found at i:36297767 original size:22 final size:22
Alignment explanation
Indices: 36297724--36297788 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
36297714 CCTTTTTGAA
*
36297724 CCATTTCCATTTTCGTACCAAAT
1 CCATTACCA-TTTCGTACCAAAT
**
36297747 CCATTACCATTTCGTTTCAAAT
1 CCATTACCATTTCGTACCAAAT
* * *
36297769 CCCTTACCGTTTCATACCAA
1 CCATTACCATTTCGTACCAA
36297789 TTCCCAAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 26 0.76
23 8 0.24
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (22 bp):
CCATTACCATTTCGTACCAAAT
Found at i:36311510 original size:22 final size:22
Alignment explanation
Indices: 36311485--36311528 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
36311475 ACTACAAGTT
36311485 CTTTATTAAAAATGCAAATAAG
1 CTTTATTAAAAATGCAAATAAG
* *
36311507 CTTTATTTAAAATGTAAATAAG
1 CTTTATTAAAAATGCAAATAAG
36311529 AAAGACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
CTTTATTAAAAATGCAAATAAG
Found at i:36320354 original size:20 final size:20
Alignment explanation
Indices: 36320322--36320370 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
36320312 ATTGTAATTG
*
36320322 AAAAAAAGGAAATT-ACGAA-
1 AAAAAAAGAAAATTGA-GAAT
36320341 AAAAAAAGTAAAATTGAGAAT
1 AAAAAAAG-AAAATTGAGAAT
36320362 AAAAAAAGA
1 AAAAAAAGA
36320371 GTACGAAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 8 0.31
20 9 0.35
21 9 0.35
ACGTcount: A:0.71, C:0.02, G:0.14, T:0.12
Consensus pattern (20 bp):
AAAAAAAGAAAATTGAGAAT
Found at i:36321859 original size:24 final size:25
Alignment explanation
Indices: 36321797--36321863 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
36321787 AAAATTCTGT
*
36321797 AGAACAAATGAAAGAAAAAGAAAAAAG
1 AGAACACA-GAAAG-AAAAGAAAAAAG
*
36321824 AGAACACA-AAAGAAAAGAAAAATG
1 AGAACACAGAAAGAAAAGAAAAAAG
*
36321848 AGAAGA-AGAAAGAAAA
1 AGAACACAGAAAGAAAA
36321864 ATCAAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 1 0.03
24 24 0.67
25 4 0.11
27 7 0.19
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.03
Consensus pattern (25 bp):
AGAACACAGAAAGAAAAGAAAAAAG
Found at i:36321875 original size:19 final size:19
Alignment explanation
Indices: 36321831--36321875 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
36321821 AAGAGAACAC
* *
36321831 AAAAGAAAAGAAAAATGAGA
1 AAAAG-AAAGAAAAATCAAA
*
36321851 AGAAGAAAGAAAAATCAAA
1 AAAAGAAAGAAAAATCAAA
36321870 AAAAGA
1 AAAAGA
36321876 GAGTGAAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (19 bp):
AAAAGAAAGAAAAATCAAA
Found at i:36322592 original size:14 final size:14
Alignment explanation
Indices: 36322573--36322600 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36322563 AGAAATAAAT
36322573 AAATAAAATAAACC
1 AAATAAAATAAACC
36322587 AAATAAAATAAACC
1 AAATAAAATAAACC
36322601 TAAAATCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (14 bp):
AAATAAAATAAACC
Found at i:36336856 original size:44 final size:46
Alignment explanation
Indices: 36336808--36337016 Score: 125
Period size: 44 Copynumber: 4.5 Consensus size: 46
36336798 AAATTACAAG
36336808 TCTTATCTCCCTGAGATTACAGTGGAGCGA-ATTAAAATAAAG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCGAGATTAAAATAAAGAGA
* * ***
36336852 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCACCGGATT-GAAGCCAGAGA
1 TCTTATCTCCCTGAGA-TTACAGT-G-G-AG--CG-A---GATTAAAATAAAGAGA
* **
36336906 TCTTATCTCCCTGAGATTACAGCGGAGC-AGATTGAAGCT--AGTA-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCGAGATT-AAAATAAAG-AGA
* *
36336950 TCCTATCTCCCTGAGATTACAGTGGAGTG-GATTAAAATAAAG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCGAGATTAAAATAAAGAGA
*
36336994 TCTTATCTCTCTGA-AGTTACAGT
1 TCTTATCTCCCTGAGA-TTACAGT
36337017 AGAGTAGATC
Statistics
Matches: 126, Mismatches: 18, Indels: 42
0.68 0.10 0.23
Matches are distributed among these distances:
43 5 0.04
44 76 0.60
45 4 0.03
46 1 0.01
47 3 0.02
49 3 0.02
50 1 0.01
51 2 0.02
52 1 0.01
53 5 0.04
54 24 0.19
55 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (46 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCGAGATTAAAATAAAGAGA
Found at i:36337160 original size:141 final size:142
Alignment explanation
Indices: 36336811--36337182 Score: 647
Period size: 142 Copynumber: 2.6 Consensus size: 142
36336801 TTACAAGTCT
*
36336811 TATCTCCCTGAGATTACAGTGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* * * *
36336876 GAGTAGATCGCACCGGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
66 GAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGA
36336941 AGCTAGTAATCC
131 AGCTAGTAATCC
*
36336953 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* *
36337018 GAGTAGATCGCATCAGATTGAATCCAGAAATCTTATCTCCCTGAGATTTCAGC-GAGCAAATTGA
66 GAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGA
36337082 AGCTAGTAATCC
131 AGCTAGTAATCC
* *
36337094 TATCTCCCTGAGATTACTGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
36337159 GAGTAGATCGCATCAGATTGAAGC
66 GAGTAGATCGCATCAGATTGAAGC
36337183 TACAACAGCA
Statistics
Matches: 218, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
141 107 0.49
142 111 0.51
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (142 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
GAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGA
AGCTAGTAATCC
Found at i:36351183 original size:27 final size:27
Alignment explanation
Indices: 36351143--36351213 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
36351133 CGTTCTGACC
*
36351143 CACAACTCGCGTGAGCAGGCCCATTTT
1 CACAACTCGTGTGAGCAGGCCCATTTT
*
36351170 CACAACTCATGTGAGCAGGCCCATTTT
1 CACAACTCGTGTGAGCAGGCCCATTTT
36351197 CACAACTCGTGTGAGCA
1 CACAACTCGTGTGAGCA
36351214 TTTTGATTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (27 bp):
CACAACTCGTGTGAGCAGGCCCATTTT
Found at i:36354911 original size:27 final size:27
Alignment explanation
Indices: 36354893--36354990 Score: 169
Period size: 27 Copynumber: 3.6 Consensus size: 27
36354883 GGTATAACAA
*
36354893 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
36354920 TCATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
*
36354947 CCATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
*
36354974 CCATTTTACCCTATAGG
1 TCATTTTACCCTATAGG
36354991 TGTAACACCC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGG
Found at i:36354937 original size:54 final size:54
Alignment explanation
Indices: 36354879--36354990 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
36354869 TTTCATCACC
* * *
36354879 TAGGGGTATAACAATCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTA
1 TAGGGGTATAACAACCATTTTACCCTATAGGGGTATTTCGGCCATTTTACCCTA
** **
36354933 TAGGGGTATTTCGGCCATTTTACCCTATAGGGGTATTTCGGCCATTTTACCCTA
1 TAGGGGTATAACAACCATTTTACCCTATAGGGGTATTTCGGCCATTTTACCCTA
36354987 TAGG
1 TAGG
36354991 TGTAACACCC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (54 bp):
TAGGGGTATAACAACCATTTTACCCTATAGGGGTATTTCGGCCATTTTACCCTA
Found at i:36362025 original size:27 final size:27
Alignment explanation
Indices: 36361995--36362178 Score: 217
Period size: 27 Copynumber: 6.8 Consensus size: 27
36361985 TGTTACAATA
* ** *
36361995 GGGGTATTTCGATCATTTTACTTTGTG
1 GGGGTATTTCGGTCATTTTACCCTATG
** *
36362022 GGGGTATTTCAATCATTCTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
36362049 GGGGTATTTCGGTCATTCTACCCTATT
1 GGGGTATTTCGGTCATTTTACCCTATG
*
36362076 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* *
36362103 GGGGTATTTTGGTCATTCTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
36362130 GGGGTATATT-GGTCATTTTACCCTATA
1 GGGGTAT-TTCGGTCATTTTACCCTATG
* *
36362157 AGGGTATTTCGATCATTTTACC
1 GGGGTATTTCGGTCATTTTACC
36362179 TATTTTGGGG
Statistics
Matches: 139, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 135 0.97
28 2 0.01
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTTACCCTATG
Found at i:36362130 original size:81 final size:81
Alignment explanation
Indices: 36361992--36362178 Score: 259
Period size: 81 Copynumber: 2.3 Consensus size: 81
36361982 GGTTGTTACA
** *
36361992 ATAGGGGTATTTCGATCATTTTACTTTGTGGGGGTATTTCAATCATTCTACCCTATGGGGGTAT-
1 ATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCAATCATTCTACCCTATGGGGGTATA
36362056 TTCGGTCATTCTACCCT
66 TT-GGTCATTCTACCCT
* * * ***
36362073 ATTGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTTGGTCATTCTACCCTATGGGGGTATA
1 ATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCAATCATTCTACCCTATGGGGGTATA
*
36362138 TTGGTCATTTTACCCT
66 TTGGTCATTCTACCCT
*
36362154 ATAAGGGTATTTCGATCATTTTACC
1 ATAGGGGTATTTCGATCATTTTACC
36362179 TATTTTGGGG
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 89 0.98
82 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (81 bp):
ATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCAATCATTCTACCCTATGGGGGTATA
TTGGTCATTCTACCCT
Found at i:36363158 original size:14 final size:15
Alignment explanation
Indices: 36363121--36363159 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
36363111 AGTAGATGAG
36363121 AGAAAAGAAGCAACAA
1 AGAAAAG-AGCAACAA
36363137 AGAAAAGAGCAA-AA
1 AGAAAAGAGCAACAA
*
36363151 AGAGAAGAG
1 AGAAAAGAG
36363160 AATTCGGCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 5 0.23
16 7 0.32
ACGTcount: A:0.67, C:0.08, G:0.26, T:0.00
Consensus pattern (15 bp):
AGAAAAGAGCAACAA
Found at i:36368437 original size:16 final size:16
Alignment explanation
Indices: 36368416--36368455 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
36368406 TATGAAGGAC
36368416 TACCTTGGCGGACGAA
1 TACCTTGGCGGACGAA
36368432 TACCTTGGCGGACGAA
1 TACCTTGGCGGACGAA
36368448 TACCTTGG
1 TACCTTGG
36368456 TGCATATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (16 bp):
TACCTTGGCGGACGAA
Found at i:36369273 original size:11 final size:10
Alignment explanation
Indices: 36369257--36369284 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
36369247 TCCTCTTCTG
36369257 TTTTTTTCAA
1 TTTTTTTCAA
36369267 TTTTTTTCAA
1 TTTTTTTCAA
36369277 TTTTTTTC
1 TTTTTTTC
36369285 TTCCGAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTTTTCAA
Found at i:36379198 original size:21 final size:21
Alignment explanation
Indices: 36379173--36379212 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36379163 TATTCATGCT
36379173 CTTTTTCAAAAAATAAATTTA
1 CTTTTTCAAAAAATAAATTTA
**
36379194 CTTTTTTTAAAAATAAATT
1 CTTTTTCAAAAAATAAATT
36379213 AATTTTCGTG
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:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (21 bp):
CTTTTTCAAAAAATAAATTTA
Found at i:36379218 original size:20 final size:20
Alignment explanation
Indices: 36379181--36379241 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
36379171 CTCTTTTTCA
* *
36379181 AAAAATAAATTTACTTTTTTT
1 AAAAATAAA-TTAATTTTTTG
*
36379202 AAAAATAAATTAATTTTCGTG
1 AAAAATAAATTAATTTT-TTG
*
36379223 AAAAAT-AATTTATTTTTTG
1 AAAAATAAATTAATTTTTTG
36379242 TTGACAAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.06
20 16 0.47
21 16 0.47
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (20 bp):
AAAAATAAATTAATTTTTTG
Found at i:36379527 original size:20 final size:20
Alignment explanation
Indices: 36379501--36379553 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
36379491 ATGTGCTAAT
36379501 AATTTTTGGTACTCCCTC-A
1 AATTTTTGGTACTCCCTCTA
* *
36379520 AATATTTTGGTATTCCTTCTA
1 AAT-TTTTGGTACTCCCTCTA
36379541 AATTTTTGGTACT
1 AATTTTTGGTACT
36379554 TTTTTATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.10
20 22 0.76
21 4 0.14
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (20 bp):
AATTTTTGGTACTCCCTCTA
Found at i:36379983 original size:20 final size:20
Alignment explanation
Indices: 36379958--36380202 Score: 83
Period size: 20 Copynumber: 12.6 Consensus size: 20
36379948 ATGATATTCT
36379958 CTCATAATTTTTTATACTTC
1 CTCATAATTTTTTATACTTC
*
36379978 CTCAT-A--TTTT-TACATC
1 CTCATAATTTTTTATACTTC
* *
36379994 CTCAT-ATTTTTTGGTACTTT
1 CTCATAATTTTTT-ATACTTC
* *
36380014 CTCATATTTTTTTCGGTA-TTC
1 CTCATAATTTTTT--ATACTTC
* *
36380035 CTTCATAATTTTTTTTATTTC
1 C-TCATAATTTTTTATACTTC
**
36380056 CTCAT-A-TTTTGGTACATT-
1 CTCATAATTTTTTATAC-TTC
* * ** *
36380074 CTTATAAATTTTGGTACATC
1 CTCATAATTTTTTATACTTC
36380094 CTC---ATTTTTTATACTTC
1 CTCATAATTTTTTATACTTC
** **
36380111 CTCA-GGTTTTATGGTA-TT-
1 CTCATAATTTT-TTATACTTC
36380129 CTCATAATTTTTTTATACTTC
1 CTCATAA-TTTTTTATACTTC
36380150 CTCAT-ATATTTTTAGTA-TTC
1 CTCATAAT-TTTTTA-TACTTC
* *
36380170 TCTCATAACTTTTTATACATC
1 -CTCATAATTTTTTATACTTC
* *
36380191 TTCAAAATTTTT
1 CTCATAATTTTT
36380203 GGTGCATCCT
Statistics
Matches: 172, Mismatches: 29, Indels: 48
0.69 0.12 0.19
Matches are distributed among these distances:
16 11 0.06
17 17 0.10
18 18 0.10
19 16 0.09
20 61 0.35
21 33 0.19
22 16 0.09
ACGTcount: A:0.22, C:0.18, G:0.05, T:0.55
Consensus pattern (20 bp):
CTCATAATTTTTTATACTTC
Found at i:36380101 original size:78 final size:77
Alignment explanation
Indices: 36379959--36380103 Score: 184
Period size: 78 Copynumber: 1.9 Consensus size: 77
36379949 TGATATTCTC
** * *
36379959 TCATAATTTTTTATACTTCCTCATATTTTTACATCCTCATATTTTTTGGTACTTTCTCATATTTT
1 TCATAATTTTTTATACTTCCTCATATTTTTACATCCTCATAAATTTTGGTACATCCTCA-ATTTT
36380024 TTTCGGTATTCCT
65 TTTCGGTATTCCT
* * * *
36380037 TCATAATTTTTTTTATTTCCTCATATTTTGGTACATTCTTATAAATTTTGGTACATCCTC-ATTT
1 TCATAATTTTTTATACTTCCTCATATTTT--TACATCCTCATAAATTTTGGTACATCCTCAATTT
36380101 TTT
64 TTT
36380104 ATACTTCCTC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
78 34 0.60
80 23 0.40
ACGTcount: A:0.21, C:0.17, G:0.06, T:0.57
Consensus pattern (77 bp):
TCATAATTTTTTATACTTCCTCATATTTTTACATCCTCATAAATTTTGGTACATCCTCAATTTTT
TTCGGTATTCCT
Found at i:36380153 original size:21 final size:21
Alignment explanation
Indices: 36380129--36380202 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
36380119 TTATGGTATT
36380129 CTCATAATTTTTTTATACTTC
1 CTCATAATTTTTTTATACTTC
*
36380150 CTCAT-ATATTTTTAGTA-TTC
1 CTCATAATTTTTTTA-TACTTC
* *
36380170 TCTCATAA-CTTTTTATACATC
1 -CTCATAATTTTTTTATACTTC
* *
36380191 TTCAAAATTTTT
1 CTCATAATTTTT
36380203 GGTGCATCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
20 18 0.43
21 23 0.55
22 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.01, T:0.54
Consensus pattern (21 bp):
CTCATAATTTTTTTATACTTC
Found at i:36380176 original size:42 final size:38
Alignment explanation
Indices: 36380097--36380187 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 38
36380087 GTACATCCTC
* *
36380097 ATTTTTTATACTTCCTCAGGTTTTATGGTATTCTCATA
1 ATTTTTTATACTTCCTCAGATTTTATAGTATTCTCATA
* *
36380135 ATTTTTTTATACTTCCTCATATATTTTTAGTATTCTCTCATA
1 A-TTTTTTATACTTCCTCAGAT-TTTATAGTA-T-TCTCATA
*
36380177 ACTTTTTATAC
1 ATTTTTTATAC
36380188 ATCTTCAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
38 1 0.02
39 18 0.41
40 7 0.16
41 10 0.23
42 8 0.18
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.55
Consensus pattern (38 bp):
ATTTTTTATACTTCCTCAGATTTTATAGTATTCTCATA
Found at i:36380233 original size:20 final size:20
Alignment explanation
Indices: 36380210--36380262 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
36380200 TTTGGTGCAT
36380210 CCTCATATTTTTTTGGTA-TC
1 CCTCATATTTTTTT-GTATTC
*
36380230 CCTCATAATGTTTTTGTATTC
1 CCTCAT-ATTTTTTTGTATTC
*
36380251 GCTCATATTTTT
1 CCTCATATTTTT
36380263 GGTACTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.17, C:0.19, G:0.09, T:0.55
Consensus pattern (20 bp):
CCTCATATTTTTTTGTATTC
Found at i:36380323 original size:36 final size:39
Alignment explanation
Indices: 36380283--36380361 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
36380273 TTTGGTATTC
*
36380283 CCTCATAA-TTTTT-TATACATC-TAAGTTTTGATACTT
1 CCTCATAACTTTTTGTATACATCATAAGTTTTGATAATT
* * *
36380319 CCTCATAACTTTTTGTATTCATCATAATTTTTGGTAATT
1 CCTCATAACTTTTTGTATACATCATAAGTTTTGATAATT
36380358 CCTC
1 CCTC
36380362 GTATTTTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 8 0.22
37 5 0.14
38 7 0.19
39 16 0.44
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.49
Consensus pattern (39 bp):
CCTCATAACTTTTTGTATACATCATAAGTTTTGATAATT
Found at i:36380421 original size:20 final size:20
Alignment explanation
Indices: 36380304--36380421 Score: 71
Period size: 20 Copynumber: 5.9 Consensus size: 20
36380294 TTTATACATC
*
36380304 TAAGTTTTGATACTTCCTCA
1 TAAGTTTTGGTACTTCCTCA
* * *
36380324 TAACTTTTTGTA-TTCATCA
1 TAAGTTTTGGTACTTCCTCA
* * *
36380343 TAATTTTTGGTAATTCCTCG
1 TAAGTTTTGGTACTTCCTCA
* * *
36380363 T-ATTTTATGGTATTTTCTCA
1 TAAGTTT-TGGTACTTCCTCA
** *
36380383 TAA-TTTTTTTATGCATCCTCA
1 TAAGTTTTGGTA--CTTCCTCA
36380404 TAAGTTTTGGTACTTCCT
1 TAAGTTTTGGTACTTCCT
36380422 TATACTTCTT
Statistics
Matches: 73, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
19 24 0.33
20 34 0.47
21 9 0.12
22 6 0.08
ACGTcount: A:0.22, C:0.16, G:0.10, T:0.52
Consensus pattern (20 bp):
TAAGTTTTGGTACTTCCTCA
Found at i:36380442 original size:30 final size:30
Alignment explanation
Indices: 36380408--36380469 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
36380398 TCCTCATAAG
*
36380408 TTTTGGTACTTCCTTATACTTCTTTG-TATT
1 TTTTGGTACTTCCTTATAATTC-TTGATATT
*
36380438 TTTTGGTACTTTCTTATAATTCTTGATATT
1 TTTTGGTACTTCCTTATAATTCTTGATATT
36380468 TT
1 TT
36380470 ATCATATTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 3 0.10
30 26 0.90
ACGTcount: A:0.16, C:0.13, G:0.10, T:0.61
Consensus pattern (30 bp):
TTTTGGTACTTCCTTATAATTCTTGATATT
Found at i:36380833 original size:41 final size:41
Alignment explanation
Indices: 36380774--36380851 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
36380764 TACTTCTTCA
*
36380774 TTTTTTGGTGTTTCCTCATAATTTTTGGTACTCCCTTGGAT
1 TTTTTTGGTCTTTCCTCATAATTTTTGGTACTCCCTTGGAT
36380815 TTTTTTGGTACTTT-CTCATAATTTTTGGTACTCCCTT
1 TTTTTTGGT-CTTTCCTCATAATTTTTGGTACTCCCTT
36380852 ATATTTTGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
41 32 0.91
42 3 0.09
ACGTcount: A:0.13, C:0.18, G:0.14, T:0.55
Consensus pattern (41 bp):
TTTTTTGGTCTTTCCTCATAATTTTTGGTACTCCCTTGGAT
Found at i:36382671 original size:13 final size:13
Alignment explanation
Indices: 36382655--36382689 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
36382645 TTTAAACAAA
*
36382655 TTAATTAACTTAT
1 TTAATTAACTAAT
36382668 TTAATTAACTAAT
1 TTAATTAACTAAT
*
36382681 TTAACTAAC
1 TTAATTAAC
36382690 AGCAACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAACTAAT
Found at i:36384524 original size:18 final size:18
Alignment explanation
Indices: 36384503--36384562 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
36384493 AACCTCACTC
36384503 TCTTTTTTGATTTCTTTT
1 TCTTTTTTGATTTCTTTT
** *
36384521 TCTTTTTCAATCTCTTTT
1 TCTTTTTTGATTTCTTTT
36384539 TCTTTTCTTTCGATTTCTTTT
1 TC-TTT-TTT-GATTTCTTTT
36384560 TCT
1 TCT
36384563 CGCTCGCACT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 17 0.52
19 3 0.09
20 3 0.09
21 10 0.30
ACGTcount: A:0.07, C:0.18, G:0.03, T:0.72
Consensus pattern (18 bp):
TCTTTTTTGATTTCTTTT
Found at i:36385510 original size:11 final size:11
Alignment explanation
Indices: 36385494--36385532 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
36385484 TTTATACTTC
36385494 GAATTTTTTTT
1 GAATTTTTTTT
36385505 GAATTTTTTTT
1 GAATTTTTTTT
36385516 CG-ATTTTTTTT
1 -GAATTTTTTTT
*
36385527 TAATTT
1 GAATTT
36385533 CCTCTTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 24 0.96
12 1 0.04
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.72
Consensus pattern (11 bp):
GAATTTTTTTT
Found at i:36387341 original size:13 final size:13
Alignment explanation
Indices: 36387325--36387359 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
36387315 TTTAAACAAA
*
36387325 TTAATTAACTTAT
1 TTAATTAACTAAT
36387338 TTAATTAACTAAT
1 TTAATTAACTAAT
*
36387351 TTAACTAAC
1 TTAATTAAC
36387360 AGCAACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAACTAAT
Found at i:36388141 original size:31 final size:31
Alignment explanation
Indices: 36388098--36388156 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
36388088 GTGGAGATAG
*
36388098 AGCCCACTTTTATGTTTCATAGCCTTAATAC
1 AGCCAACTTTTATGTTTCATAGCCTTAATAC
36388129 AGCCAACTTTTATGTTTCATAGCCTTAA
1 AGCCAACTTTTATGTTTCATAGCCTTAA
36388157 GTGCCAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (31 bp):
AGCCAACTTTTATGTTTCATAGCCTTAATAC
Found at i:36389122 original size:247 final size:246
Alignment explanation
Indices: 36388676--36389409 Score: 1112
Period size: 247 Copynumber: 3.0 Consensus size: 246
36388666 GATGTTTAAT
* * ** * * *
36388676 ATTGAAGTGATGGATGCATGTTAAAGTGGTATGTGATTAAGTATGTGGAATGCCCTGTTTTGCTA
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTAAGTATACGGAATGCCCTATTCTGCTT
* * ** *
36388741 GAAATTTTT-CGGAATTATACAGAGGTATTGATAATCGGGGCATATGCATCGATACTTCTGAGTT
66 G-AATTTTTACAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTT
* * * * * * * * *
36388805 GAAACGAATGTGCAGGAAACAATCGATCATTTTGGTATTGATACCAGTTCTCGAGTATTGATACT
130 GAAACAAATGT-CAGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAGTATCGATACT
*
36388870 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGGTAAATTACTGGGTTTTG
194 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTGGGTTTTG
*
36388923 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATACGGAATGCCCTATTCTGCTT
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTAAGTATACGGAATGCCCTATTCTGCTT
* *
36388988 GAATTTTTACAGAATTGTACAGAGGTATTGATAACCAGGGCATATATATCTATACTTCTGAGTTG
66 GAATTTTTACAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTTG
* * *
36389053 AAACAAATGTCTAGGAAATAGTTTCTTATTTTGGTATCGATACCAGTTCCCGAGTATCGATAGTC
131 AAACAAATGTC-AGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAGTATCGATACTC
*
36389118 GGGGTAAAAATATAGATAATTTTGAATTGTATCGATAAATTACTGGGTTTTG
195 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTGGGTTTTG
* *
36389170 ACTGAAGTTATGGATGCATGTTGAAGGGGTATGTGATTAAGTATACGGAATGCCCTATTCTGCTT
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTAAGTATACGGAATGCCCTATTCTGCTT
36389235 GAATTTTTACAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTTG
66 GAATTTTTACAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTTG
* *
36389300 AAACAAATGTCCAGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAATGTCGATACTC
131 AAACAAATGT-CAGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAGTATCGATACTC
36389365 GGGGTAAAAATATAGATACTTTTGAATTGTATTC-ATAAATTACTG
195 GGGGTAAAAATATAGATACTTTTGAATTGTA-TCGATAAATTACTG
36389410 AATTTTAGAT
Statistics
Matches: 444, Mismatches: 39, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
246 8 0.02
247 433 0.98
248 3 0.01
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (246 bp):
ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTAAGTATACGGAATGCCCTATTCTGCTT
GAATTTTTACAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTTG
AAACAAATGTCAGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAGTATCGATACTCG
GGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTGGGTTTTG
Found at i:36391668 original size:713 final size:712
Alignment explanation
Indices: 36389172--36396495 Score: 7813
Period size: 712 Copynumber: 10.5 Consensus size: 712
36389162 GGGTTTTGAC
* * ** * *
36389172 TGAAGTTATGGATGCATGTTGAAGGGGTATGTGATTAAGTATACGGAATGCCCTATTCTGCTTGA
1 TGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTAGA
* * * * *
36389237 ATTTTTACAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTTGAA
66 ATTTTTGCAGAATTATACAGAGGTATCGATAATCGGGGCATATGTATCGATACTTCTGAGTTGAA
* * * * * * * * *
36389302 ACAAATGTCCAGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAATGTCGATACTCGG
131 ACGAATGTGCAGGAAACAGTCGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACTCGG
**
36389367 GGTAAAAATATAGATACTTTTGAATTGTATTC-ATAAATT-ACTGAATTTT-AGATTTTGAAGAA
196 GGTAAAAATATAGATACTTTTGAATTGTA-TCGATAAATTGA-TGGGTTTTGA-ATTTTGAAGAA
* * * * *
36389429 GATCAGAATGTTAAAAAGGTTTCGGTTTTCCAAACAGTATCGGTACCTATTTATAGAAATATCGA
258 AATCAGAATGTTAAAAAGGTTTCGATTTTCCAAACGGTATCGATACCCATTT-TAGAAATATCGA
*
36389494 TTCTCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTGTTGGTAGTTTTTTCCCAATCAT
322 TTC-CATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCAATCAT
* * * * * *
36389559 TCCCTAAGTTTGTTTAAGCTCACACACTCTTTTTTTAACCTTTGCAGATAGTTAGTGTTTTCGGT
386 TCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGTAGATAGTTAGTGTTTCCGGT
* *
36389624 GTGGGCAGTGCGGAATTCTAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTA
451 GTGGGCAGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTA
* ** *
36389689 TTGCTATTAGTTTTT-AACTCTGGGAATAAGACAATGTGGTAGAATAATTGGTTGATTATTCTCA
516 TTGCTATTA-TTTTTGAACTGTGGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCA
* *
36389753 TGATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTTGTGGACGTTGCTATTAGTTTAT
580 TGATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTAT
* *
36389818 TGGCTTGCTTGGTTGAAATTATTTATATTGCTATAGACTGCAAATATGGACATTTTGATGTTTAA
645 TGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTTAA
36389883 TAT
710 TAT
* * * * *
36389886 TGAAGTGATGGATGAATGTTAAAGTGGAATGTGATTGAGTATGTGGAATGCCCTGTTTTGCTAGA
1 TGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTAGA
* * * *
36389951 ATTTTTGCGGAATTATACAGAGGTATTGATAATCGAGGCATATGCATCGATACTTCTGAGTTGAA
66 ATTTTTGCAGAATTATACAGAGGTATCGATAATCGGGGCATATGTATCGATACTTCTGAGTTGAA
* * *
36390016 ACGAATGTGCAGGAAACAATCGCTCATTTTGGTATTGATACCAGTTCTCGAGTATCGATACTCGG
131 ACGAATGTGCAGGAAACAGTCGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACTCGG
*
36390081 GGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTT-AGATTTTAAAGAAAA
196 GGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTGA-ATTTTGAAGAAAA
* * *
36390145 -CTAGAATGTTAAAAAGGTTTTGGTTTTCCAAACAGTATCGATACCCATTTTGAGAAATATCGAT
260 TC-AGAATGTTAAAAAGGTTTCGATTTTCCAAACGGTATCGATACCCATTTT-AGAAATATCGAT
* * * * *
36390209 TCCCATTTACATGTTCTTATTTAAAGTATGTTATCATGTTTATCGGTAGTTTTTTCCCAATCATT
323 T-CCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCAATCATT
* *
36390274 CACTAAGCTTGTTTAACCTCACACACTCTTTTCTGAACCTTTGCT-GATAGTTAGTGTTTCCGAT
387 CACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTG-TAGATAGTTAGTGTTTCCGGT
* * * * * *
36390338 TTGGGAAATGCAAAATTCCAAAGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTATGTGATATTA
451 GTGGGCAGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTA
* * *
36390403 TT-CTATTATTTTTGAACTATAGGAATAAAACAATGTGGTAGAATTGTTGGTTGATTATTATCAT
516 TTGCTATTATTTTTGAACTGTGGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCAT
* * * *
36390467 GA-TGTTTAAATGATTATTTTGATTTTAACACTCTTAGGTTCCTGGATGTTGTTATTAGTTTATT
581 GATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTATT
* * * *
36390531 GGTTTGCTTGGTTGAAATTATTCATATTGCTATGGATTTCAAATATGGACATTTTGATGTTGAAT
646 GGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTTAAT
36390596 AT
711 AT
*
36390598 TGAAGTTACT-GATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTGG
1 TGAAGTTA-TGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTAG
* * * * * * *
36390662 AATTTTTGCAAAATTATACAGAGGTACCGATAATCAGAGCATACGTATCGATACTTTTGAATTGA
65 AATTTTTGCAGAATTATACAGAGGTATCGATAATCGGGGCATATGTATCGATACTTCTGAGTTGA
** * * * * *
36390727 AAC-AATTGTGCAATAAACAGTAGCACTTTTTGGTATCGATACCAATTCTCGAGTATTGATACTT
130 AACGAA-TGTGCAGGAAACAGTCGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACTC
* * * * *
36390791 GGGGTAAAAATATAGATACTTTTGAATTATATCGATAAATTGGTGGATTTTGGATTTTGAAGAAG
194 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTGAATTTTGAAGAAA
* * * * * *
36390856 ATCAAAATGTTAAAAAGGTTTCAATTTTCCAAATGGTATTGATACCAATTTATAAAAATATCGAT
259 ATCAGAATGTTAAAAAGGTTTCGATTTTCCAAACGGTATCGATACCCATTT-TAGAAATATCGAT
* * *
36390921 TCCCATTTAGATGTTCTCATTTAATGTATGATATCATATTTGTTGGTAG-TTTTTCCCTATCATT
323 T-CCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCAATCATT
* * *
36390985 CCCTAAGCTTGTTTAAGGTCACACACTCTTTTATGAACCTTTGTAGATAGTTAGTGTTTCCGGTG
387 CACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGTAGATAGTTAGTGTTTCCGGTG
*
36391050 TGGGCAGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTAT
452 TGGGCAGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTAT
* * *
36391115 TGCTATTAGTTTTT-AACTGTGGGAATAAGAAAATGTGGTAAAATTGTTGGTTGATTATTAACAT
517 TGCTATTA-TTTTTGAACTGTGGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCAT
* * *
36391179 GATTTTTTAAATGATTATTTTGCTTTTAATACTCTTAGGTTCGTGGACGTTGCT-TTAGTTCATT
581 GATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTATT
* * *
36391243 GGCTTGCTTGGTTGAAATTATTTATATTGTTATGGACTGCAAATATGAACATTTTGATGTTTAAT
646 GGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTTAAT
36391308 AT
711 AT
* * * *
36391310 TGAAGTGATGGATGCATGTTAAAGTGGTATGTGATTGAGTATGTAGAATGCTCTATTTTGCTAGA
1 TGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTAGA
* * * *
36391375 ATTTTTGCAGAATTATATAGAGGTATTGATAATCGGGGGCATATGCATCGATACTTCTAAGTTGA
66 ATTTTTGCAGAATTATACAGAGGTATCGATAATC-GGGGCATATGTATCGATACTTCTGAGTTGA
* * *
36391440 AACGAATGTGCAGGAAACAATCACTCATTTTGGTATCGATACCAGTTCTCGAGTATCGATACTCG
130 AACGAATGTGCAGGAAACAGTCGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACTCG
* *
36391505 GGGTAAAAATATAAATACTTTTGAATTGTATCGATAAATTGATGGGTTTTGAATTTTGTAGAAAA
195 GGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTGAATTTTGAAGAAAA
* * * * *
36391570 TCAAAATGTTAAAAAGGTTCCGATTTTCCAAACGGTATCGAAACCCATTTTGAGAAATATTGGTT
260 TCAGAATGTTAAAAAGGTTTCGATTTTCCAAACGGTATCGATACCCATTTT-AGAAATATCGATT
*
36391635 CCAGTTTAGATGTTCTCATTTAATGCT-TGATATCATGTTTATTGGTAG-TTTTTCCCGATCATT
324 CCA-TTTAGATGTTCTCATTTAATG-TATGATATCATGTTTATTGGTAGTTTTTTCCCAATCATT
* * * * * * *
36391698 CACTAAGCTTGTATAAGCTCATACACTCTTTTCTGAACCTTTGCACATTGTTAGTATTTTCGGTG
387 CACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGTAGATAGTTAGTGTTTCCGGTG
* * * * * *
36391763 TGGGCGGTACAAAATTCCAAGGAAGTGATCGAAGTTAGGCTTTGTGTTTGAATAGGTGATATTAT
452 TGGGCAGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTAT
* *
36391828 TGCTATTATTTTTGAACTGTAGGAATAAGACAATGTGGTTGAATTGTTGGTTGATTATTATCATG
517 TGCTATTATTTTTGAACTGTGGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCATG
* *
36391893 ATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGCTATTAGTTTA-TC
582 ATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTATTG
* * * * *
36391957 GTTTCCTTGGTTGAAGTTATTGATATTGCTATGGACTACATAA-ATGGACATTTTGATGTTTAAG
647 GTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCA-AATATGGACATTTTGATGTTTAAT
36392021 AT
711 AT
* * * * * * * *
36392023 TGAAGTTATAGATGCATATTGACGTGGTATGTGATTGGGTATATGAAATGTCCTGTTTTGCTAGA
1 TGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTAGA
* * * * *
36392088 ATTTTTGTATAATTATACAGAGGTATCGATAATCAGGGG-ACATGTATCGATACTTCTAAGTTGG
66 ATTTTTGCAGAATTATACAGAGGTATCGATAATC-GGGGCATATGTATCGATACTTCTGAGTTGA
* * * * *
36392152 AACAAATGTGTAGGAAA-TGGCTGCTCATTTTGGTATCGATACCAGTTCTTGAGTATTGATACTC
130 AACGAATGTGCAGGAAACAGTC-GCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACTC
* * * * *
36392216 GGGGTAAAAATATAGATAGTTTTGAATTATATTGATAAATTGATGAGTTTTGGATTTTGAA-AAA
194 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTGAATTTTGAAGAAA
* *
36392280 GATCAGAATGTTAAAAAGG-TTCTGATTTTCCAAACGGTGTCGATACCCATTTATAGAAATACCG
259 -ATCAGAATGTTAAAAAGGTTTC-GATTTTCCAAACGGTATCGATACCCATTT-TAGAAATATCG
* *
36392344 ATTCTCATTTAGATGTTCTCATTTAATGTATGATATGATGTTTATTGGTAGTTTTTTCCCGATCA
321 ATTC-CATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCAATCA
* * *
36392409 TTCACTAAACTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCA-AGTAATTAGTGTTTCCG
385 TTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGTAGA-TAGTTAGTGTTTCCG
* *
36392473 GTGTGGGCGGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTAATAT
449 GTGTGGGCAGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATAT
*
36392538 TATTGCTATTATTTTTGAACTGTGGGAATAAGACAATGTTGTAGAATTGTTGGTTGATTATTATC
514 TATTGCTATTATTTTTGAACTGTGGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATC
* * *
36392603 ------------ATGATTATTTTAATTTTAATAATCTTAGGTTCGTGGATGTTGTTATTAGTTTA
579 ATGATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTA
* * * * * * * * *
36392656 TTGGTTTTCTTTGTTGAAATTATTCATATTGCTATAGATTTCAAATATAGACATTTTGATATTGA
644 TTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTTA
36392721 ATAT
709 ATAT
* * *
36392725 TGAAGTTACT-GATGCATGTTAAAGTGGTATGTGATTGAGTATGTGGAATGCCCTGTTTTGCTGG
1 TGAAGTTA-TGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTAG
* * *
36392789 AATTTTTGCAGAATTATACAGAGGTATCGATAATCAGGGCATACGTATCAATACTTCTGAGTTGA
65 AATTTTTGCAGAATTATACAGAGGTATCGATAATCGGGGCATATGTATCGATACTTCTGAGTTGA
* * * * * * *
36392854 AAC-AATTGTGCAAGAAATAGTAGCTCTTTTTGGTATTGA-ATCTAATTCTCGAGTATTGATACT
130 AACGAA-TGTGCAGGAAACAGTCGCTCATTTTGGTATCGATA-CCAGTTCTCGAGTATTGATACT
* * * * * *
36392917 TGGGGTAAAAATATAGATACTTTTGGATTATATCAATAAATTGTTGGGTTTTGAATTTTGAATAA
193 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTGAATTTTGAAGAA
* * * * *
36392982 AA-GAAAATTTTTAAAA-GTATCGATTTTCCAAACGGTATCGATACCCATTTTTAGAAATATCGA
258 AATCAGAATGTTAAAAAGGTTTCGATTTTCCAAACGGTATCGATACCCA-TTTTAGAAATATCGA
* * *
36393045 TACTCATTTAGATATTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCTCAATCAT
322 TTC-CATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCAATCAT
* * * * * * * * *
36393110 TCATTGAGTTTGTTTAAGCTCATACACTCTTTTCTAAACCTTTGTAGATTGTTAGTGGTTCTGAT
386 TCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGTAGATAGTTAGTGTTTCCGGT
* ** **
36393175 GTGGGCAGTGCGGAATTCTTAGGAAGTGATTGAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTA
451 GTGGGCAGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTA
* * * ** *
36393240 TTGCTATTATTTTTGAACTGTGAGAATGAGTCAACATGATAGAATTGTTGGTTGATTATTATCAT
516 TTGCTATTATTTTTGAACTGTGGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCAT
* * * * *
36393305 GATGTTTTAAATGATTATTTTGATTTTAAGACTTTTAGGTTCATGGATGTTGTTATTAGTTTATT
581 GATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTATT
* *
36393370 GGTTTGCTTGGTTGAAATTATTTATACTGCTATGGACCG-AGAATATGGACATTTTGATGTTTAA
646 GGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCA-AATATGGACATTTTGATGTTTAA
*
36393434 TGT
710 TAT
*
36393437 TGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTTGA
1 TGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTAGA
* *
36393502 ATTTTTGCAGAATTATACAGAGGTATCGATAATCGGGGCATATATATCTATACTTCTGAGTTGAA
66 ATTTTTGCAGAATTATACAGAGGTATCGATAATCGGGGCATATGTATCGATACTTCTGAGTTGAA
* * * * *
36393567 ACGAATGCGCAGGAAACAGTTGCTCACTTTT-GTATCAATACCAGTTCTTGAGTATTGATACTCA
131 ACGAATGTGCAGGAAACAGTCGCTCA-TTTTGGTATCGATACCAGTTCTCGAGTATTGATACTCG
* * * *
36393631 GGGTAAAAAGATAGATACTTTTTAATTGTATCGATAAATTGCTGGGTTTTGGATTTTGAAGAAAA
195 GGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTGAATTTTGAAGAAAA
* * * * * * * *
36393696 ACAGAATGTTAAAAAGGTATT-AATTTTTCAAACGATATCCATA-CCATTTCGAAAAATATCTAT
260 TCAGAATGTTAAAAAGGT-TTCGATTTTCCAAACGGTATCGATACCCATTT-TAGAAATATCGAT
* * * * *
36393759 ACCCATTTAGATATTCTAATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGACCATT
323 -TCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCAATCATT
* *
36393824 CACTGAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGTAGATAGTTAGTGTGTT-TGGT
387 CACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGTAGATAGTTAGTGT-TTCCGGT
* * * * * * *
36393888 GTGAGCGGTGCTGAATTTCAAGGAAGCGATCCAAGTTAGGCTTAGTGTTTGAGTCGATGATATTA
451 GTGGGCAGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTA
* * **
36393953 TTGCTATTGTTTTTGAGCTGTGAAAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCAT
516 TTGCTATTATTTTTGAACTGTGGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCAT
* * * * *
36394018 AATGTTTGAAATG---A--TT-ATTTTAATACTCTTAGGTTCTTAGACGTTGTTATTAGTTTATT
581 GATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTATT
* * * * * *
36394077 GGTTTGGTTGGTTGAAATTATTGATATTGCTATGGATTGCAAATATGAAAATCTTGATG-TTAAT
646 GGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTTAA-
36394141 TAT
710 TAT
* * * * * *
36394144 TAAATTTATGGATGTATGTTGAAGTGGTATATGATTGAGTATGTGCAATGCCCTATTTTCCTAGA
1 TGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTAGA
* * * * *
36394209 ATTTTTGCAGAATTATACAAATGTA-CAAATAAACGAGGCATATGTATCGATACTTCTGAGTTGA
66 ATTTTTGCAGAATTATACAGAGGTATC-GATAATCGGGGCATATGTATCGATACTTCTGAGTTGA
* * * * * *
36394273 AATGAATGTGCAGGAAATAGTTGCTCACTTTGG--T--A-ACGAG-----GAATATAT-ATACT-
130 AACGAATGTGCAGGAAACAGTCGCTCATTTTGGTATCGATACCAGTTCTCGAGTAT-TGATACTC
*** *** * * * ** * * * ***** *
36394326 TTTG-AATTTTATTGATAAATTACTGGGTT-T-TGGAT--TTTGAAGAAAAACTGAATGTT-AA-
194 GGGGTAAAAATATAGAT-ACTT-TTGAATTGTATCGATAAATTGATG-GGTTTTGAATTTTGAAG
* * * * * * * *
36394384 AAATGTATC-GATTTTTTAAACGGTATCGATACCCATTTCGAGAA--ATATCGATACACA-TTTA
256 AAA---ATCAGAATGTTAAAAAGGTTTCGAT-----TTTCCA-AACGGTATCGATACCCATTTTA
36394445 -------------------GATGTTCTCATTTAAT-TCATGATATCATGTTTATTGGTAGTTTTT
312 GAAATATCGATTCCATTTAGATGTTCTCATTTAATGT-ATGATATCATGTTTATTGGTAG-TTTT
** * *
36394490 TTCCTGATCATTCACTAAGCTTGTTTAAGCTCAAACACTCTTTTCTAAACCTTTGTAGATAGTTA
375 TTCCCAATCATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGTAGATAGTTA
* * * * *
36394555 GTGTTTTCAGTGTAGGCGGTGCAAAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGT
440 GTGTTTCCGGTGTGGGCAGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGT
* * * * ***
36394620 AAGTGATATTATTGCTA-T-TGTTTG-A-T-T----ATTA-TC-ATGAT--T----TT-TTAAAT
505 AGGTGATATTATTGCTATTATTTTTGAACTGTGGGAATAAGACAATG-TGGTAGAATTGTTGGTT
* * ** * * *
36394667 GATTATT-T--TGA--TTTT-AAT-A--CTCTT-AGGTTCATGGA-TGTT--GTTAGT--A-G-T
569 GATTATTATCATGATTTTTTAAATGATTATTTTGATTTTAAT--ACTCTTAGGTTCGTGGACGTT
* * * * ** * * *
36394715 -TTATTAGTTTGCTTGG-TTGAAATT-ATTGATAATTATATGGATTGCAAAT--A-TGGAAATTT
632 GTTATTAGTTT-ATTGGTTTG--CTTGGTTGA-AATTATTTATATTGC-TATGGACTGCAAATAT
* *
36394774 TG--ATATTGA----T--TAT
692 GGACATTTTGATGTTTAATAT
* * *
36394787 TGAAGTTATGGATGCATGTTGAAGTGGTATATGATT--G--TG-GGAATGCCTTATTTTGCTTGA
1 TGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTAGA
* * * *
36394847 ATTTTTGTAGAATTATACAGAAGT-TCGGTAAAT-GAGGCATATGTATCGATACTTCTGAGTTGA
66 ATTTTTGCAGAATTATACAGAGGTATCGAT-AATCGGGGCATATGTATCGATACTTCTGAGTTGA
* * * * *
36394910 AACGAATGTGTAGGAAACAGTTGCTCATTTTGGTATCGATACCAATTCTCGAGTATCGATACTCA
130 AACGAATGTGCAGGAAACAGTCGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACTCG
* * * * *
36394975 GTGTAAAAATTTAGATACTTTTGAATTGTATCGATAAATTGTTGGATTTTGGATTTTGAAGAAAA
195 GGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTGAATTTTGAAGAAAA
* * * * * * *
36395040 ACTGAATGTTAAAAAGGTATCGAGTTTCCAAATGGTATCAATACCTC-TTTTGAGAAATATTGAT
260 TCAGAATGTTAAAAAGGTTTCGATTTTCCAAACGGTATCGATACC-CATTTT-AGAAATATCGAT
* * * ** ** **
36395104 ACCCATTTAGTTGTTCTCATATAATGTATGATATTGTGTTTATTTTTA-TTTTTTCTCTCAATTG
323 -TCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTC-C-CAATCA
* * * *
36395168 TTCACTGAGCTTGTTTAAGCTCACACACTCTTTTCTAAACTTTTGCAGATAGTTAGTGTTTCCGG
385 TTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGTAGATAGTTAGTGTTTCCGG
* ** * * * *
36395233 TATGGGTGGTG-TGAAATT-CTAGGAAACTGATTCAAGTTAGGCTTAGTGTTTGAGTAGGTGATA
450 TGTGGGCAGTGCAG-AATTCCAAGG-AAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATA
* * *
36395296 TTATTACTATTATTTTTGAACTGTGGGAATAAGACAA-----T---A----TAGTTGA-AATTAT
513 TTATTGCTATTATTTTTGAACTGTGGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTAT
* * * * *
36395348 CATGATGTTTTAAGTGATTATTTTGATTTCAATGCTCTTAGGTTCGTGGACTTTGTTATTAGTTT
578 CATGATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTT
* * *
36395413 ATTGGTTTGCTTGGTTGAAATTATTCATATTGCTATGGACTTCAAATATGGACATTTTGATGTTG
643 ATTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTT
36395478 AATAT
708 AATAT
* * ** * *
36395483 TGAAGTTATGGATGCATGTTGAAGTGGTTTGTGATTTAGTATACGGAATGCCCTGTTTTAG-TTG
1 TGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTT-GCTAG
* * * * * * * *
36395547 AATTTTTGCAGAATTATACTA-A-GAATTCGGTAATTGGGGCATATATATCGATATTTTTTATTT
65 AATTTTTGCAGAATTATAC-AGAGGTA-TCGATAATCGGGGCATATGTATCGATACTTCTGAGTT
* * * * * * * *
36395610 GAATCAAATGTGCATGAAACAATTGCTCATTTTTGTATCGATACCATTTCTCGAGTATGGATACT
128 GAAACGAATGTGCAGGAAACAGTCGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACT
* * * *
36395675 C-GGGTAAAAGTATAGATACTTTTGAATTGTATCGGTAAAATGCTGGGTTTT-AGATTTTGAAGA
193 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTGA-ATTTTGAAGA
* * ** *
36395738 AAAACAGAATGTTAAAAATGTACCAATTTTCCAAACGGTATCGATA--C-------------C--
257 AAATCAGAATGTTAAAAAGGTTTCGATTTTCCAAACGGTATCGATACCCATTTTAGAAATATCGA
* * **
36395786 -T--ATTTAGATGTTCTCATTTTATGTATTATATCATGTTTATTGGTAGTTTTTTCCTGATCATT
322 TTCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCAATCATT
* * * * * * *
36395848 CGCTGAGCTTGTTTAAGCTCACACGCT-TTTTCTAAACTTTTGCAGATAGTTAGTGTTTTCGGTG
387 CACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGTAGATAGTTAGTGTTTCCGGTG
* **
36395912 TGGGCGGTGTGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTAT
452 TGGGCAGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTAT
* *
36395977 TGCTATTAGTTTTT-AACTGTGGGAATAAGACAATGTGGTAGAATAGTTGGTTGATTATTCTCAT
517 TGCTATTA-TTTTTGAACTGTGGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCAT
*
36396041 GATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGCTATTAGTTTATT
581 GATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTATT
* *
36396106 GGCTTGCTTGGTTGAAATTATTTATATTGCTATAGACTGCAAATATGGACATTTTGATGTTTAAT
646 GGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTTAAT
36396171 AT
711 AT
* * * * * *
36396173 TGAAGTAATGGATACATGTTAAAGTGGAATGTGATTGAGTATGTGGAATGCCCTGTTTTGCTAAA
1 TGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTAGA
* * ** * * * * *
36396238 ATTTTTACAGAATTTTACAGAGGTATTAATAATAGTGGCATACGTATCAATACTTTTGAGTTGAA
66 ATTTTTGCAGAATTATACAGAGGTATCGATAATCGGGGCATATGTATCGATACTTCTGAGTTGAA
* * * * * *
36396303 ATGAATGTGCAGGAAACAATTGCTCATTTTGGTATCTATACTAGTTCTCGAGTATCGATACTCGG
131 ACGAATGTGCAGGAAACAGTCGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACTCGG
* * *
36396368 GGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGCTGAGTTTTGAATTTTGAAGAAAAA
196 GGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTGAATTTTGAAGAAAAT
* * * * *
36396433 CAAAATGTTAAAAAGGTATCGATTTTTCGAACGGTATCGATACCTATTTTGAGAAATATCGAT
261 CAGAATGTTAAAAAGGTTTCGATTTTCCAAACGGTATCGATACCCATTTT-AGAAATATCGAT
36396496 GCCAGTATGT
Statistics
Matches: 5548, Mismatches: 815, Indels: 498
0.81 0.12 0.07
Matches are distributed among these distances:
637 60 0.01
638 41 0.01
639 3 0.00
641 2 0.00
642 3 0.00
643 36 0.01
644 2 0.00
645 5 0.00
646 9 0.00
647 18 0.00
648 7 0.00
649 19 0.00
650 23 0.00
651 26 0.00
652 13 0.00
653 14 0.00
654 3 0.00
655 3 0.00
656 7 0.00
657 7 0.00
658 5 0.00
659 1 0.00
660 1 0.00
661 10 0.00
662 2 0.00
666 8 0.00
667 8 0.00
668 150 0.03
669 5 0.00
670 5 0.00
671 1 0.00
672 4 0.00
673 8 0.00
674 1 0.00
675 4 0.00
676 6 0.00
677 160 0.03
678 174 0.03
679 39 0.01
680 7 0.00
681 6 0.00
682 5 0.00
683 5 0.00
685 4 0.00
686 13 0.00
687 10 0.00
688 20 0.00
689 8 0.00
690 287 0.05
691 98 0.02
692 4 0.00
693 7 0.00
694 19 0.00
695 13 0.00
696 42 0.01
697 14 0.00
698 13 0.00
699 6 0.00
700 266 0.05
701 203 0.04
702 352 0.06
703 6 0.00
705 1 0.00
706 8 0.00
707 228 0.04
708 3 0.00
710 2 0.00
711 143 0.03
712 1206 0.22
713 1168 0.21
714 485 0.09
715 3 0.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (712 bp):
TGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTAGA
ATTTTTGCAGAATTATACAGAGGTATCGATAATCGGGGCATATGTATCGATACTTCTGAGTTGAA
ACGAATGTGCAGGAAACAGTCGCTCATTTTGGTATCGATACCAGTTCTCGAGTATTGATACTCGG
GGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTGAATTTTGAAGAAAAT
CAGAATGTTAAAAAGGTTTCGATTTTCCAAACGGTATCGATACCCATTTTAGAAATATCGATTCC
ATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCAATCATTCACT
AAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGTAGATAGTTAGTGTTTCCGGTGTGGG
CAGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTATTGCT
ATTATTTTTGAACTGTGGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCATGATTT
TTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTATTGGTTT
GCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTTAATAT
Found at i:36396797 original size:18 final size:18
Alignment explanation
Indices: 36396774--36396810 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36396764 TTACAGATTT
36396774 TTTTTTGGTACTTCCTTA
1 TTTTTTGGTACTTCCTTA
* *
36396792 TTTTTTTGTATTTCCTTA
1 TTTTTTGGTACTTCCTTA
36396810 T
1 T
36396811 AATTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.14, G:0.08, T:0.68
Consensus pattern (18 bp):
TTTTTTGGTACTTCCTTA
Found at i:36396797 original size:19 final size:18
Alignment explanation
Indices: 36396773--36396863 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 18
36396763 GTTACAGATT
36396773 TTTTTTTGGTACTTCCTTA
1 TTTTTTT-GTACTTCCTTA
*
36396792 TTTTTTTGTATTTCCTTATAA
1 TTTTTTTGTACTTCC-T-T-A
* * *
36396813 TTTTTTTATAATTCCTCA
1 TTTTTTTGTACTTCCTTA
36396831 TATTTTTTGTACTT-CTTCA
1 T-TTTTTTGTACTTCCTT-A
*
36396850 TGTTTTTAGTACTT
1 T-TTTTTTGTACTT
36396864 TCTACGATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
18 11 0.19
19 31 0.53
20 2 0.03
21 14 0.24
ACGTcount: A:0.16, C:0.13, G:0.07, T:0.64
Consensus pattern (18 bp):
TTTTTTTGTACTTCCTTA
Found at i:36396815 original size:21 final size:20
Alignment explanation
Indices: 36396790--36396838 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
36396780 GGTACTTCCT
* * *
36396790 TATTTTTTTGTATTTCCTTA
1 TATTTTTTTATAATTCCTCA
36396810 TAATTTTTTTATAATTCCTCA
1 T-ATTTTTTTATAATTCCTCA
36396831 TATTTTTT
1 TATTTTTT
36396839 GTACTTCTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.67
Consensus pattern (20 bp):
TATTTTTTTATAATTCCTCA
Found at i:36396875 original size:20 final size:17
Alignment explanation
Indices: 36396832--36396884 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 17
36396822 AATTCCTCAT
*
36396832 ATTTTTTGTACTTCTTC
1 ATTTTTTGTACTTCTAC
36396849 ATGTTTTTAGTACTTTCTAC
1 AT-TTTTT-GTAC-TTCTAC
36396869 GATTTTTTGTCACTTC
1 -ATTTTTTGT-ACTTC
36396885 CTCGTAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
17 2 0.07
18 5 0.17
19 9 0.30
20 12 0.40
21 2 0.07
ACGTcount: A:0.15, C:0.17, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTTTTTGTACTTCTAC
Found at i:36396919 original size:19 final size:18
Alignment explanation
Indices: 36396894--36396960 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
36396884 CCTCGTAAAT
36396894 TTTTTTATTTCCTCATAATA
1 TTTTTTATTTCCTCAT-A-A
**
36396914 TTTTTATATTTCCTCATTT
1 TTTTT-TATTTCCTCATAA
* *
36396933 TTTTGTTATTCCCTCCTAA
1 TTTT-TTATTTCCTCATAA
36396952 TTTTTTATT
1 TTTTTTATT
36396961 CTTCCTCTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 5 0.13
19 17 0.44
20 6 0.15
21 11 0.28
ACGTcount: A:0.18, C:0.16, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTTTTATTTCCTCATAA
Found at i:36396941 original size:21 final size:21
Alignment explanation
Indices: 36396882--36396930 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
36396872 TTTTTGTCAC
* *
36396882 TTCCTCGTAA-ATTTTTTTAT
1 TTCCTCATAATATTTTTATAT
36396902 TTCCTCATAATATTTTTATAT
1 TTCCTCATAATATTTTTATAT
36396923 TTCCTCAT
1 TTCCTCAT
36396931 TTTTTTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.22, C:0.18, G:0.02, T:0.57
Consensus pattern (21 bp):
TTCCTCATAATATTTTTATAT
Found at i:36396957 original size:39 final size:39
Alignment explanation
Indices: 36396893--36396967 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
36396883 TCCTCGTAAA
*
36396893 TTTTTTTATTTCCTCATAATATTTTTATAT-TTCCTCATT
1 TTTTTTTATTCCCTCATAATATTTTTAT-TCTTCCTCATT
*
36396932 TTTTTGTTATTCCCTCCTAAT-TTTTTATTCTTCCTC
1 TTTTT-TTATTCCCTCATAATATTTTTATTCTTCCTC
36396968 TCTGTGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 1 0.03
39 18 0.56
40 13 0.41
ACGTcount: A:0.16, C:0.20, G:0.01, T:0.63
Consensus pattern (39 bp):
TTTTTTTATTCCCTCATAATATTTTTATTCTTCCTCATT
Found at i:36397472 original size:21 final size:20
Alignment explanation
Indices: 36397425--36397473 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
36397415 AGTACTGCCA
* *
36397425 AATTTTTTTGTATTTTTTGT
1 AATTTTTTTGTATTTCTCGT
*
36397445 ATTTTTTTTTGTATTCTCTCGT
1 A-ATTTTTTTGTATT-TCTCGT
36397467 AATTTTT
1 AATTTTT
36397474 AGAATACTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.71
Consensus pattern (20 bp):
AATTTTTTTGTATTTCTCGT
Found at i:36397661 original size:20 final size:19
Alignment explanation
Indices: 36397610--36397675 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 19
36397600 TTTTAATTCT
36397610 AAATTTTATTTGTAGATAT-AA
1 AAATTTTA-TT-TA-ATATCAA
36397631 CAAATTTTA-TTAATATGCAA
1 -AAATTTTATTTAATAT-CAA
*
36397651 AAATATTTATTTTATATCAA
1 AAAT-TTTATTTAATATCAA
36397671 AAATT
1 AAATT
36397676 GATTTTTCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
18 4 0.10
19 7 0.18
20 14 0.36
21 6 0.15
22 8 0.21
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
AAATTTTATTTAATATCAA
Found at i:36397702 original size:19 final size:18
Alignment explanation
Indices: 36397650--36397702 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
36397640 TTAATATGCA
*
36397650 AAAATATTTATTTTATATC
1 AAAA-ATTTATTTTCTATC
*
36397669 AAAAATTGATTTTTCTAGTC
1 AAAAATTTA-TTTTCTA-TC
36397689 AAAAATTTATTTTC
1 AAAAATTTATTTTC
36397703 AAATCATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 4 0.14
19 15 0.52
20 10 0.34
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.49
Consensus pattern (18 bp):
AAAAATTTATTTTCTATC
Found at i:36406624 original size:21 final size:21
Alignment explanation
Indices: 36406598--36406747 Score: 79
Period size: 21 Copynumber: 7.1 Consensus size: 21
36406588 CCGAAGGCTG
*
36406598 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * * *
36406619 AACAGAAACCCGTAAGGGTTG
1 AACAGAAGCTCATAAGAGCTA
* *
36406640 AATAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * *
36406661 AAC-GAAAACCCATAAGGGTTA
1 AACAG-AAGCTCATAAGAGCTA
*
36406682 AACAGAAGCTCA-ATAGAGCTG
1 AACAGAAGCTCATA-AGAGCTA
* * * *
36406703 AACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTA
* * *
36406724 AACAGAAGATCGTGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
36406745 AAC
1 AAC
36406748 GGAAAGTAAA
Statistics
Matches: 89, Mismatches: 36, Indels: 8
0.67 0.27 0.06
Matches are distributed among these distances:
20 2 0.02
21 85 0.96
22 2 0.02
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:36406648 original size:42 final size:42
Alignment explanation
Indices: 36406598--36406752 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
36406588 CCGAAGGCTG
* * *
36406598 AACAGAAGCTCATGAGAGCTAAACAGAAACCCGTAAGGGTTG
1 AACAGAAGCTCATGAGAGCTAAACGGAAACCCATAAGGGTTA
* * * *
36406640 AATAGAAGCTCGTAAGAGCTAAACGAAAACCCATAAGGGTTA
1 AACAGAAGCTCATGAGAGCTAAACGGAAACCCATAAGGGTTA
* * * *
36406682 AACAGAAGCTCAAT-AGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTC-ATGAGAGCTAAACGGAAACCCATAAGGGTTA
* *
36406724 AACAGAAGATCGTGAGAGCTAAACGGAAA
1 AACAGAAGCTCATGAGAGCTAAACGGAAA
36406753 GTAAACATGA
Statistics
Matches: 94, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.01
42 92 0.98
43 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCATGAGAGCTAAACGGAAACCCATAAGGGTTA
Found at i:36407830 original size:17 final size:16
Alignment explanation
Indices: 36407808--36407839 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
36407798 TTTAAACCAT
36407808 TTAGAAGAAAATACTTA
1 TTAGAAGAAAA-ACTTA
36407825 TTAGAAGAAAAACTT
1 TTAGAAGAAAAACTT
36407840 CTAAAAATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.28
Consensus pattern (16 bp):
TTAGAAGAAAAACTTA
Found at i:36411151 original size:25 final size:24
Alignment explanation
Indices: 36411100--36411153 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
36411090 GTCATTAGGG
* * * *
36411100 TTACCGATTCCAGCTCTTATGAGC
1 TTACCGATACCAACTCGTATGAAC
36411124 TTACCGATACTCAACTCGTATGAAC
1 TTACCGATAC-CAACTCGTATGAAC
36411149 TTACC
1 TTACC
36411154 ATTATTCAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (24 bp):
TTACCGATACCAACTCGTATGAAC
Found at i:36411176 original size:25 final size:26
Alignment explanation
Indices: 36411148--36411203 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
36411138 CTCGTATGAA
36411148 CTTACCA-TTATTCAGCTT-GAAGGAG
1 CTTACCAGTTATTCAGCTTAGAA-GAG
*
36411173 CTTA-TAGTTATTCAGCTTAGAAGAG
1 CTTACCAGTTATTCAGCTTAGAAGAG
36411198 CTTACC
1 CTTACC
36411204 GTTTATAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 22 0.85
26 3 0.12
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (26 bp):
CTTACCAGTTATTCAGCTTAGAAGAG
Found at i:36419084 original size:28 final size:28
Alignment explanation
Indices: 36419052--36419107 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
36419042 GGAGGAAATA
36419052 TTATGATTGATGGTAGGATTCAACGGGT
1 TTATGATTGATGGTAGGATTCAACGGGT
*
36419080 TTATGATTGATGGTAGGATTCAATGGGT
1 TTATGATTGATGGTAGGATTCAACGGGT
36419108 GGAGTACCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.05, G:0.32, T:0.38
Consensus pattern (28 bp):
TTATGATTGATGGTAGGATTCAACGGGT
Found at i:36419240 original size:219 final size:218
Alignment explanation
Indices: 36418861--36419276 Score: 688
Period size: 219 Copynumber: 1.9 Consensus size: 218
36418851 GTGTCTAAGA
36418861 TTATGATTGATGGTAGGATTCAATAGGTGGAGTACCAGTCTTTACCATTGGTGTGTTTCGACCGT
1 TTATGATTGATGGTAGGATTCAATAGGTGGAGTACCAGTCTTTACCATTGGTGTGTTTCGACCGT
* ** * *
36418926 GGGTGGTATGGGCATAGTAGAGAGATTTGTCCTTACATATTTGATCAAGGGACGACTTCAACAAC
66 GGGTGGTATGGGCACAACAGAGAGATTTGTCCTTACATATTTGATCAAGAGACGACTTCAAAAAC
* * * *
36418991 GGTGGGGGATCATTTGCCACGGGAGATGCCTGAGATCCTGAAATGTGTTGAGGAGGAAATATTAT
131 GGTAGGGAATCATTTGCCACGGGAGATGCCTGAGATCCCGAAATGTGTTGAGGAGGAAAGA-TAT
36419056 GATTGATGGTAGGATTCAACGGGT
195 GATTGATGGTAGGATTCAACGGGT
* *
36419080 TTATGATTGATGGTAGGATTCAATGGGTGGAGTACCAGTCTTTACCATTGGTGTGTTTCGACTGT
1 TTATGATTGATGGTAGGATTCAATAGGTGGAGTACCAGTCTTTACCATTGGTGTGTTTCGACCGT
* * *
36419145 GGGTGGTATGGGCACAACAGAGAGATTTGTCCTTACATATTTGATCAAGAGATGACTTTAAAAAT
66 GGGTGGTATGGGCACAACAGAGAGATTTGTCCTTACATATTTGATCAAGAGACGACTTCAAAAAC
*
36419210 GGTAGGGAATCATTTGCCATGGGAGATGCCTGAGATCCCGAAATGTGTTGAGGAGGAAAGATATG
131 GGTAGGGAATCATTTGCCACGGGAGATGCCTGAGATCCCGAAATGTGTTGAGGAGGAAAGATATG
36419275 AT
196 AT
36419277 CCTTGGATGT
Statistics
Matches: 182, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
218 6 0.03
219 176 0.97
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (218 bp):
TTATGATTGATGGTAGGATTCAATAGGTGGAGTACCAGTCTTTACCATTGGTGTGTTTCGACCGT
GGGTGGTATGGGCACAACAGAGAGATTTGTCCTTACATATTTGATCAAGAGACGACTTCAAAAAC
GGTAGGGAATCATTTGCCACGGGAGATGCCTGAGATCCCGAAATGTGTTGAGGAGGAAAGATATG
ATTGATGGTAGGATTCAACGGGT
Found at i:36424798 original size:18 final size:17
Alignment explanation
Indices: 36424772--36424810 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
36424762 ATTTTCCTTC
36424772 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
36424789 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
36424807 CACA
1 CACA
36424811 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:36426576 original size:31 final size:31
Alignment explanation
Indices: 36426538--36426597 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
36426528 GGGATGCTCG
36426538 TAAACTATCCTTTGCTGGAATGCTAACTTCT
1 TAAACTATCCTTTGCTGGAATGCTAACTTCT
36426569 TAAACTATCCTTTGCTGGAATGCTAACTT
1 TAAACTATCCTTTGCTGGAATGCTAACTT
36426598 TAGTGAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (31 bp):
TAAACTATCCTTTGCTGGAATGCTAACTTCT
Found at i:36429138 original size:16 final size:16
Alignment explanation
Indices: 36429126--36429156 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
36429116 GATTTTTTTT
36429126 AAATAATTATTTTTAA
1 AAATAATTATTTTTAA
36429142 AAATAATTATTTTTA
1 AAATAATTATTTTTA
36429157 GGATTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAATAATTATTTTTAA
Found at i:36429729 original size:19 final size:17
Alignment explanation
Indices: 36429696--36429730 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
36429686 AAAAATTATT
36429696 TAAAAAGAAACAAAAAG
1 TAAAAAGAAACAAAAAG
36429713 TAAAAGAGAAGACAAAAA
1 TAAAA-AGAA-ACAAAAA
36429731 CAAAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.74, C:0.06, G:0.14, T:0.06
Consensus pattern (17 bp):
TAAAAAGAAACAAAAAG
Found at i:36431551 original size:19 final size:18
Alignment explanation
Indices: 36431515--36431550 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
36431505 TTCAATTTTT
36431515 TAAAAAATAAAAGTAAAA
1 TAAAAAATAAAAGTAAAA
36431533 TAAATAAATAAAA-TAAAA
1 TAAA-AAATAAAAGTAAAA
36431551 AACACTCAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (18 bp):
TAAAAAATAAAAGTAAAA
Found at i:36432688 original size:14 final size:12
Alignment explanation
Indices: 36432669--36432734 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
36432659 CAAACAAACG
36432669 AAAAATTAGAATGT
1 AAAAATTA-AAT-T
36432683 AAAAATTAAATT
1 AAAAATTAAATT
* *
36432695 AAAAATAAAAAT
1 AAAAATTAAATT
*
36432707 -AAAATTAAAAAT
1 AAAAATT-AAATT
* *
36432719 AAAAATAAAAAT
1 AAAAATTAAATT
36432731 AAAA
1 AAAA
36432735 TGGCTAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
11 5 0.11
12 25 0.54
13 8 0.17
14 8 0.17
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (12 bp):
AAAAATTAAATT
Found at i:36432699 original size:13 final size:14
Alignment explanation
Indices: 36432669--36432700 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
36432659 CAAACAAACG
36432669 AAAAATTAGAATGT
1 AAAAATTAGAATGT
36432683 AAAAATTA-AAT-T
1 AAAAATTAGAATGT
36432695 AAAAAT
1 AAAAAT
36432701 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 3 0.17
14 8 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (14 bp):
AAAAATTAGAATGT
Found at i:36432705 original size:6 final size:6
Alignment explanation
Indices: 36432682--36432734 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
36432672 AATTAGAATG
* * *
36432682 TAAAAA TTAAAT TAAAAA TAAAAA TAAAAT TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
36432730 TAAAA
1 TAAAA
36432735 TGGCTAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (6 bp):
TAAAAA
Found at i:36432705 original size:18 final size:18
Alignment explanation
Indices: 36432682--36432734 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
36432672 AATTAGAATG
*
36432682 TAAAAATTAAATTAAAAA
1 TAAAAATAAAATTAAAAA
36432700 TAAAAATAAAATTAAAAA
1 TAAAAATAAAATTAAAAA
*
36432718 TAAAAATAAAAATAAAA
1 TAAAAATAAAATTAAAA
36432735 TGGCTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAAATAAAATTAAAAA
Done.