Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 286 of 344
Found at i:95918491 original size:14 final size:14
Alignment explanation
Indices: 95918468--95918506 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
95918458 TTTTTCAACA
95918468 TTTTACCTTTTCTT
1 TTTTACCTTTTCTT
* *
95918482 TTTTAACTTTACTT
1 TTTTACCTTTTCTT
95918496 TTTTACCTTTT
1 TTTTACCTTTT
95918507 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTACCTTTTCTT
Found at i:95922963 original size:19 final size:19
Alignment explanation
Indices: 95922938--95922990 Score: 81
Period size: 18 Copynumber: 2.8 Consensus size: 19
95922928 ATGAATAATT
*
95922938 TAAAATTTATAAAAAATCA
1 TAAAAATTATAAAAAATCA
*
95922957 -AAAAATTATAAAAATTCA
1 TAAAAATTATAAAAAATCA
95922975 TAAAAATTATAAAAAA
1 TAAAAATTATAAAAAA
95922991 ATAGTATGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAAATTATAAAAAATCA
Found at i:95922969 original size:9 final size:9
Alignment explanation
Indices: 95922934--95922989 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
95922924 GTTAATGAAT
95922934 AATT-TAAA
1 AATTATAAA
*
95922942 ATTTATAAAA
1 AATTAT-AAA
*
95922952 AATCA-AAA
1 AATTATAAA
95922960 AATTATAAA
1 AATTATAAA
95922969 AATTCATAAA
1 AATT-ATAAA
95922979 AATTATAAA
1 AATTATAAA
95922988 AA
1 AA
95922990 AATAGTATGG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 10 0.25
9 15 0.38
10 15 0.38
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (9 bp):
AATTATAAA
Found at i:95923088 original size:31 final size:31
Alignment explanation
Indices: 95923053--95923114 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
95923043 ATATTTTAGT
95923053 TATTAAAAAATAGTAATTTAA-T-TTTTTAAAA
1 TATTAAAAAATA--AATTTAATTCTTTTTAAAA
* *
95923084 TATTAATAATTAAATTTAATTCTTTTTAAAA
1 TATTAAAAAATAAATTTAATTCTTTTTAAAA
95923115 GACTACAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 7 0.26
30 1 0.04
31 19 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (31 bp):
TATTAAAAAATAAATTTAATTCTTTTTAAAA
Found at i:95926801 original size:39 final size:39
Alignment explanation
Indices: 95926756--95926841 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
95926746 AACTTAATGT
* *
95926756 CTAGCAGGCCTCGTGTCGGTGAT-AGATTCAGGTTTATAC
1 CTAGCAGGCCTCATGCCGGTGATAAG-TTCAGGTTTATAC
* *
95926795 CTAGCAGGCCTCATGCCGGTGTTAAGTTCGGGTTTATAC
1 CTAGCAGGCCTCATGCCGGTGATAAGTTCAGGTTTATAC
95926834 CTAGCAGG
1 CTAGCAGG
95926842 AAAATTGCCG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 40 0.95
40 2 0.05
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
CTAGCAGGCCTCATGCCGGTGATAAGTTCAGGTTTATAC
Found at i:95928777 original size:5 final size:5
Alignment explanation
Indices: 95928767--95928798 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
95928757 TCAAGTGTGA
95928767 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
95928799 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:95928792 original size:9 final size:9
Alignment explanation
Indices: 95928768--95928798 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
95928758 CAAGTGTGAA
95928768 AAATAAAAT
1 AAATAAAAT
95928777 AAAATAAAAT
1 -AAATAAAAT
95928787 AAATAAAAT
1 AAATAAAAT
95928796 AAA
1 AAA
95928799 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:95931472 original size:15 final size:15
Alignment explanation
Indices: 95931452--95931487 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
95931442 ACAATCTATT
95931452 AAACTCATCAGAACA
1 AAACTCATCAGAACA
95931467 AAACTCATCAGAACA
1 AAACTCATCAGAACA
95931482 AAACTC
1 AAACTC
95931488 TAAGCCATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.53, C:0.28, G:0.06, T:0.14
Consensus pattern (15 bp):
AAACTCATCAGAACA
Found at i:95933239 original size:5 final size:5
Alignment explanation
Indices: 95933229--95933260 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
95933219 CAATTTGTGA
95933229 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
95933261 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:95933254 original size:9 final size:9
Alignment explanation
Indices: 95933230--95933260 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
95933220 AATTTGTGAA
95933230 AAATAAAAT
1 AAATAAAAT
95933239 AAAATAAAAT
1 -AAATAAAAT
95933249 AAATAAAAT
1 AAATAAAAT
95933258 AAA
1 AAA
95933261 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:95939767 original size:23 final size:23
Alignment explanation
Indices: 95939749--95939802 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
95939739 GGTATACACG
95939749 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* **
95939772 TACATAATAATAATA-ATGGTAA
1 TACATAATAAAAATATATACTAA
95939794 TAC-TAATAA
1 TACATAATAA
95939803 TACTAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 6 0.21
22 8 0.29
23 14 0.50
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:95939783 original size:3 final size:3
Alignment explanation
Indices: 95939752--95939821 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
95939742 ATACACGTAC
* * * * *
95939752 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATG GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
95939799 ATA ATA CTA ATA AT- ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
95939822 CAAGGATATT
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
2 4 0.08
3 41 0.80
4 6 0.12
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:95940309 original size:18 final size:18
Alignment explanation
Indices: 95940282--95940319 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
95940272 AGAAAAAAAA
*
95940282 AGAAGAGAGAGGGAAGAG
1 AGAAGAGAGAGAGAAGAG
*
95940300 AGAAGGGAGAGAGAAGAG
1 AGAAGAGAGAGAGAAGAG
95940318 AG
1 AG
95940320 GGGAATCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (18 bp):
AGAAGAGAGAGAGAAGAG
Found at i:95940314 original size:11 final size:12
Alignment explanation
Indices: 95940283--95940315 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
95940273 GAAAAAAAAA
95940283 GAAGAGAG-AGG
1 GAAGAGAGAAGG
95940294 GAAGAGAGAAGG
1 GAAGAGAGAAGG
95940306 G-AGAGAGAAG
1 GAAGAGAGAAG
95940316 AGAGGGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:95940466 original size:17 final size:17
Alignment explanation
Indices: 95940409--95940468 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
95940399 AAAAATATAT
*
95940409 ATATTTTTTAT-TTTTT
1 ATATTTTTTATGTTTTA
* *
95940425 CTATTTTTTTATG-CTTA
1 ATA-TTTTTTATGTTTTA
* *
95940442 ATAGTTTTTATGTTTTG
1 ATATTTTTTATGTTTTA
95940459 ATATTTTTTA
1 ATATTTTTTA
95940469 GTATTTTTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
16 10 0.30
17 23 0.70
ACGTcount: A:0.20, C:0.03, G:0.07, T:0.70
Consensus pattern (17 bp):
ATATTTTTTATGTTTTA
Found at i:95949218 original size:34 final size:32
Alignment explanation
Indices: 95949144--95949207 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
95949134 TAAGCAAAAA
95949144 AATGTTGGAATAAACATTATTGTGTGTTGAGT
1 AATGTTGGAATAAACATTATTGTGTGTTGAGT
*
95949176 AATGTTGGAATGAACATTATTGTGTGTTGAGT
1 AATGTTGGAATAAACATTATTGTGTGTTGAGT
95949208 GTTGTGTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.03, G:0.27, T:0.41
Consensus pattern (32 bp):
AATGTTGGAATAAACATTATTGTGTGTTGAGT
Found at i:95963447 original size:9 final size:9
Alignment explanation
Indices: 95963433--95963458 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
95963423 CTATGCCAAG
95963433 AAATGCCAT
1 AAATGCCAT
95963442 AAATGCCAT
1 AAATGCCAT
95963451 AAATGCCA
1 AAATGCCA
95963459 AATTTATGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.12, T:0.19
Consensus pattern (9 bp):
AAATGCCAT
Found at i:95965432 original size:89 final size:88
Alignment explanation
Indices: 95965281--95965490 Score: 318
Period size: 89 Copynumber: 2.4 Consensus size: 88
95965271 ACAACGGTGA
* *
95965281 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAAGCCTTAACCTCCTAAGCAGT
1 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCTAAGCAGT
* *
95965346 AGGGTAATAGGCTGGAAATTACAG
66 AAGGTAATAGGCT-AAAATTACAG
*
95965370 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAATCCTTAACCCCCTAAGCAGT
1 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCTAAGCAGT
95965435 AAGGTAATAGGCTAAAATTACAG
66 AAGGTAATAGGCTAAAATTACAG
95965458 ATCTTG--TATCTCTGAAGTTGCAGTGGAA-CAGAT
1 ATCTTGCCT-TC-CTGAAGTTGCAGT-GAAGCAGAT
95965491 CGAATACAGC
Statistics
Matches: 113, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
86 1 0.01
87 2 0.02
88 33 0.29
89 77 0.68
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (88 bp):
ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGCCTTAACCCCCTAAGCAGT
AAGGTAATAGGCTAAAATTACAG
Found at i:95966434 original size:12 final size:12
Alignment explanation
Indices: 95966397--95966436 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
95966387 GAAATAAAGA
95966397 TGTTTTTACTTT
1 TGTTTTTACTTT
* *
95966409 TGTCTTTA-TCT
1 TGTTTTTACTTT
95966420 TGTTTTTACTTT
1 TGTTTTTACTTT
95966432 TGTTT
1 TGTTT
95966437 CTCTTAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.07, C:0.10, G:0.10, T:0.72
Consensus pattern (12 bp):
TGTTTTTACTTT
Found at i:95969850 original size:2 final size:2
Alignment explanation
Indices: 95969843--95969867 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
95969833 TTCCAAGATA
95969843 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
95969868 AATCAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95969990 original size:21 final size:19
Alignment explanation
Indices: 95969969--95970019 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 19
95969959 GATTAAATTA
95969969 AATTTAATTAATCATATGTT
1 AATTTAATTAATCATAT-TT
* *
95969989 AATTATGATTAATCTTATTT
1 AATT-TAATTAATCATATTT
95970009 AATTTAATTAA
1 AATTTAATTAA
95970020 ACCAATGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 6 0.22
20 10 0.37
21 11 0.41
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (19 bp):
AATTTAATTAATCATATTT
Found at i:95973006 original size:12 final size:12
Alignment explanation
Indices: 95972989--95973015 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
95972979 ATCTTTTCAT
95972989 GTTAATTAGTTA
1 GTTAATTAGTTA
95973001 GTTAATTAGTTA
1 GTTAATTAGTTA
95973013 GTT
1 GTT
95973016 GATGAGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (12 bp):
GTTAATTAGTTA
Found at i:95973200 original size:27 final size:27
Alignment explanation
Indices: 95973149--95973235 Score: 95
Period size: 28 Copynumber: 3.2 Consensus size: 27
95973139 GAGTTAATAA
* * *
95973149 AATTCTCTTTGAG-TTTTCTTTTGAAG
1 AATTTTCTTTAAGTTTTTTTTTTGAAG
*
95973175 AATTTTTTTTAAGTTTTTTTTTTGAAG
1 AATTTTCTTTAAGTTTTTTTTTTGAAG
* *
95973202 AATTTCCCTTTAAGTTTTTTTTTAGAAG
1 AATTT-TCTTTAAGTTTTTTTTTTGAAG
*
95973230 AGTTTT
1 AATTTT
95973236 AATAATCTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
26 10 0.20
27 17 0.34
28 23 0.46
ACGTcount: A:0.22, C:0.07, G:0.13, T:0.59
Consensus pattern (27 bp):
AATTTTCTTTAAGTTTTTTTTTTGAAG
Found at i:95977855 original size:21 final size:21
Alignment explanation
Indices: 95977797--95977857 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
95977787 ATAATTTAAT
*
95977797 TTATTTTTAAAATTTAAAAAA
1 TTATTTTTAAAATATAAAAAA
* *
95977818 TTATCTTTAAAAAATAAAAAA
1 TTATTTTTAAAATATAAAAAA
95977839 -TATTTTTAAAAGTATAAAA
1 TTATTTTTAAAA-TATAAAA
95977858 TTTAGTTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TTATTTTTAAAATATAAAAAA
Found at i:95985370 original size:4 final size:4
Alignment explanation
Indices: 95985361--95985397 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
95985351 AAATGGCCGC
95985361 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT T
1 TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT TGTT T
95985398 ATTGCTGGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TGTT
Found at i:95988428 original size:102 final size:102
Alignment explanation
Indices: 95988264--95988467 Score: 363
Period size: 102 Copynumber: 2.0 Consensus size: 102
95988254 ATTATTTGCT
* ** *
95988264 TTATCCTGATTATATATGTAATTGAATATACAGGGATATATAACATGAATTATTTATGTGAAAGA
1 TTATCCTGATTATATATGTAATAGAATATACAGGGATATATAACATGAATTAGATATATGAAAGA
95988329 TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
66 TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
*
95988366 TTATCCTGATTATATATGTAATAGAATATACAGGGATATATAACATGAATTAGATATATGAAAGT
1 TTATCCTGATTATATATGTAATAGAATATACAGGGATATATAACATGAATTAGATATATGAAAGA
95988431 TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
66 TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
95988468 AGTGAAGCGC
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (102 bp):
TTATCCTGATTATATATGTAATAGAATATACAGGGATATATAACATGAATTAGATATATGAAAGA
TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
Found at i:95991565 original size:28 final size:28
Alignment explanation
Indices: 95991525--95991581 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
95991515 GTTAGAGTTA
95991525 TGGATAGGAATTAGAATATCCAATTTTT
1 TGGATAGGAATTAGAATATCCAATTTTT
95991553 TGGATAGGAATTAGAATATCCAATTTTT
1 TGGATAGGAATTAGAATATCCAATTTTT
95991581 T
1 T
95991582 CTTTCCATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.18, T:0.40
Consensus pattern (28 bp):
TGGATAGGAATTAGAATATCCAATTTTT
Found at i:95993481 original size:12 final size:13
Alignment explanation
Indices: 95993452--95993488 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
95993442 GAATTTTTAG
*
95993452 TTTTTCAGAAGTA
1 TTTTTCAAAAGTA
95993465 TTTTTCAAAAGTA
1 TTTTTCAAAAGTA
*
95993478 TTTTTGAAAAG
1 TTTTTCAAAAG
95993489 GAGAAGATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (13 bp):
TTTTTCAAAAGTA
Found at i:95998992 original size:46 final size:46
Alignment explanation
Indices: 95998925--95999015 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
95998915 AGCAAGTAGT
95998925 TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTTA
1 TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTTA
95998971 TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTT
1 TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTT
95999016 GTCCCTAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (46 bp):
TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTTA
Found at i:96002745 original size:22 final size:22
Alignment explanation
Indices: 96002702--96002746 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
96002692 AATTTGTTAC
*
96002702 ATTATATATGTAATTTGTTTTT
1 ATTATATATGTAATTTATTTTT
*
96002724 ATTATATAT-TGATTTATGTTTT
1 ATTATATATGTAATTTAT-TTTT
96002746 A
1 A
96002747 AACCATGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (22 bp):
ATTATATATGTAATTTATTTTT
Found at i:96008543 original size:30 final size:30
Alignment explanation
Indices: 96008507--96008563 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
96008497 TAGGCACTTC
* **
96008507 CAAACGGGTAAACCACATGCCTGTGTGAGG
1 CAAACGGGCAAACCACACACCTGTGTGAGG
*
96008537 CAAACGGGCAGACCACACACCTGTGTG
1 CAAACGGGCAAACCACACACCTGTGTG
96008564 TCATGGCCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.14
Consensus pattern (30 bp):
CAAACGGGCAAACCACACACCTGTGTGAGG
Found at i:96016016 original size:30 final size:30
Alignment explanation
Indices: 96015982--96016047 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
96015972 AACGAACGTA
96015982 CACACGACCGTGCGACATGGCCGTGTGCAC
1 CACACGACCGTGCGACATGGCCGTGTGCAC
*
96016012 CACACGACCGTGCGACATGGTCGTGTGCAC
1 CACACGACCGTGCGACATGGCCGTGTGCAC
96016042 CACACG
1 CACACG
96016048 GCCTAGGGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.21, C:0.36, G:0.29, T:0.14
Consensus pattern (30 bp):
CACACGACCGTGCGACATGGCCGTGTGCAC
Found at i:96016561 original size:17 final size:17
Alignment explanation
Indices: 96016539--96016589 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
96016529 TTATTTCACT
96016539 TTTATTTTCTTTTATTC
1 TTTATTTTCTTTTATTC
* *
96016556 TTTATTTTATTTTAAT-
1 TTTATTTTCTTTTATTC
*
96016572 TTTATCTCTCTTTTATTC
1 TTTAT-TTTCTTTTATTC
96016590 ATCCTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTTCTTTTATTC
Found at i:96016565 original size:33 final size:34
Alignment explanation
Indices: 96016520--96016589 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
96016510 CTTTTTTCTT
* *
96016520 TTCTTTGATTTATTTCACTTTTAT-TTTCTTTTA
1 TTCTTTGATTTATTTCAATTTTATCTCTCTTTTA
*
96016553 TTCTTT-ATTTTATTTTAATTTTATCTCTCTTTTA
1 TTCTTTGA-TTTATTTCAATTTTATCTCTCTTTTA
96016587 TTC
1 TTC
96016590 ATCCTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 1 0.03
33 20 0.62
34 11 0.34
ACGTcount: A:0.16, C:0.13, G:0.01, T:0.70
Consensus pattern (34 bp):
TTCTTTGATTTATTTCAATTTTATCTCTCTTTTA
Found at i:96016585 original size:22 final size:21
Alignment explanation
Indices: 96016528--96016588 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
96016518 TTTTCTTTGA
* * *
96016528 TTTATTTCACTTTTATTTTCT
1 TTTATCTCTCTTTTATTTTAT
* *
96016549 TTTATTCTTTATTTTATTTTAAT
1 TTTA-TCTCTCTTTTATTTT-AT
96016572 TTTATCTCTCTTTTATT
1 TTTATCTCTCTTTTATT
96016589 CATCCTTTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 4 0.13
22 22 0.71
23 5 0.16
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTATCTCTCTTTTATTTTAT
Found at i:96019771 original size:12 final size:12
Alignment explanation
Indices: 96019754--96019787 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
96019744 CCCGGCCGCC
96019754 TATATTAATTTT
1 TATATTAATTTT
96019766 TATATT-ATTTT
1 TATATTAATTTT
96019777 TATA-TAATTTT
1 TATATTAATTTT
96019788 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:96019955 original size:30 final size:31
Alignment explanation
Indices: 96019912--96019974 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
96019902 CTTAACAAGT
*
96019912 AAATGTTTCTAAAATAAT-AACAAAATTAAC
1 AAATGTTTCTAAAATAATAAAAAAAATTAAC
96019942 AAATGTGTT-TAAAATAATAAAAAAAATTAAC
1 AAATGT-TTCTAAAATAATAAAAAAAATTAAC
96019973 AA
1 AA
96019975 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (31 bp):
AAATGTTTCTAAAATAATAAAAAAAATTAAC
Found at i:96020029 original size:22 final size:22
Alignment explanation
Indices: 96020004--96020046 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
96019994 TATCCAAACA
96020004 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
*
96020026 ATAACAGCAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
96020047 AATAGGGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.58, C:0.16, G:0.12, T:0.14
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:96020045 original size:11 final size:11
Alignment explanation
Indices: 96020011--96020051 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
96020001 ACAATAACAA
96020011 CAAAATAGTAG
1 CAAAATAGTAG
* **
96020022 CAACATAACAG
1 CAAAATAGTAG
96020033 CAAAATAGTAG
1 CAAAATAGTAG
96020044 CAAAATAG
1 CAAAATAG
96020052 GGGGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:96024231 original size:17 final size:17
Alignment explanation
Indices: 96024209--96024242 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
96024199 ATTTTATATA
96024209 TATTAAATATTA-ATTAT
1 TATT-AATATTATATTAT
96024226 TATTAATATTATATTAT
1 TATTAATATTATATTAT
96024243 GAAATAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTAATATTATATTAT
Found at i:96024240 original size:14 final size:15
Alignment explanation
Indices: 96024202--96024248 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
96024192 TTCTTAGATT
96024202 TTATATATATTAAATA
1 TTATAT-TATTAAATA
96024218 TTA-ATTATTATTAATA
1 TTATATTATTA--AATA
*
96024234 TTATATTATGAAATA
1 TTATATTATTAAATA
96024249 AATTAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 10 0.37
17 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TTATATTATTAAATA
Found at i:96029715 original size:6 final size:6
Alignment explanation
Indices: 96029704--96029731 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
96029694 TCCTACATTA
96029704 TGTTCT TGTTCT TGTTCT TGTTCT TGTT
1 TGTTCT TGTTCT TGTTCT TGTTCT TGTT
96029732 ACTCTCCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.18, T:0.68
Consensus pattern (6 bp):
TGTTCT
Found at i:96045646 original size:44 final size:44
Alignment explanation
Indices: 96045598--96046216 Score: 759
Period size: 44 Copynumber: 14.4 Consensus size: 44
96045588 AAACTCAGGA
* * **
96045598 ACGCCAAATCTGTTATTTTTTATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
96045642 ACGCCAAATCCGCTATTTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
96045686 ACGCCAAATCTGCTATCTTCGATCTGCTTTCTAACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
96045730 ACGCCAAATCAGCTATCTTCGATCTGCTCTCTGAAAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
96045774 ATGCCAAA-----TAT-TT-GATCTGCTCTCT-ATCAATACACAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA-CAATACAGAG
* *
96045811 ACACCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
96045855 ACGCCAAATCTGCTATTTTCGATTTGCTCTCTGACAATACAAAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
** ** *
96045899 ACATCAAATCAACTATCTTTGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
96045943 ATGTCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
96045987 ACGCCAAATCCGCTATCTTCGATCTGCTCTCTAACAATACAAAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
*
96046031 ACGCCAAAT-TAGCTATCTTCGATCTGCTCTCTGGCAATACAGAG
1 ACGCCAAATCT-GCTATCTTCGATCTGCTCTCTGACAATACAGAG
*
96046075 ACGCCAAA-----TAT-TT-GATCTGCTCTCT-ATCAATACACAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA-CAATACAGAG
* *
96046112 ACACCAAATCTGATATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * * *
96046156 ACACCAAATCTGTTATCTTCAATCTGCTCTCTGATAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
*
96046200 ACGCCAAATCGGCTATC
1 ACGCCAAATCTGCTATC
96046217 GGTGATCTGC
Statistics
Matches: 502, Mismatches: 54, Indels: 38
0.85 0.09 0.06
Matches are distributed among these distances:
36 1 0.00
37 54 0.11
38 4 0.01
39 6 0.01
42 6 0.01
43 4 0.01
44 425 0.85
45 2 0.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (44 bp):
ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
Found at i:96046165 original size:301 final size:301
Alignment explanation
Indices: 96045619--96046201 Score: 995
Period size: 301 Copynumber: 1.9 Consensus size: 301
96045609 GTTATTTTTT
* *
96045619 ATCTGCTCTCTGACAATACAGAGACGCCAAATCCGCTATTTTCGATCTGCTCTCTGACAATACAG
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAG
* * *
96045684 AGACGCCAAATCTGCTATCTTCGATCTGCTTTCTAACAATACAGAGACGCCAAATCAGCTATCTT
66 AGACGCCAAATCCGCTATCTTCGATCTGCTCTCTAACAATACAAAGACGCCAAATCAGCTATCTT
*
96045749 CGATCTGCTCTCTGAAAATACAGAGATGCCAAATATTTGATCTGCTCTCTATCAATACACAGACA
131 CGATCTGCTCTCTGAAAATACAGAGACGCCAAATATTTGATCTGCTCTCTATCAATACACAGACA
* * * * *
96045814 CCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATTTTCGATT
196 CCAAATCTGATATCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCAATC
96045879 TGCTCTCTGACAATACAAAGACATCAAATCAACTATCTTTG
261 TGCTCTCTGACAATACAAAGACATCAAATCAACTATCTTTG
* *
96045920 ATCTGCTCTCTGACAATACAGAGATGTCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAG
1 ATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAG
*
96045985 AGACGCCAAATCCGCTATCTTCGATCTGCTCTCTAACAATACAAAGACGCCAAATTAGCTATCTT
66 AGACGCCAAATCCGCTATCTTCGATCTGCTCTCTAACAATACAAAGACGCCAAATCAGCTATCTT
**
96046050 CGATCTGCTCTCTGGCAATACAGAGACGCCAAATATTTGATCTGCTCTCTATCAATACACAGACA
131 CGATCTGCTCTCTGAAAATACAGAGACGCCAAATATTTGATCTGCTCTCTATCAATACACAGACA
*
96046115 CCAAATCTGATATCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCTGTTATCTTCAATC
196 CCAAATCTGATATCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCAATC
* *
96046180 TGCTCTCTGATAATACAGAGAC
261 TGCTCTCTGACAATACAAAGAC
96046202 GCCAAATCGG
Statistics
Matches: 263, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
301 263 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (301 bp):
ATCTGCTCTCTGACAATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAG
AGACGCCAAATCCGCTATCTTCGATCTGCTCTCTAACAATACAAAGACGCCAAATCAGCTATCTT
CGATCTGCTCTCTGAAAATACAGAGACGCCAAATATTTGATCTGCTCTCTATCAATACACAGACA
CCAAATCTGATATCTTCGATCTGCTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCAATC
TGCTCTCTGACAATACAAAGACATCAAATCAACTATCTTTG
Found at i:96057699 original size:27 final size:27
Alignment explanation
Indices: 96057661--96057714 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
96057651 TAAATTACAC
96057661 AATATACGTTATCATCTTATGCATATA
1 AATATACGTTATCATCTTATGCATATA
96057688 AATATACGTTATCATCTTATGCATATA
1 AATATACGTTATCATCTTATGCATATA
96057715 TAATCAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (27 bp):
AATATACGTTATCATCTTATGCATATA
Found at i:96058284 original size:8 final size:8
Alignment explanation
Indices: 96058264--96058297 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
96058254 TTTTAAAATT
96058264 ATAATA-A
1 ATAATATA
*
96058271 ATAATATT
1 ATAATATA
96058279 ATAATATA
1 ATAATATA
96058287 ATAATATA
1 ATAATATA
96058295 ATA
1 ATA
96058298 TAATGAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:96058289 original size:13 final size:13
Alignment explanation
Indices: 96058261--96058301 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
96058251 AATTTTTAAA
96058261 ATTATAATAAATAAT
1 ATTATAAT--ATAAT
96058276 ATTATAATATAAT
1 ATTATAATATAAT
*
96058289 AATATAATATAAT
1 ATTATAATATAAT
96058302 GAACAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 17 0.68
15 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTATAATATAAT
Found at i:96058488 original size:25 final size:25
Alignment explanation
Indices: 96058429--96058488 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
96058419 ATTTTCATGT
*
96058429 ATAAATAATATTTATAGTAAAATAA
1 ATAAATTATATTTATAGTAAAATAA
* *
96058454 AT-ACTGTATA-TTATATTTAAAATAA
1 ATAAAT-TATATTTATA-GTAAAATAA
96058479 ATAAATTATA
1 ATAAATTATA
96058489 AAGAGAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
24 7 0.25
25 19 0.68
26 2 0.07
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (25 bp):
ATAAATTATATTTATAGTAAAATAA
Found at i:96060661 original size:29 final size:29
Alignment explanation
Indices: 96060629--96060707 Score: 86
Period size: 30 Copynumber: 2.6 Consensus size: 29
96060619 AACATTATAT
*
96060629 AATAAAATAATATAAAAATAAAATACGAA
1 AATAGAATAATATAAAAATAAAATACGAA
* * * *
96060658 AATAGGATATTTTAAAAAATAAAATCCGAA
1 AATAGAATAATAT-AAAAATAAAATACGAA
96060688 AATAGAATAAATAATAAAAA
1 AATAGAAT-AAT-ATAAAAA
96060708 CAAAGGGCCA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 9 0.23
30 22 0.56
31 7 0.18
32 1 0.03
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (29 bp):
AATAGAATAATATAAAAATAAAATACGAA
Found at i:96060779 original size:155 final size:153
Alignment explanation
Indices: 96060477--96061304 Score: 1235
Period size: 155 Copynumber: 5.5 Consensus size: 153
96060467 GCGGGTTTTT
* * *
96060477 TACTAAAATGATAT-AAAAATAAAATACGAAAATAGTTTATTTTTAAAAAATAAAATACGAAAAT
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA-TTTTAAAAAATAAAATCCGAAAAT
*
96060541 -AA-AAA-AATAAGAACAAAGGGCCAAAACCAGAGTTTTTTTACTAAATTAATATAAAAAACACT
65 AAATAAATAATAAAAACAAAGGGCCAAAACCAGAG-TTTTTTACTAAATTAATATAAAAAACACT
*
96060603 AAAATAATACATTTGAAACATTATA
129 AAAATAATACATTTGAAACATTATG
* *
96060628 TAATAAAATAATAT-AAAAATAAAATACGAAAATAGGATATTTTAAAAAATAAAATCCGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
96060692 GAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAAAACAC
66 -AATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATAT--AAAAAACAC
96060757 TAAAATAATACATTTGAAACATTATG
128 TAAAATAATACATTTGAAACATTATG
* *
96060783 TACTAAAATAATAT-AAAAATAAAATACGTAAATAGTATATTTTAAAAAATAATATCCG---A-A
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
* * *
96060843 ACT-AA-AAT-AAAA-AAAGAGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAA
66 AATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAA
96060904 AATAATACATTTGAAACATTATG
131 AATAATACATTTGAAACATTATG
* * *
96060927 TACTAAAATAATATAAAAAAATAAAAATACAAAAATAGCATATTTTAAAAAATAAAATCCAAAAA
1 TACTAAAATAATAT-AAAAAAT-AAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAA
96060992 TAAAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACAC
64 T-AAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACAC
*
96061057 TAAAATAATACATTTGAAATATTATG
128 TAAAATAATACATTTGAAACATTATG
*
96061083 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAAAAT-
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
* * * * * *
96061147 -A-AAATGA-AAAAACAAACGGTCAAAATCAAATTTTTTTACTAAATTAATATAAAAAACACTAA
66 AATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAA
96061209 AATAATACATTTGAAACATTA-G
131 AATAATACATTTGAAACATTATG
96061231 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT-
96061296 AAATAAATA
65 AAATAAATA
96061305 CCAAAATATA
Statistics
Matches: 619, Mismatches: 36, Indels: 43
0.89 0.05 0.06
Matches are distributed among these distances:
144 49 0.08
146 41 0.07
147 37 0.06
148 67 0.11
149 72 0.12
150 31 0.05
151 38 0.06
152 10 0.02
153 24 0.04
154 68 0.11
155 99 0.16
156 83 0.13
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (153 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
AATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAA
AATAATACATTTGAAACATTATG
Found at i:96061027 original size:302 final size:298
Alignment explanation
Indices: 96060477--96061304 Score: 1309
Period size: 302 Copynumber: 2.7 Consensus size: 298
96060467 GCGGGTTTTT
* *
96060477 TACTAAAATGATATAAAAATAAAATACGAAAATAGTTTATTTTTAAAAAATAAAATACGAAAATA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATA-TTTTAAAAAATAAAATACGAAAAT-
* *
96060542 AAAAAATAAGAACAAAGGGCCAAAACCAGAGTTTTTTTACTAAATTAATATAAAAAACACTAAAA
64 --AAAATAA-AA-AAAGAGCCAAAATCAGAG-TTTTTTACTAAATTAATATAAAAAACACTAAAA
* * *
96060607 TAATACATTTGAAACATTATATAATAAAATAATAT-AAAAATAAAATACGAAAATAGGATATTTT
124 TAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGCATATTTT
*
96060671 AAAAAATAAAATCCGAAAATAGAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACT
189 AAAAAATAAAATCCGAAAATAAAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACT
96060736 AAATTAATATAAAAAAAACACTAAAATAATACATTTGAAACATTATG
254 AAATTAATAT--AAAAAACACTAAAATAATACATTTGAAACATTATG
* * * *
96060783 TACTAAAATAATATAAAAATAAAATACGTAAATAGTATATTTTAAAAAATAATATCCGAAACTAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATACGAAAATAA
96060848 AATAAAAAAAGAGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACA
66 AATAAAAAAAGAGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACA
*
96060913 TTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAAATACAAAAATAGCATATTTTAAAAA
131 TTTGAAACATTATGTACTAAAATAATAT-AAAAAAT-AAAATACGAAAATAGCATATTTTAAAAA
*
96060978 ATAAAATCCAAAAATAAAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATT
194 ATAAAATCCGAAAATAAAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATT
*
96061043 AATATAAAAAACACTAAAATAATACATTTGAAATATTATG
259 AATATAAAAAACACTAAAATAATACATTTGAAACATTATG
*
96061083 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAAAATA
1 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATACGAAAATA
* * * *
96061148 AAATGAAAAAACAAACGGTCAAAATCAAATTTTTTTACTAAATTAATATAAAAAACACTAAAATA
65 AAAT-AAAAAA-AGA--GCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATA
*
96061213 ATACATTTGAAACATTA-GTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAA
126 ATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGCATATTTTAA
96061277 AAAATAAAATCCGAAAATAAAATAAATA
191 AAAATAAAATCCGAAAATAAAATAAATA
96061305 CCAAAATATA
Statistics
Matches: 488, Mismatches: 26, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
299 66 0.14
300 64 0.13
301 58 0.12
302 157 0.32
303 9 0.02
304 15 0.03
305 83 0.17
306 36 0.07
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (298 bp):
TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATACGAAAATAA
AATAAAAAAAGAGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACA
TTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGCATATTTTAAAAAAT
AAAATCCGAAAATAAAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAA
TATAAAAAACACTAAAATAATACATTTGAAACATTATG
Found at i:96061263 original size:25 final size:25
Alignment explanation
Indices: 96061235--96061302 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 25
96061225 CATTAGTACT
96061235 AAAATAATATAAAAAATAAAATACG
1 AAAATAATATAAAAAATAAAATACG
*
96061260 AAAATAGTATATTTTAAAAAATAAAATCCG
1 AAAATA--ATA---TAAAAAATAAAATACG
*
96061290 AAAATAAAATAAA
1 AAAATAATATAAA
96061303 TACCAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
25 10 0.28
27 3 0.08
28 2 0.06
30 21 0.58
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.24
Consensus pattern (25 bp):
AAAATAATATAAAAAATAAAATACG
Found at i:96067703 original size:18 final size:19
Alignment explanation
Indices: 96067675--96067710 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
96067665 AAATTTACCT
96067675 TTTCTTTTCTTTCTTCTCC
1 TTTCTTTTCTTTCTTCTCC
96067694 TTTC-TTTCTTTCTTCTC
1 TTTCTTTTCTTTCTTCTC
96067711 TTCTATTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTTTCTTTCTTCTCC
Found at i:96069909 original size:22 final size:21
Alignment explanation
Indices: 96069874--96069930 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
96069864 TATTATATTC
*
96069874 ATATTTTAAGTTTATTTCTTT
1 ATATTTTAAATTTATTTCTTT
96069895 ATATTTTAAAATTTATTTCTTT
1 ATATTTT-AAATTTATTTCTTT
96069917 CAGTA-TTTAAATTT
1 -A-TATTTTAAATTT
96069931 CATGAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.22
22 19 0.59
23 4 0.12
24 2 0.06
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (21 bp):
ATATTTTAAATTTATTTCTTT
Found at i:96070549 original size:18 final size:18
Alignment explanation
Indices: 96070526--96070561 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
96070516 AGAAAATTGT
96070526 TATTTTCTTGCTGTTTTG
1 TATTTTCTTGCTGTTTTG
*
96070544 TATTTTCTTGTTGTTTTG
1 TATTTTCTTGCTGTTTTG
96070562 CTTCTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.08, G:0.17, T:0.69
Consensus pattern (18 bp):
TATTTTCTTGCTGTTTTG
Found at i:96070826 original size:17 final size:16
Alignment explanation
Indices: 96070780--96070830 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
96070770 GAAACTCTTA
96070780 TTTTAATGTTTTTAGTAT
1 TTTTAAT-TTTTTA-TAT
* *
96070798 TTTTGATGTTTTATAT
1 TTTTAATTTTTTATAT
96070814 TTTTAAATTTTTTATAT
1 TTTT-AATTTTTTATAT
96070831 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 7 0.25
17 15 0.54
18 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.69
Consensus pattern (16 bp):
TTTTAATTTTTTATAT
Found at i:96071145 original size:29 final size:29
Alignment explanation
Indices: 96071112--96071167 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
96071102 TTCAATCTCT
* *
96071112 ATATTTTTAAAATGTTTTTAATTAGTTTA
1 ATATTTTTAAAATATTATTAATTAGTTTA
*
96071141 ATATTTTTATAATATTATTAATTAGTT
1 ATATTTTTAAAATATTATTAATTAGTT
96071168 CAAATAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (29 bp):
ATATTTTTAAAATATTATTAATTAGTTTA
Found at i:96072439 original size:17 final size:18
Alignment explanation
Indices: 96072403--96072440 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
96072393 TGTGGGAATT
* *
96072403 AAAAAAAAGGTGAAATAG
1 AAAAAAAAGCTGAAAAAG
96072421 AAAAAAAAGCT-AAAAAG
1 AAAAAAAAGCTGAAAAAG
96072438 AAA
1 AAA
96072441 CAATTGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.74, C:0.03, G:0.16, T:0.08
Consensus pattern (18 bp):
AAAAAAAAGCTGAAAAAG
Found at i:96073335 original size:35 final size:35
Alignment explanation
Indices: 96073296--96073364 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
96073286 ACTTGCCTCT
*
96073296 TCCCACTTTCCCATGCTGTCTGCCACCAGCACCAC
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
96073331 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
96073365 TCACACACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.17, C:0.49, G:0.12, T:0.22
Consensus pattern (35 bp):
TCCCACTCTCCCATGCTGTCTGCCACCAGCACCAC
Found at i:96074345 original size:3 final size:3
Alignment explanation
Indices: 96074337--96074366 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
96074327 TGTGTTTCAA
96074337 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96074367 ATATCCTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:96074571 original size:22 final size:23
Alignment explanation
Indices: 96074543--96074597 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
96074533 CAATTTTTTA
96074543 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
96074565 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
96074589 -TA-ATATTAT
1 ATATATATTAT
96074598 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:96087239 original size:71 final size:71
Alignment explanation
Indices: 96087028--96087254 Score: 358
Period size: 71 Copynumber: 3.2 Consensus size: 71
96087018 TATTCGTTTC
* *
96087028 AAAAATCAACT-ATA-TGCGAGAATG-GTTGAGCCTCGGACACGCTGAGGTAA-TTTAATTCTAT
1 AAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGACACGCTGAGGTAATTTTATTTCTAT
96087089 TTTC-A
66 TTTCAA
*
96087094 AAAAATCAACTCATATTGCGAGAGGTGAG-TGAGCCTCGGACACGCTGAGGTAATTTAATTTCTA
1 AAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCGGACACGCTGAGGTAATTTTATTTCTA
96087158 TTTTCAA
65 TTTTCAA
96087165 AAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTATTTCTA
1 AAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTC-GGACACGCTGAGGTAATTTTATTTCTA
96087230 TTTTCAAA
65 TTTTC-AA
96087238 AAAAATCAACTCATATT
1 AAAAATCAACTCATATT
96087255 NNNNNNNNNN
Statistics
Matches: 148, Mismatches: 4, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
66 11 0.07
67 3 0.02
68 7 0.05
69 26 0.18
70 19 0.13
71 32 0.22
72 31 0.21
73 19 0.13
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (71 bp):
AAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCGGACACGCTGAGGTAATTTTATTTCTAT
TTTCAA
Found at i:96099089 original size:3 final size:3
Alignment explanation
Indices: 96099076--96099104 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
96099066 TTGTGTTTCA
96099076 TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96099105 ATATCCTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:96099309 original size:22 final size:23
Alignment explanation
Indices: 96099281--96099335 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
96099271 CAATTTTTTA
96099281 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
96099303 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
96099327 -TA-ATATTAT
1 ATATATATTAT
96099336 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:96102878 original size:20 final size:20
Alignment explanation
Indices: 96102853--96102892 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
96102843 ATATAAGAAA
96102853 ATTCTACTTTAGCTTCATTT
1 ATTCTACTTTAGCTTCATTT
96102873 ATTCTACTTTAGCTTCATTT
1 ATTCTACTTTAGCTTCATTT
96102893 CCATGCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTCTACTTTAGCTTCATTT
Found at i:96103297 original size:30 final size:32
Alignment explanation
Indices: 96103240--96103303 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 32
96103230 ATATATAAAC
*
96103240 TAAATAAAATAATAAAATATCTTATTAAATAT
1 TAAATAAAATAATAAAATATCTAATTAAATAT
*
96103272 TAAAT-AAATAAT-AATTATCTAATTAAATAT
1 TAAATAAAATAATAAAATATCTAATTAAATAT
96103302 TA
1 TA
96103304 TTAATATCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 18 0.60
31 7 0.23
32 5 0.17
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (32 bp):
TAAATAAAATAATAAAATATCTAATTAAATAT
Found at i:96104707 original size:24 final size:23
Alignment explanation
Indices: 96104671--96104718 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
96104661 TGATTATGTG
96104671 AAAATTTTCAATAAATAAAAAAAT
1 AAAATTTTCAAT-AATAAAAAAAT
*
96104695 AAAATTATT-AATATTAAAAAAAT
1 AAAATT-TTCAATAATAAAAAAAT
96104718 A
1 A
96104719 TAATATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
24 9 0.41
25 2 0.09
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATTTTCAATAATAAAAAAAT
Found at i:96104729 original size:22 final size:23
Alignment explanation
Indices: 96104686--96104731 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
96104676 TTTCAATAAA
*
96104686 TAAAAAAATAAAATTATTAATAT
1 TAAAAAAATAAAATTATAAATAT
*
96104709 TAAAAAAATATAA-TATAAATAT
1 TAAAAAAATAAAATTATAAATAT
96104731 T
1 T
96104732 TTTAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAAAAAATAAAATTATAAATAT
Found at i:96115777 original size:7 final size:7
Alignment explanation
Indices: 96115767--96115791 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
96115757 AACATGTTGC
96115767 TGCAGCA
1 TGCAGCA
96115774 TGCAGCA
1 TGCAGCA
96115781 TGCAGCA
1 TGCAGCA
96115788 TGCA
1 TGCA
96115792 TACAAGCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (7 bp):
TGCAGCA
Found at i:96119509 original size:3 final size:3
Alignment explanation
Indices: 96119501--96119528 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
96119491 GGACTCGTAT
96119501 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA T
96119529 AACAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:96119544 original size:13 final size:13
Alignment explanation
Indices: 96119526--96119551 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96119516 TCATCATCAT
96119526 CATAACAATAATA
1 CATAACAATAATA
96119539 CATAACAATAATA
1 CATAACAATAATA
96119552 AATCATCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
CATAACAATAATA
Found at i:96119681 original size:1 final size:1
Alignment explanation
Indices: 96119675--96119761 Score: 147
Period size: 1 Copynumber: 87.0 Consensus size: 1
96119665 GGATCACAGT
* **
96119675 AAAAAAAAAAAACATCAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
96119740 AAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAA
96119762 TGAAGTCAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 81 1.00
ACGTcount: A:0.97, C:0.02, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:96131590 original size:74 final size:74
Alignment explanation
Indices: 96131397--96132177 Score: 1176
Period size: 74 Copynumber: 10.5 Consensus size: 74
96131387 TTCCGTTTTC
* * ** *
96131397 AAAATTCAACTTATATTGCGAGAAATGGGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
96131462 TATTTTC-A
66 TATTTTCAA
96131470 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
96131535 TATTTTCAA
66 TATTTTCAA
96131544 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
96131609 TATTTTCAA
66 TATTTTCAA
96131618 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
96131683 TATTTTCAA
66 TATTTTCAA
* *
96131692 AAAAATCAACTCATATTGCGAGAGGTAAGGTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
96131757 TATTTTCAAA
66 TATTTTC-AA
* *
96131767 AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
*
96131832 TATTTTTAAAAA
66 TA-TTTT--CAA
* *
96131844 AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
*
96131909 TATTTTTAA
66 TATTTTCAA
* * * *
96131918 AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
*
96131983 TGTTTTCAAA
66 TATTTTC-AA
** ** *
96131993 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT-ATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTT-AATTT
96132057 CTATTTTC--
65 CTATTTTCAA
* * *
96132065 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTAATTTTAATT
* * *
96132129 TGTGTTGTCAA
64 TCTATTTTCAA
* *
96132140 AAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
96132178 AAGACATACT
Statistics
Matches: 657, Mismatches: 38, Indels: 23
0.92 0.05 0.03
Matches are distributed among these distances:
71 35 0.05
73 87 0.13
74 297 0.45
75 126 0.19
76 43 0.07
77 69 0.11
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
TATTTTCAA
Found at i:96131923 original size:226 final size:222
Alignment explanation
Indices: 96131397--96132177 Score: 1169
Period size: 226 Copynumber: 3.5 Consensus size: 222
96131387 TTCCGTTTTC
* * * *
96131397 AAAATTCAACTTATATTGCGAGAAATGGGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
*
96131462 TATTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
66 TATTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGACACGCTGAGGTAAT
*
96131526 TTTAATTTCTATTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
131 TTTAATTTCTATTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACG
96131590 CTGAGGTAATTTTAATTTCTATTTTCAA
196 CTGAGGTAATTTTAATTTCTATTTT-AA
*
96131618 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
*
96131683 TATTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGGTGAGCCTCGGGACACGCTGAGGTAAT
66 TATTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGACACGCTGAGGTAAT
*
96131748 TTTAATTTCTATTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGGACACG
131 TTTAATTTCTATTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACG
96131813 CTGAGGTAATTTTAATTTCTATTTTTAAAAA
196 CTGAGGTAATTTTAATTTCTA-TTTT---AA
*
96131844 AAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
* * *
96131909 TATTTTTAAAAAAATCAACTCATATTGCGAGAGATGAA-TTGAGCCTTGGGACACGCTGAGGTAA
66 TATTTTCAAAAAAATCAACTCATATTGCGAGAGGT-AAGTTGAGCCTCGGGACACGCTGAGGTAA
* * * **
96131973 TTTCAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
130 TTTTAATTTCTATTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACAC
*
96132038 GTTGAGGT-ATTTTCAATTTCTATTTT--
195 GCTGAGGTAATTTT-AATTTCTATTTTAA
* * * * *
96132064 CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGG--GACACGCTGAGGTAATTTTAATT
* * * * **
96132129 TGTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTC
64 TCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTC
96132178 AAGACATACT
Statistics
Matches: 512, Mismatches: 38, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
220 37 0.07
221 68 0.13
222 129 0.25
223 67 0.13
224 4 0.01
225 9 0.02
226 196 0.38
227 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (222 bp):
AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAATTTC
TATTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGACACGCTGAGGTAAT
TTTAATTTCTATTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACG
CTGAGGTAATTTTAATTTCTATTTTAA
Found at i:96132218 original size:226 final size:219
Alignment explanation
Indices: 96131392--96132263 Score: 1151
Period size: 226 Copynumber: 3.9 Consensus size: 219
96131382 GTTACTTCCG
* * *
96131392 TTTTCAAAATTCAACTTATATTGCGAGAAATGGGTTGAGCCTCGGGACACGCTGAGGTAATTTTA
1 TTTTCAAAA-TCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTA
96131457 ATTTCTATTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
65 ATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAG
* * * *
96131521 GTAATTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGA
130 GTAATTTCAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCAGGA
96131586 CACGCTGAGGTAATTTTAATTTCTA
195 CACGCTGAGGTAATTTTAATTTCTA
*
96131611 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTT
1 TTTTC---AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTAATTT
* *
96131676 TAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGGTGAGCCTCGGGACACGCTG
63 TAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTG
* *
96131741 AGGTAATTTTAATTTCTATTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCG
128 AGGTAATTTCAATTTCTATTTTC-AAAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCA
96131806 GGACACGCTGAGGTAATTTTAATTTCTA
192 GGACACGCTGAGGTAATTTTAATTTCTA
* *
96131834 TTTTTAAAAAAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCGGGACACGCTGAGGTAA
1 -TTTT-----CAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTAA
* * * *
96131899 TTTTAATTTCTATTTTTAAAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTTGGGACACG
60 TTTTAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
* * *
96131964 CTGAGGTAATTTCAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
125 CTGAGGTAATTTCAATTTCTATTTTC-AAAAAAATCAACTCATATTGCGAGAGATGAATTGAGCC
* *
96132029 TCAAGACACGTTGAGGT-ATTTTCAATTTCTA
189 TCAGGACACGCTGAGGTAATTTT-AATTTCTA
* * * *
96132060 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTAATTTC
1 TTTTCAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGG--GACACGCTGAGGTAATTTT
* * * * * ** ** *
96132125 AATTTGTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAAGACATACTTA
64 AATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGA
* * * *
96132190 GGT-ATTGTCAATTTTTTGTATGTTTC--AAAAATCAACTCATATTACGATAGGTGAATTGAGCC
129 GGTAATT-TCAA---TTTCTAT-TTTCAAAAAAATCAACTCATATTGCGAGAGATGAATTGAGCC
*
96132252 TCATGACACGCT
189 TCAGGACACGCT
96132264 AAATGAGTTG
Statistics
Matches: 581, Mismatches: 53, Indels: 34
0.87 0.08 0.05
Matches are distributed among these distances:
219 5 0.01
220 37 0.06
221 66 0.11
222 149 0.26
223 108 0.19
224 4 0.01
225 14 0.02
226 198 0.34
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (219 bp):
TTTTCAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTAATTTTAA
TTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGG
TAATTTCAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAGATGAATTGAGCCTCAGGAC
ACGCTGAGGTAATTTTAATTTCTA
Found at i:96133883 original size:3 final size:3
Alignment explanation
Indices: 96133875--96133904 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
96133865 TGTGTTTCAA
96133875 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96133905 ATATCCTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:96134110 original size:22 final size:23
Alignment explanation
Indices: 96134082--96134136 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
96134072 CAATTTTTTA
96134082 ATATATATTATATGAATA-ATTT
1 ATATATATTATATGAATATATTT
* *
96134104 ATATATAATATTATGTATATATTT
1 ATATATATTA-TATGAATATATTT
96134128 -TA-ATATTAT
1 ATATATATTAT
96134137 CAGTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 9 0.32
24 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
ATATATATTATATGAATATATTT
Found at i:96137708 original size:20 final size:20
Alignment explanation
Indices: 96137683--96137722 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
96137673 ATATAAGAAA
96137683 ATTCTACTTTAGCTTCATTT
1 ATTCTACTTTAGCTTCATTT
96137703 ATTCTACTTTAGCTTCATTT
1 ATTCTACTTTAGCTTCATTT
96137723 CCATGCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTCTACTTTAGCTTCATTT
Found at i:96138154 original size:23 final size:23
Alignment explanation
Indices: 96138111--96138154 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
96138101 TTATTAAAAT
*
96138111 ATTAAATAAATAATAATTATCTA
1 ATTAAATAAATAATAAATATCTA
* *
96138134 ATTAAATAATTATTAAATATC
1 ATTAAATAAATAATAAATATC
96138155 ACCAACATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTAAATAAATAATAAATATCTA
Found at i:96139561 original size:23 final size:22
Alignment explanation
Indices: 96139526--96139569 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
96139516 TGATTATGTG
96139526 AAAATTTTCAATAAATAAAAAAT
1 AAAATTTTCAAT-AATAAAAAAT
*
96139549 AAAATTATT-AATATTAAAAAA
1 AAAATT-TTCAATAATAAAAAA
96139570 ATATAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 9 0.47
24 2 0.11
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATTTTCAATAATAAAAAAT
Found at i:96139583 original size:22 final size:23
Alignment explanation
Indices: 96139542--96139585 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
96139532 TTCAATAAAT
*
96139542 AAAAAATAAAATTATTAATATTA
1 AAAAAATAAAATTATAAATATTA
*
96139565 AAAAAATATAA-TATAAATATT
1 AAAAAATAAAATTATAAATATT
96139586 TTTAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAAAATAAAATTATAAATATTA
Found at i:96150586 original size:7 final size:7
Alignment explanation
Indices: 96150576--96150600 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
96150566 AACATGTTGC
96150576 TGCAGCA
1 TGCAGCA
96150583 TGCAGCA
1 TGCAGCA
96150590 TGCAGCA
1 TGCAGCA
96150597 TGCA
1 TGCA
96150601 TACAAGCCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (7 bp):
TGCAGCA
Found at i:96154323 original size:3 final size:3
Alignment explanation
Indices: 96154315--96154395 Score: 60
Period size: 3 Copynumber: 27.0 Consensus size: 3
96154305 GGACTCGTAT
* * *
96154315 TCA TCA TCA TCA TCA TCA TCA TCA T-A ACAA TAA TCA TCA T-A ACAA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC-A TCA TCA TCA TCA TC-A
* * *
96154360 TAA TAA TCA TCA TCA TCA TAA TCA -CTA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TC-A TCA TCA TCA
96154396 AAAGAAGTCA
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
2 3 0.05
3 56 0.90
4 3 0.05
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (3 bp):
TCA
Found at i:96155512 original size:38 final size:37
Alignment explanation
Indices: 96155462--96155559 Score: 121
Period size: 38 Copynumber: 2.6 Consensus size: 37
96155452 TTAATTAATT
*
96155462 TTTTTAAAAA-TTTAAAAATTCAAAAAATATAAGAACTA
1 TTTTTAAAAATTTTAAAAATT-AAAAAATATAA-AAATA
*
96155500 TTTTTAAAAATTTTAAAAATTAAAAATTATAAAAATA
1 TTTTTAAAAATTTTAAAAATTAAAAAATATAAAAATA
*
96155537 TTTTT--TAATTTTAAAAAATTAAA
1 TTTTTAAAAATTTT-AAAAATTAAA
96155560 TAACTGCTTA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
35 6 0.11
36 10 0.18
37 9 0.16
38 20 0.36
39 10 0.18
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (37 bp):
TTTTTAAAAATTTTAAAAATTAAAAAATATAAAAATA
Found at i:96155524 original size:16 final size:16
Alignment explanation
Indices: 96155503--96155535 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
96155493 AGAACTATTT
*
96155503 TTAAAAATTTTAAAAA
1 TTAAAAATTATAAAAA
96155519 TTAAAAATTATAAAAA
1 TTAAAAATTATAAAAA
96155535 T
1 T
96155536 ATTTTTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAAAATTATAAAAA
Found at i:96156913 original size:39 final size:39
Alignment explanation
Indices: 96156859--96156973 Score: 221
Period size: 39 Copynumber: 2.9 Consensus size: 39
96156849 ATTCCCCTAC
96156859 ATTCCCCTACATTCAACAACTTTGTACATAAAATGAACT
1 ATTCCCCTACATTCAACAACTTTGTACATAAAATGAACT
96156898 ATTCCCCTACATTCAACAACTTTGTACATAAAATGAACT
1 ATTCCCCTACATTCAACAACTTTGTACATAAAATGAACT
*
96156937 ATTCCCCTACATTCAACAACTTTGTACATAAATTGAA
1 ATTCCCCTACATTCAACAACTTTGTACATAAAATGAA
96156974 GTACCCGCAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.31
Consensus pattern (39 bp):
ATTCCCCTACATTCAACAACTTTGTACATAAAATGAACT
Found at i:96159683 original size:6 final size:6
Alignment explanation
Indices: 96159660--96159695 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
96159650 AAACACTCAC
* *
96159660 TGATTC TGATTT TGATTT TGATTT CGATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
96159696 CGAACTCAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.17, C:0.06, G:0.17, T:0.61
Consensus pattern (6 bp):
TGATTT
Found at i:96159958 original size:64 final size:64
Alignment explanation
Indices: 96159888--96160141 Score: 368
Period size: 64 Copynumber: 4.0 Consensus size: 64
96159878 GATTTTGATG
* * *
96159888 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCCGTCAT
1 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
*
96159952 TGTTTGTATCTGTCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
* * * *
96160016 TGTTTGTATCTGCCATTGTATGAATGTCATTATCAAATTGATGTTTATTGTGTATATTTGCCAT
1 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
** * * * *
96160080 TGTTTGTATCTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
96160142 ACATTATTAA
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
62 34 0.20
63 2 0.01
64 138 0.79
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (64 bp):
TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATATCTGCCAT
Found at i:96159959 original size:16 final size:16
Alignment explanation
Indices: 96159934--96159970 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
96159924 ACTGATCTTT
96159934 ATTGTGTGTATCCGTC
1 ATTGTGTGTATCCGTC
* *
96159950 ATTGTTTGTATCTGTC
1 ATTGTGTGTATCCGTC
96159966 ATTGT
1 ATTGT
96159971 ATGAATGCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.51
Consensus pattern (16 bp):
ATTGTGTGTATCCGTC
Found at i:96160144 original size:38 final size:38
Alignment explanation
Indices: 96160102--96160179 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
96160092 CCATTAAATT
96160102 ATACATTATTAAACTGATGTTTATTGTGTATATCTGCC
1 ATACATTATTAAACTGATGTTTATTGTGTATATCTGCC
96160140 ATACATTATTAAACTGATGTTTATTGTGTATATCTGCC
1 ATACATTATTAAACTGATGTTTATTGTGTATATCTGCC
96160178 AT
1 AT
96160180 TGTTTGTATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (38 bp):
ATACATTATTAAACTGATGTTTATTGTGTATATCTGCC
Found at i:96160159 original size:100 final size:100
Alignment explanation
Indices: 96160043--96160241 Score: 371
Period size: 100 Copynumber: 2.0 Consensus size: 100
96160033 GTATGAATGT
* *
96160043 CATTATCAAATTGATGTTTATTGTGTATATTTGCCATTGTTTGTATCTGCCATTAAATTATACAT
1 CATTATCAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATACAT
96160108 TATTAAACTGATGTTTATTGTGTATATCTGCCATA
66 TATTAAACTGATGTTTATTGTGTATATCTGCCATA
*
96160143 CATTATTAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATACAT
1 CATTATCAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATACAT
96160208 TATTAAACTGATGTTTATTGTGTATATCTGCCAT
66 TATTAAACTGATGTTTATTGTGTATATCTGCCAT
96160242 TGTTTGTATC
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 96 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.47
Consensus pattern (100 bp):
CATTATCAAACTGATGTTTATTGTGTATATCTGCCATTGTTTGTATCTGCCATTAAATTATACAT
TATTAAACTGATGTTTATTGTGTATATCTGCCATA
Found at i:96160555 original size:15 final size:15
Alignment explanation
Indices: 96160535--96160576 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
96160525 AGAAAACGTA
96160535 TCTGGTAGTGATGTG
1 TCTGGTAGTGATGTG
*
96160550 TCTGGTAGTGAAGTG
1 TCTGGTAGTGATGTG
96160565 TCTGGTAGTGAT
1 TCTGGTAGTGAT
96160577 AGTGATGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.17, C:0.07, G:0.38, T:0.38
Consensus pattern (15 bp):
TCTGGTAGTGATGTG
Found at i:96162375 original size:40 final size:43
Alignment explanation
Indices: 96162213--96162390 Score: 256
Period size: 43 Copynumber: 4.2 Consensus size: 43
96162203 TTGCTGATCA
* *
96162213 CATGCAGTGATTGTTGGAAAGCTATTGACT-TTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
* * *
96162255 TATGCAATGATTATTGGAAAGTTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
96162298 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
* *
96162341 CATGCAATGATTGTT-G-ATG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
*
96162381 CATGTAATGA
1 CATGCAATGA
96162391 GTTTTTTTAT
Statistics
Matches: 124, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 29 0.23
41 2 0.02
42 26 0.21
43 67 0.54
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (43 bp):
CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
Found at i:96162390 original size:83 final size:85
Alignment explanation
Indices: 96162213--96162390 Score: 263
Period size: 83 Copynumber: 2.1 Consensus size: 85
96162203 TTGCTGATCA
* *
96162213 CATGCAGTGATTGTTGGAAAGCTATTGACTTTTTTTAATATGTATGCAATGATTATTGGAAAGTT
1 CATGCAATGATTGTTGGAAAGCTATTGACTTTTTTTAATATGCATGCAATGATTATTGGAAAGTT
96162278 GTTGACTATTTTTTAATATG
66 GTTGACTATTTTTTAATATG
* * *
96162298 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATGCATGCAATGATTGTT-G-ATG-
1 CATGCAATGATTGTTGGAAAGCTATTGACT-TTTTTTAATATGCATGCAATGATTATTGGAAAGT
*
96162360 TGTTGCCTATTTTTTAATATG
65 TGTTGACTATTTTTTAATATG
*
96162381 CATGTAATGA
1 CATGCAATGA
96162391 GTTTTTTTAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
83 29 0.34
84 2 0.02
85 29 0.34
86 25 0.29
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (85 bp):
CATGCAATGATTGTTGGAAAGCTATTGACTTTTTTTAATATGCATGCAATGATTATTGGAAAGTT
GTTGACTATTTTTTAATATG
Found at i:96163034 original size:21 final size:21
Alignment explanation
Indices: 96163010--96163057 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
96163000 GTCTGATCCT
*
96163010 AGCAAGAGGCTACCCCAAGTC
1 AGCAAGAGGCTACCCCAACTC
*
96163031 AGCAAGAGGGTACCCCAACTC
1 AGCAAGAGGCTACCCCAACTC
*
96163052 AACAAG
1 AGCAAG
96163058 GTGTCCCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.31, G:0.23, T:0.08
Consensus pattern (21 bp):
AGCAAGAGGCTACCCCAACTC
Found at i:96164035 original size:27 final size:26
Alignment explanation
Indices: 96163998--96164112 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
96163988 AGCATGGCTG
* *
96163998 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
96164024 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
96164052 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
96164079 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
96164106 CCAGAAC
1 CCAGAAC
96164113 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:96164057 original size:54 final size:54
Alignment explanation
Indices: 96163998--96164112 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
96163988 AGCATGGCTG
*
96163998 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
96164052 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
96164106 CCAGAAC
1 CCAGAAC
96164113 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:96165764 original size:26 final size:26
Alignment explanation
Indices: 96165728--96165837 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
96165718 CATGAAATTC
* *
96165728 TTATCGTGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
96165754 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
96165780 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
96165806 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
96165832 TTATCA
1 TTATCA
96165838 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:96166663 original size:56 final size:56
Alignment explanation
Indices: 96166569--96166680 Score: 172
Period size: 56 Copynumber: 2.0 Consensus size: 56
96166559 TTATCATGCT
* *
96166569 ATTTGTTATCCAACTGTTATCTTTTCTAACTAGCAGCCATGTATACCAACTGTTAA
1 ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
* *
96166625 ATTTGTATAT-CAATTGTTATCTTTTCTAACCAGTAGCCATGTATACCAAATGTTAA
1 ATTTGT-TATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
96166681 GCAATTTGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 48 0.94
57 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (56 bp):
ATTTGTTATCCAACTGTTATCTTTTCTAACCAGCAGCCATGTATACCAAATGTTAA
Found at i:96166769 original size:28 final size:30
Alignment explanation
Indices: 96166737--96166795 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
96166727 AGCCATTTTT
96166737 AACAC-ATGT-TAAGCAACAAAAATATTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
* * *
96166765 AACACAATTTGTAATCAACAAAAATTTTCC
1 AACACAATGTGTAAGCAACAAAAATATTCC
96166795 A
1 A
96166796 TTTCATTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 3 0.12
30 18 0.69
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.25
Consensus pattern (30 bp):
AACACAATGTGTAAGCAACAAAAATATTCC
Found at i:96167255 original size:3 final size:3
Alignment explanation
Indices: 96167247--96167289 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
96167237 CCTCTTCTCA
*
96167247 TTC TTC TTC TTC -TC TTCC TGC TTC -TC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TT
96167290 TTTCCAAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.11
3 29 0.83
4 2 0.06
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:96167264 original size:26 final size:26
Alignment explanation
Indices: 96167235--96167285 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
96167225 ATATCCATTT
96167235 TTCCT-CTTCTCATTCTTCTTCTTCTC
1 TTCCTGCTTCTC-TTCTTCTTCTTCTC
96167261 TTCCTGCTTCTCTTCTTCTTCTTCT
1 TTCCTGCTTCTCTTCTTCTTCTTCT
96167286 TCTTTTTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.02, C:0.37, G:0.02, T:0.59
Consensus pattern (26 bp):
TTCCTGCTTCTCTTCTTCTTCTTCTC
Found at i:96176069 original size:16 final size:16
Alignment explanation
Indices: 96176048--96176078 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96176038 CAAAATTCTT
96176048 GGACAATCTTCTCATA
1 GGACAATCTTCTCATA
*
96176064 GGACAATCTTTTCAT
1 GGACAATCTTCTCAT
96176079 TCCATATGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (16 bp):
GGACAATCTTCTCATA
Found at i:96181599 original size:16 final size:15
Alignment explanation
Indices: 96181573--96181606 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
96181563 ATTAATTTTT
96181573 AAATTTTAAAAATTA
1 AAATTTTAAAAATTA
96181588 AAATTATTAAAAATTA
1 AAATT-TTAAAAATTA
96181604 AAA
1 AAA
96181607 ACATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTTTAAAAATTA
Found at i:96182592 original size:20 final size:20
Alignment explanation
Indices: 96182567--96182606 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
96182557 ATGATCTAAC
*
96182567 TGCCATATTTTATATTCCAT
1 TGCCATATTTCATATTCCAT
96182587 TGCCATATTTCATATTCCAT
1 TGCCATATTTCATATTCCAT
96182607 AGATCATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.05, T:0.47
Consensus pattern (20 bp):
TGCCATATTTCATATTCCAT
Found at i:96191353 original size:9 final size:9
Alignment explanation
Indices: 96191341--96191539 Score: 77
Period size: 9 Copynumber: 21.0 Consensus size: 9
96191331 TTTTATGATT
96191341 TTTTTATAA
1 TTTTTATAA
*
96191350 TTTTTATTA
1 TTTTTATAA
96191359 TTTTATATTAA
1 TTTT-TA-TAA
* *
96191370 TTTTAATAC
1 TTTTTATAA
96191379 TTTTTATAA
1 TTTTTATAA
*
96191388 TTTTTATGA
1 TTTTTATAA
96191397 TTTTTATAA
1 TTTTTATAA
**
96191406 AATTTA-ATA
1 TTTTTATA-A
96191415 TGTCTTTATAAA
1 T-T-TTTAT-AA
*
96191427 ATTTTA-AA
1 TTTTTATAA
96191435 TATGCTTTATTAA
1 T-T--TTTA-TAA
96191448 -TTTTATAAA
1 TTTTTAT-AA
*
96191457 TATTTTAGAA
1 T-TTTTATAA
*
96191467 -TTTTAT-G
1 TTTTTATAA
96191474 TTTTTGATAA
1 TTTTT-ATAA
**
96191484 AATTTATATA
1 TTTTTATA-A
96191494 TTTTT-TAA
1 TTTTTATAA
96191502 TTTTTATAA
1 TTTTTATAA
* *
96191511 GATTATATCAA
1 -TTTTTAT-AA
* *
96191522 TTTTCATAT
1 TTTTTATAA
96191531 TTTTTATAA
1 TTTTTATAA
96191540 AGATTTTCTG
Statistics
Matches: 138, Mismatches: 30, Indels: 44
0.65 0.14 0.21
Matches are distributed among these distances:
8 19 0.14
9 67 0.49
10 25 0.18
11 23 0.17
12 1 0.01
13 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:96191390 original size:18 final size:17
Alignment explanation
Indices: 96191341--96191505 Score: 82
Period size: 20 Copynumber: 8.8 Consensus size: 17
96191331 TTTTATGATT
*
96191341 TTTTTATAATTTTTATTA
1 TTTTTATAA-TTTTAATA
96191359 TTTTATATTAATTTTAATA
1 TTTT-TA-TAATTTTAATA
*
96191378 CTTTTTATAATTTTTATGA
1 -TTTTTATAATTTTAAT-A
*
96191397 TTTTTATAAAATTTAATA
1 TTTTTAT-AATTTTAATA
96191415 TGTCTTTATAAAATTTTAAATA
1 T-T-TTTAT--AATTTT-AATA
* *
96191437 TGCTTTATTAATTTTATAAA
1 T-TTTTA-TAATTTTA-ATA
* *
96191457 TATTTTAGAATTTT-ATG
1 T-TTTTATAATTTTAATA
*
96191474 TTTTTGATAAAATTTATATA
1 TTTTT-AT-AATTTTA-ATA
96191494 TTTTT-TAATTTT
1 TTTTTATAATTTT
96191506 TATAAGATTA
Statistics
Matches: 116, Mismatches: 16, Indels: 31
0.71 0.10 0.19
Matches are distributed among these distances:
16 4 0.03
17 8 0.07
18 28 0.24
19 27 0.23
20 32 0.28
21 10 0.09
22 7 0.06
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (17 bp):
TTTTTATAATTTTAATA
Found at i:96191425 original size:38 final size:38
Alignment explanation
Indices: 96191341--96191414 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
96191331 TTTTATGATT
* * *
96191341 TTTTTATAATTTTTATTATTTTATATTAATTTTAATAC
1 TTTTTATAATTTTTATGATTTTATATAAAATTTAATAC
96191379 TTTTTATAATTTTTATGATTTT-TATAAAATTTAATA
1 TTTTTATAATTTTTATGATTTTATATAAAATTTAATA
96191415 TGTCTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 12 0.36
38 21 0.64
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (38 bp):
TTTTTATAATTTTTATGATTTTATATAAAATTTAATAC
Found at i:96191456 original size:22 final size:22
Alignment explanation
Indices: 96191399--96191459 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 22
96191389 TTTTATGATT
96191399 TTTATAAAA-TTT-AATATGTC
1 TTTATAAAATTTTAAATATGTC
96191419 TTTATAAAATTTTAAATATG-C
1 TTTATAAAATTTTAAATATGTC
* *
96191440 TTTATTAATTTTATAAATAT
1 TTTATAAAATTT-TAAATAT
96191460 TTTAGAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.25
21 14 0.39
22 13 0.36
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (22 bp):
TTTATAAAATTTTAAATATGTC
Found at i:96194554 original size:93 final size:92
Alignment explanation
Indices: 96194446--96194711 Score: 318
Period size: 93 Copynumber: 2.9 Consensus size: 92
96194436 GAAGATGGTT
* * * ** * *
96194446 TAGAGTGTAAGATTATTTAGTATATTATCATGTATTTAATATTATCTTATTTTATCCATTTAGTT
1 TAGAATGTAAGATTATTTAGTACAATATCGGGTATATAATATTATCTTATTTTATTCATTTAGTT
*
96194511 GGAGGGTAAAATTTTACTGTTTAGTTGA
66 -GAGGGTAAAATTTTACTATTTAGTTGA
* * * * *
96194539 TAGAATGTAAAATTATTTAGTACACTATCGGGTATGTAATATTAGCTTATTTGATTCATTTAGTT
1 TAGAATGTAAGATTATTTAGTACAATATCGGGTATATAATATTATCTTATTTTATTCATTTAGTT
* * *
96194604 AGAAGGTAAAATTTTGCTATTTGGTTGA
66 -GAGGGTAAAATTTTACTATTTAGTTGA
* * *
96194632 TGGAATGTAAGATTATTTAGTACAACATCGGGTATATAATATTATCTTA-TTTATTTCATTTTGC
1 TAGAATGTAAGATTATTTAGTACAATATCGGGTATATAATATTATCTTATTTTA-TTCATTTAG-
96194696 TTGAGGGTAAAATTTT
64 TTGAGGGTAAAATTTT
96194712 TGATAAATTG
Statistics
Matches: 147, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
92 3 0.02
93 142 0.97
94 2 0.01
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.45
Consensus pattern (92 bp):
TAGAATGTAAGATTATTTAGTACAATATCGGGTATATAATATTATCTTATTTTATTCATTTAGTT
GAGGGTAAAATTTTACTATTTAGTTGA
Found at i:96196548 original size:22 final size:22
Alignment explanation
Indices: 96196520--96196564 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
96196510 GAATGTAAGA
96196520 TTACCTCTACCAATAAAATTAC
1 TTACCTCTACCAATAAAATTAC
96196542 TTACCTCTACCAATAAAATTAC
1 TTACCTCTACCAATAAAATTAC
96196564 T
1 T
96196565 GGAATGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (22 bp):
TTACCTCTACCAATAAAATTAC
Found at i:96207775 original size:36 final size:36
Alignment explanation
Indices: 96207735--96207807 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
96207725 AATTTTTTTA
96207735 TTGATTTTGATATATTCACATATATTTTTTTCATAT
1 TTGATTTTGATATATTCACATATATTTTTTTCATAT
*
96207771 TTGATTTTGATATATTCACGTATATTTTTTTCATAT
1 TTGATTTTGATATATTCACATATATTTTTTTCATAT
96207807 T
1 T
96207808 CATTTTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.26, C:0.08, G:0.07, T:0.59
Consensus pattern (36 bp):
TTGATTTTGATATATTCACATATATTTTTTTCATAT
Found at i:96211737 original size:23 final size:23
Alignment explanation
Indices: 96211655--96211741 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
96211645 CCTAATCAGT
*
96211655 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
96211677 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
96211697 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
96211720 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
96211742 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:96212138 original size:15 final size:15
Alignment explanation
Indices: 96212113--96212170 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
96212103 TTATATATAT
96212113 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
96212129 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
96212144 AATAATTTCAATCAA
1 TATAAATTCAATCAA
*
96212159 TAAAAATTCAAT
1 TATAAATTCAAT
96212171 AAATTCATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:96213453 original size:5 final size:5
Alignment explanation
Indices: 96213445--96213476 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
96213435 TCTTTAGTTT
*
96213445 ATATA ATATA ATATA AGATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA AT
96213477 TAAAACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:96217423 original size:15 final size:16
Alignment explanation
Indices: 96217403--96217432 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96217393 TTTCATTTTT
96217403 ATATAT-AAAAATATA
1 ATATATCAAAAATATA
96217418 ATATATCAAAAATAT
1 ATATATCAAAAATAT
96217433 TAAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
ATATATCAAAAATATA
Found at i:96217643 original size:22 final size:22
Alignment explanation
Indices: 96217582--96217645 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
96217572 TCCAGACAAT
* * *
96217582 AACAACATAATAGTTAAATGAC
1 AACAAAATAATAGTAAAATAAC
* * *
96217604 AATAAAATAGTAGAAAAATAAC
1 AACAAAATAATAGTAAAATAAC
*
96217626 AACAAAATAACAGTAAAATA
1 AACAAAATAATAGTAAAATA
96217646 GTAAAATTTT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.64, C:0.09, G:0.08, T:0.19
Consensus pattern (22 bp):
AACAAAATAATAGTAAAATAAC
Found at i:96222855 original size:5 final size:5
Alignment explanation
Indices: 96222845--96222895 Score: 102
Period size: 5 Copynumber: 10.2 Consensus size: 5
96222835 TATAATTAAA
96222845 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
96222895 A
1 A
96222896 GCTCGACTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:96223965 original size:24 final size:24
Alignment explanation
Indices: 96223938--96223989 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
96223928 TTAGTAAGTC
*
96223938 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
96223962 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
96223986 AAAT
1 AAAT
96223990 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:96225935 original size:24 final size:24
Alignment explanation
Indices: 96225908--96225959 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
96225898 TTAGTAAGTC
*
96225908 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
96225932 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
96225956 AAAT
1 AAAT
96225960 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Done.