Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 275 of 310
Found at i:90743545 original size:30 final size:30
Alignment explanation
Indices: 90743509--90743566 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
90743499 CAATTTAACA
*
90743509 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
* *
90743539 AGCAAATGTCTTTAAAATAATAAAAAAA
1 AGCAAATGCCTCTAAAATAATAAAAAAA
90743567 ATTAACAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.24
Consensus pattern (30 bp):
AGCAAATGCCTCTAAAATAATAAAAAAATT
Found at i:90761501 original size:11 final size:11
Alignment explanation
Indices: 90761485--90761520 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
90761475 NAAAAAAAAA
90761485 GAAGAGAGAGG
1 GAAGAGAGAGG
*
90761496 GAAGAGAGAAG
1 GAAGAGAGAGG
90761507 GAAGAGAGAAGG
1 GAAGAGAG-AGG
90761519 GA
1 GA
90761521 GGGGGGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:90764404 original size:33 final size:33
Alignment explanation
Indices: 90764367--90764470 Score: 163
Period size: 33 Copynumber: 3.2 Consensus size: 33
90764357 CTTCTTCATC
* * *
90764367 AGAGTCTCTTTCTTCCACTGGATCCTCCCTACT
1 AGAGTCTCTTTCTTTCACTGAATCCTCTCTACT
90764400 AGAGTCTCTTTCTTTCACTGAATCCTCTCTACT
1 AGAGTCTCTTTCTTTCACTGAATCCTCTCTACT
* *
90764433 AGAGTTTCCTTCTTTCACTGAATCCTCTCTACT
1 AGAGTCTCTTTCTTTCACTGAATCCTCTCTACT
90764466 AGAGT
1 AGAGT
90764471 TTCCTTCTAC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.18, C:0.31, G:0.12, T:0.39
Consensus pattern (33 bp):
AGAGTCTCTTTCTTTCACTGAATCCTCTCTACT
Found at i:90766310 original size:26 final size:26
Alignment explanation
Indices: 90766274--90766327 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
90766264 GATTTCATCT
*
90766274 ATGTTTACTAGATTAATGACTAATTG
1 ATGTTCACTAGATTAATGACTAATTG
*
90766300 ATGTTCACTAGATTGATGACTAATTG
1 ATGTTCACTAGATTAATGACTAATTG
90766326 AT
1 AT
90766328 TAAAACCGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (26 bp):
ATGTTCACTAGATTAATGACTAATTG
Found at i:90768122 original size:35 final size:35
Alignment explanation
Indices: 90768083--90768153 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
90768073 CATCGTACCC
90768083 AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
1 AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
*
90768118 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
90768153 A
1 A
90768154 AAAGAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.27, C:0.35, G:0.25, T:0.13
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAGCCGCGACAGAATA
Found at i:90774351 original size:37 final size:37
Alignment explanation
Indices: 90774294--90774445 Score: 173
Period size: 37 Copynumber: 3.9 Consensus size: 37
90774284 TATGATCACT
*
90774294 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCCACC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
* *
90774329 TATCACTTTGTTTCTTGATCAGATAAGTGTAGCCACT
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
90774366 TATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TATCACTTTGTCTCTTGATCAGATAAGTGTAGC-----C-A-C-C
*
90774411 TTATCACTTTGTCTCTTGATCAGATAAGTATAGCC
1 -TATCACTTTGTCTCTTGATCAGATAAGTGTAGCC
90774446 GAAGCTATCA
Statistics
Matches: 100, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
35 6 0.06
36 4 0.04
37 54 0.54
41 1 0.01
42 1 0.01
43 1 0.01
44 1 0.01
46 32 0.32
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
TATCACTTTGTCTCTTGATCAGATAAGTGTAGCCACC
Found at i:90774429 original size:46 final size:46
Alignment explanation
Indices: 90774362--90774630 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
90774352 TAAGTGTAGC
* **
90774362 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
90774408 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
90774454 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
90774506 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
90774552 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
90774604 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
90774631 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:90774481 original size:52 final size:52
Alignment explanation
Indices: 90774405--90774624 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
90774395 TAGCTAAAGC
* *
90774405 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
90774458 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
90774510 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
90774556 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
90774608 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
90774625 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:90774527 original size:98 final size:98
Alignment explanation
Indices: 90774362--90774630 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
90774352 TAAGTGTAGC
* * *
90774362 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
90774427 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
90774461 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
90774526 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
90774559 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
90774624 GATCAGA
66 GATCAGA
90774631 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:90777811 original size:49 final size:49
Alignment explanation
Indices: 90777756--90777901 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
90777746 TTCGTTTTCT
* *
90777756 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
90777805 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
90777854 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
90777902 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:90779215 original size:37 final size:37
Alignment explanation
Indices: 90779154--90779299 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
90779144 TACGTATGAT
* *
90779154 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
90779189 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
90779226 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
90779263 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
90779300 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:90779316 original size:46 final size:46
Alignment explanation
Indices: 90779263--90779531 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
90779253 TAAGTGTAGC
* **
90779263 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
90779309 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
90779355 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
90779407 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
90779453 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
90779505 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
90779532 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:90779382 original size:52 final size:52
Alignment explanation
Indices: 90779306--90779525 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
90779296 TAGCTAAAGC
* *
90779306 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
90779359 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
90779411 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
90779457 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
90779509 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
90779526 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:90779428 original size:98 final size:98
Alignment explanation
Indices: 90779263--90779531 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
90779253 TAAGTGTAGC
* * *
90779263 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
90779328 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
90779362 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
90779427 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
90779460 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
90779525 GATCAGA
66 GATCAGA
90779532 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:90782277 original size:19 final size:20
Alignment explanation
Indices: 90782253--90782292 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
90782243 AGATAAATTT
*
90782253 TCATAAAATTT-GAATTTCA
1 TCATAAAATTTAAAATTTCA
*
90782272 TCATAATATTTAAAATTTCA
1 TCATAAAATTTAAAATTTCA
90782292 T
1 T
90782293 TTTTTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (20 bp):
TCATAAAATTTAAAATTTCA
Found at i:90790009 original size:19 final size:20
Alignment explanation
Indices: 90789967--90790016 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
90789957 ATTACAAAAT
*
90789967 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAAATTTTAAA
*
90789987 AATTTAAAATAAATTTT-AA
1 AATTCAAAATAAATTTTAAA
90790006 AATTCAAAATA
1 AATTCAAAATA
90790017 TCAAACAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTCAAAATAAATTTTAAA
Found at i:90796062 original size:52 final size:51
Alignment explanation
Indices: 90795934--90796136 Score: 175
Period size: 52 Copynumber: 4.0 Consensus size: 51
90795924 TGACAGAAAA
* * * **
90795934 GATGTGATATATGTTTCCGTATAAGACCATAGCCGAGCTATGGCATCGGTAC
1 GATGTGATATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
* * * *
90795986 AATGTGATTTGCGTTCCCGCATAAGACCATAGCTGGGCTAT-GCATCGGTGT
1 GATGTGATATGTGTT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
** *
90796037 GATGTGATAATGTGATTCCGTATAAGACCATATTTGGGATATGGCATC-G-GT
1 GATGTGAT-ATGTG-TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
* * * * *
90796088 -A--TGATATGTGATCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGT
1 GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
90796136 G
1 G
90796137 TGATGTGTGA
Statistics
Matches: 120, Mismatches: 24, Indels: 17
0.75 0.15 0.11
Matches are distributed among these distances:
46 25 0.21
47 6 0.05
48 6 0.05
50 1 0.01
51 19 0.16
52 56 0.47
53 7 0.06
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (51 bp):
GATGTGATATGTGTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGT
Found at i:90797348 original size:26 final size:27
Alignment explanation
Indices: 90797290--90797361 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 27
90797280 CAAGTAAGAC
*
90797290 TAAAAT-ATATATAATAATATAAAAAG
1 TAAAATAAAATATAATAATATAAAAAG
* *
90797316 T-AGATAAAATATAATGATATAAAAA-
1 TAAAATAAAATATAATAATATAAAAAG
90797341 TAAAATAAGAATA-AAGTAATA
1 TAAAATAA-AATATAA-TAATA
90797362 GGTAATAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 4 0.11
26 25 0.68
27 8 0.22
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (27 bp):
TAAAATAAAATATAATAATATAAAAAG
Found at i:90798335 original size:13 final size:13
Alignment explanation
Indices: 90798319--90798344 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90798309 TTTATTTGGT
90798319 TTATTGGGTTTTG
1 TTATTGGGTTTTG
90798332 TTATTGGGTTTTG
1 TTATTGGGTTTTG
90798345 GGGGTGGCCC
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:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TTATTGGGTTTTG
Found at i:90816906 original size:33 final size:32
Alignment explanation
Indices: 90816849--90816913 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
90816839 CAACAACCAT
* * *
90816849 CAACCAAAAAAATAATAGCCCATCAAACATCAA
1 CAACCAAAAAAATAACAACACATCAAAC-TCAA
*
90816882 CAACCAAAAAAGTAACAACACATCAAACTCAA
1 CAACCAAAAAAATAACAACACATCAAACTCAA
90816914 ACTCCACTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.58, C:0.28, G:0.03, T:0.11
Consensus pattern (32 bp):
CAACCAAAAAAATAACAACACATCAAACTCAA
Found at i:90822417 original size:18 final size:19
Alignment explanation
Indices: 90822394--90822431 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
90822384 GGAAGCAAGC
*
90822394 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
90822412 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
90822431 A
1 A
90822432 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:90831189 original size:14 final size:13
Alignment explanation
Indices: 90831168--90831196 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
90831158 TAAATACTAT
90831168 AATTTTTTTTCAA
1 AATTTTTTTTCAA
90831181 AATTTTTTTTCAA
1 AATTTTTTTTCAA
90831194 AAT
1 AAT
90831197 CACTATTAAA
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:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (13 bp):
AATTTTTTTTCAA
Found at i:90833472 original size:19 final size:19
Alignment explanation
Indices: 90833448--90833487 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
90833438 GATATTGATT
90833448 GAATTTATTTCCAATTTTC
1 GAATTTATTTCCAATTTTC
90833467 GAATTTATTTCCAATTTTC
1 GAATTTATTTCCAATTTTC
90833486 GA
1 GA
90833488 CATTCATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (19 bp):
GAATTTATTTCCAATTTTC
Found at i:90839450 original size:48 final size:48
Alignment explanation
Indices: 90839338--90839470 Score: 178
Period size: 48 Copynumber: 2.8 Consensus size: 48
90839328 TTCAGGTGCG
* *
90839338 AGTTCCCTTGAGTTGGCTTTGGGCCATGGTATAGGTA-TTCCGAGCGA
1 AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTACTTCCGAGCGA
** * **
90839385 AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTACTTTGGTGTTA
1 AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTACTTCCGAGCGA
* *
90839433 GGTTACCTTGAGTTGGCTTCGTGCCATGGTATAGGTAC
1 AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTAC
90839471 CTATCGTATG
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
47 35 0.46
48 41 0.54
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.35
Consensus pattern (48 bp):
AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTACTTCCGAGCGA
Found at i:90844379 original size:50 final size:50
Alignment explanation
Indices: 90844229--90844415 Score: 223
Period size: 50 Copynumber: 3.7 Consensus size: 50
90844219 CTGGTACGCA
* * * ** * *
90844229 TAGTAGCTTGCACTTAGTACTACACATGCGA-CCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGATCTAACCATCTGATACACG
* * *
90844278 TAGTAGCCTGCACTTAGTACTACACAACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACT-----ACACACGCGATCTAACCATCTGATACACG
90844333 TAGTAGCCTGCACTTAGTACTACACACGCGATCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGATCTAACCATCTGATACACG
*
90844383 TAGTAGCCTGCACTTAGTACTACACACGTGATC
1 TAGTAGCCTGCACTTAGTACTACACACGCGATC
90844416 GAAGTTATCG
Statistics
Matches: 119, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
49 20 0.17
50 58 0.49
54 8 0.07
55 33 0.28
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGATCTAACCATCTGATACACG
Found at i:90849444 original size:40 final size:41
Alignment explanation
Indices: 90849334--90849449 Score: 164
Period size: 40 Copynumber: 2.9 Consensus size: 41
90849324 TGAGTTACCA
* * * *
90849334 TAGTGAATCAGGAACAAATCCAATCCAC-TTAATATATTTC
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTATTTC
*
90849374 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTCTTT-
1 TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTATTTC
90849414 TAGTGAATCAGGAATAAATCCTATTCACTTTTAATT
1 TAGTGAATCAGGAATAAATCCTATTCAC-TTTAATT
90849450 CTCGAGAAGG
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
40 53 0.77
41 16 0.23
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.37
Consensus pattern (41 bp):
TAGTGAATCAGGAATAAATCCTATTCACTTTAATTTATTTC
Found at i:90850464 original size:14 final size:14
Alignment explanation
Indices: 90850447--90850479 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
90850437 ACAATTGTCA
90850447 TAATTTAATTTATT
1 TAATTTAATTTATT
*
90850461 TAATTTACTTTATT
1 TAATTTAATTTATT
90850475 TAATT
1 TAATT
90850480 AATATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
TAATTTAATTTATT
Found at i:90856882 original size:20 final size:22
Alignment explanation
Indices: 90856852--90856899 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
90856842 GAATATGCTG
*
90856852 TAAATTGAAAG-TTTTTGATAGA
1 TAAA-TGAAAGATTATTGATAGA
90856874 -AAATGAAAGATTATTGATAGA
1 TAAATGAAAGATTATTGATAGA
90856895 TAAAT
1 TAAAT
90856900 CACTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (22 bp):
TAAATGAAAGATTATTGATAGA
Found at i:90857712 original size:65 final size:66
Alignment explanation
Indices: 90857601--90857728 Score: 170
Period size: 65 Copynumber: 2.0 Consensus size: 66
90857591 GAAAAGGAAA
* * * * *
90857601 GGTATACTTTGTGTATACCATATGAAAAGGCTATGTACACTATGTGTCTA-CACTTGGAAAGGTT
1 GGTATACTTTGTGTATACCATATAAAAAGGCAAGGTACACTATGTGTATACCACTTGAAAAGGTT
90857665 G
66 G
* *
90857666 GGTATACTTTGTGTATACCATATAAAAAGG-AAGGGTATACTTTGTGTATACCACTTGAAAAGG
1 GGTATACTTTGTGTATACCATATAAAAAGGCAA-GGTACACTATGTGTATACCACTTGAAAAGG
90857729 AAAGGTACAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
64 1 0.02
65 42 0.78
66 11 0.20
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (66 bp):
GGTATACTTTGTGTATACCATATAAAAAGGCAAGGTACACTATGTGTATACCACTTGAAAAGGTT
G
Found at i:90857773 original size:98 final size:98
Alignment explanation
Indices: 90857587--90857777 Score: 267
Period size: 98 Copynumber: 1.9 Consensus size: 98
90857577 CGGCTATCGA
* ** *
90857587 ATATGAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGCTATGTACACTATGTGTCTAC
1 ATATAAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTACACTATGTGTCTAC
* * *
90857652 ACTTGGAAAGGTTGGGTATACTTTGTGTATACC
66 ACTTGAAAAGGTTAGGTACACTTTGTGTATACC
* *
90857685 ATATAAAAAGGAAGGGTATACTTTGTGTATACCACT-TGAAAAGGAAAGGTACACTATGTGTGTA
1 ATATAAAAAGGAAAGGTATACTTTGTGTATACCA-TATGAAAAGGAAAGGTACACTATGTGTCTA
* *
90857749 CACTTGAAAAGGTTATGTGCACTTTGTGT
65 CACTTGAAAAGGTTAGGTACACTTTGTGT
90857778 GTACAAATTG
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 80 0.99
99 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.32
Consensus pattern (98 bp):
ATATAAAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTACACTATGTGTCTAC
ACTTGAAAAGGTTAGGTACACTTTGTGTATACC
Found at i:90857799 original size:33 final size:32
Alignment explanation
Indices: 90857590--90857835 Score: 158
Period size: 33 Copynumber: 7.5 Consensus size: 32
90857580 CTATCGAATA
* * * *
90857590 TGAAAAGGAAAGGTATACTTTGTGTATAC-CAT
1 TGAAAAGGATATGTACACTTTGTGTGTACAC-T
* * *
90857622 ATGAAAAGGCTATGTACACTATGTGTCTACACT
1 -TGAAAAGGATATGTACACTTTGTGTGTACACT
* * ** * *
90857655 TGGAAAGGTTGGGTATACTTTGTGTATAC-CAT
1 TGAAAAGGATATGTACACTTTGTGTGTACAC-T
* * * *
90857687 ATAAAAAGGA-AGGGTATACTTTGTGTATACCACT
1 -TGAAAAGGATA-TGTACACTTTGTGTGTA-CACT
* * *
90857721 TGAAAAGGAAAGGTACACTATGTGTGTACACT
1 TGAAAAGGATATGTACACTTTGTGTGTACACT
* * *
90857753 TGAAAAGGTTATGTGCACTTTGTGTGTACAAAT
1 TGAAAAGGATATGTACACTTTGTGTGTAC-ACT
* *
90857786 TGAAAAGGGTATGTACACTTCGTGTGTACTACT
1 TGAAAAGGATATGTACACTTTGTGTGTAC-ACT
90857819 TGAAAAAGGA-ATGTACA
1 TG-AAAAGGATATGTACA
90857836 TCTCGGGTGT
Statistics
Matches: 171, Mismatches: 33, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
31 1 0.01
32 51 0.30
33 108 0.63
34 10 0.06
35 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (32 bp):
TGAAAAGGATATGTACACTTTGTGTGTACACT
Found at i:90857835 original size:98 final size:98
Alignment explanation
Indices: 90857586--90857835 Score: 238
Period size: 98 Copynumber: 2.6 Consensus size: 98
90857576 TCGGCTATCG
* * * * **
90857586 AATATGAAAAGGAAAGGTATACTTTGTGTATACCA-TATGAAAAGGCTATGTACACTATGTGTCT
1 AATATAAAAAGGAAGGGTACACTTCGTGTATACCACT-TGAAAAGGAAATGTACACTATGTGTCT
* * *
90857650 ACACTTGGAAAGGTTGGGTATACTTTGTGTATAC
65 ACACTTGAAAAGGTTAGGTACACTTTGTGTATAC
* * * * *
90857684 CATATAAAAAGGAAGGGTATACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTATGTGTGTA
1 AATATAAAAAGGAAGGGTACACTTCGTGTATACCACTTGAAAAGGAAATGTACACTATGTGTCTA
* * *
90857749 CACTTGAAAAGGTTATGTGCACTTTGTGTGTAC
66 CACTTGAAAAGGTTAGGTACACTTTGTGTATAC
* * * * *
90857782 AA-ATTGAAAAGGGTA-TGTACACTTCGTGTGTACTACTTGAAAAAGG-AATGTACA
1 AATA-T-AAAAAGGAAGGGTACACTTCGTGTATACCACTTG-AAAAGGAAATGTACA
90857836 TCTCGGGTGT
Statistics
Matches: 126, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
97 1 0.01
98 111 0.88
99 14 0.11
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (98 bp):
AATATAAAAAGGAAGGGTACACTTCGTGTATACCACTTGAAAAGGAAATGTACACTATGTGTCTA
CACTTGAAAAGGTTAGGTACACTTTGTGTATAC
Found at i:90857846 original size:33 final size:33
Alignment explanation
Indices: 90857776--90857857 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
90857766 TGCACTTTGT
* * *
90857776 GTGTACAAATTGAAAAGGGTATGTACACTTCGT
1 GTGTACAAATTGAAAAAGGAATGTACACTTCGG
* *
90857809 GTGTACTACTTGAAAAAGGAATGTACA-TCTCGG
1 GTGTACAAATTGAAAAAGGAATGTACACT-TCGG
90857842 GTGTAC-AATTAGAAAA
1 GTGTACAAATT-GAAAA
90857858 GAAAAGGTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 4 0.10
33 37 0.90
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (33 bp):
GTGTACAAATTGAAAAAGGAATGTACACTTCGG
Found at i:90860345 original size:6 final size:6
Alignment explanation
Indices: 90860328--90860405 Score: 66
Period size: 6 Copynumber: 13.0 Consensus size: 6
90860318 CCTTTTGGAC
* * * * * * * *
90860328 CTCCTC CTCCTT CTCCTT CTACTT CTTCTT CTTCTC CTTCTT CTTCTC
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT
* *
90860376 CTGCTT CTCATT CTCCTT CTCCTT CTCCTT
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT
90860406 ATTATTATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.03, C:0.45, G:0.01, T:0.51
Consensus pattern (6 bp):
CTCCTT
Found at i:90860355 original size:9 final size:9
Alignment explanation
Indices: 90860337--90860401 Score: 51
Period size: 9 Copynumber: 7.2 Consensus size: 9
90860327 CCTCCTCCTC
*
90860337 CTTCTCCTT
1 CTTCTTCTT
*
90860346 CTACTTCTT
1 CTTCTTCTT
*
90860355 CTTCTTCTC
1 CTTCTTCTT
90860364 CTTCTTCTT
1 CTTCTTCTT
* *
90860373 CTCCTGCTT
1 CTTCTTCTT
*
90860382 C-TCATTCTC
1 CTTC-TTCTT
*
90860391 CTTCTCCTT
1 CTTCTTCTT
90860400 CT
1 CT
90860402 CCTTATTATT
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
8 1 0.02
9 39 0.93
10 2 0.05
ACGTcount: A:0.03, C:0.42, G:0.02, T:0.54
Consensus pattern (9 bp):
CTTCTTCTT
Found at i:90860362 original size:21 final size:21
Alignment explanation
Indices: 90860331--90860401 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
90860321 TTTGGACCTC
*
90860331 CTCCTCCTTCTCCTTCTACTT
1 CTCCTTCTTCTCCTTCTACTT
* *
90860352 CTTCTTCTTCTCCTTCTTCTT
1 CTCCTTCTTCTCCTTCTACTT
* * *
90860373 CTCCTGCTTCTCATTCTCCTT
1 CTCCTTCTTCTCCTTCTACTT
90860394 CTCCTTCT
1 CTCCTTCT
90860402 CCTTATTATT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.03, C:0.44, G:0.01, T:0.52
Consensus pattern (21 bp):
CTCCTTCTTCTCCTTCTACTT
Found at i:90860382 original size:15 final size:15
Alignment explanation
Indices: 90860328--90860404 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 15
90860318 CCTTTTGGAC
* *
90860328 CTCCTCCTCCTTCTC
1 CTCCTCCTTCTTCTT
* *
90860343 CTTCTACTTCTTCTT
1 CTCCTCCTTCTTCTT
*
90860358 CTTCTCCTTCTTCTT
1 CTCCTCCTTCTTCTT
* *
90860373 CTCCTGCTTC-TCAT
1 CTCCTCCTTCTTCTT
*
90860387 -T-CTCCTTCTCCTT
1 CTCCTCCTTCTTCTT
90860400 CTCCT
1 CTCCT
90860405 TATTATTATT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
12 6 0.12
13 3 0.06
14 4 0.08
15 35 0.73
ACGTcount: A:0.03, C:0.45, G:0.01, T:0.51
Consensus pattern (15 bp):
CTCCTCCTTCTTCTT
Found at i:90860402 original size:27 final size:27
Alignment explanation
Indices: 90860334--90860404 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
90860324 GGACCTCCTC
* *
90860334 CTCCTTCTCCTTCTACTTCTTCTTCTT
1 CTCCTTCTCCTTCTCCTGCTTCTTCTT
*
90860361 CTCCTTCTTCTTCTCCTGCTTC-TCATT
1 CTCCTTCTCCTTCTCCTGCTTCTTC-TT
90860388 CTCCTTCTCCTTCTCCT
1 CTCCTTCTCCTTCTCCT
90860405 TATTATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.05
27 37 0.95
ACGTcount: A:0.03, C:0.44, G:0.01, T:0.52
Consensus pattern (27 bp):
CTCCTTCTCCTTCTCCTGCTTCTTCTT
Found at i:90860501 original size:6 final size:6
Alignment explanation
Indices: 90860483--90860574 Score: 94
Period size: 6 Copynumber: 15.3 Consensus size: 6
90860473 TTTGGACCTC
* * * * * * *
90860483 CTCCTC CTCCTT CTGCTT CTGCTT CTACTT CTCTTT CTGCTT CTTCTT
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT
* * *
90860531 CTCCTT CTCATT CTCCTT CTCCTT CTCATT CTCCTC CTCCTT CT
1 CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CTCCTT CT
90860575 TTATTATTAT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.03, C:0.43, G:0.03, T:0.50
Consensus pattern (6 bp):
CTCCTT
Found at i:90860581 original size:3 final size:3
Alignment explanation
Indices: 90860575--90860626 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
90860565 TCCTCCTTCT
90860575 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
90860623 TTA T
1 TTA T
90860627 ACCTAAAGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:90861556 original size:16 final size:16
Alignment explanation
Indices: 90861535--90861572 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
90861525 AAAATATGCG
*
90861535 TTATATA-TATAATCAA
1 TTATATACT-TAATAAA
90861551 TTATATACTTAATAAA
1 TTATATACTTAATAAA
90861567 TTATAT
1 TTATAT
90861573 CTAATGTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (16 bp):
TTATATACTTAATAAA
Found at i:90862758 original size:31 final size:30
Alignment explanation
Indices: 90862687--90862759 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
90862677 AATTATACAT
* *
90862687 AAACTTTAATTTGGTGCAATTATACACGTG
1 AAACTTTAATTTGGTGCAAATATACACCTG
* * * *
90862717 ATACTCTAATTGTGGTTCAAATATATACCTG
1 AAACTTTAATT-TGGTGCAAATATACACCTG
90862748 AAACTTTAATTT
1 AAACTTTAATTT
90862760 TGATTTAATC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
30 10 0.29
31 24 0.71
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (30 bp):
AAACTTTAATTTGGTGCAAATATACACCTG
Found at i:90862943 original size:29 final size:30
Alignment explanation
Indices: 90862901--90862959 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
90862891 GAATTGGATC
*
90862901 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
* *
90862931 AAATC-AAAGTTCATGTATACAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
90862960 TTAAACCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTACACA
Found at i:90862978 original size:31 final size:29
Alignment explanation
Indices: 90862911--90862980 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
90862901 AAATCAAAAT
*
90862911 TTCATGTATAAAATTACACAAAATCAAAG
1 TTCATGTATAAAATTACACAAAACCAAAG
* *
90862940 TTCATGTATACAATTGCACATTAAACCATAA-
1 TTCATGTATAAAATTACACA--AAACCA-AAG
90862971 TTCATGTATA
1 TTCATGTATA
90862981 GTTTTGGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 18 0.51
31 15 0.43
32 2 0.06
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (29 bp):
TTCATGTATAAAATTACACAAAACCAAAG
Found at i:90867362 original size:48 final size:49
Alignment explanation
Indices: 90867269--90867362 Score: 129
Period size: 48 Copynumber: 1.9 Consensus size: 49
90867259 GATACCTGGG
*
90867269 AATCTCGCACAATAAGTGCCATTATAAATATAGCTGACGCTATCTCAATA
1 AATCTCGCACAATAAGTGCCA-TATAAATATAGCTGAAGCTATCTCAATA
* *
90867319 AATCTCGCACCCA-AAGTGCCA-ATATATATAGCTGAAGCTATCTC
1 AATCTCGCA-CAATAAGTGCCATATAAATATAGCTGAAGCTATCTC
90867363 GACAATGCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
48 21 0.52
50 17 0.43
51 2 0.05
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (49 bp):
AATCTCGCACAATAAGTGCCATATAAATATAGCTGAAGCTATCTCAATA
Found at i:90868983 original size:28 final size:28
Alignment explanation
Indices: 90868943--90868998 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
90868933 CAAAAAGGAG
*
90868943 GATTATTCAAAGCGATTTCAATGGACAA
1 GATTATTCAAAGCGATTTCAATAGACAA
90868971 GATTATTCAAAGCGATTTCAATAGACAA
1 GATTATTCAAAGCGATTTCAATAGACAA
90868999 TGGGGATGGA
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:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (28 bp):
GATTATTCAAAGCGATTTCAATAGACAA
Found at i:90873088 original size:3 final size:3
Alignment explanation
Indices: 90873080--90873108 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
90873070 ACAAAAACAA
90873080 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
90873109 CATGAACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:90873636 original size:3 final size:3
Alignment explanation
Indices: 90873628--90873656 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
90873618 TACAAGAATG
90873628 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
90873657 CGTGTCACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:90874741 original size:18 final size:18
Alignment explanation
Indices: 90874704--90874746 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
90874694 AAAAGCATCA
* *
90874704 TTCAATCCAAACAATGAT
1 TTCAAACCAAACAATAAT
*
90874722 TTCAAACCAAACATTAAT
1 TTCAAACCAAACAATAAT
*
90874740 TTTAAAC
1 TTCAAAC
90874747 TAGGATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (18 bp):
TTCAAACCAAACAATAAT
Found at i:90875518 original size:3 final size:3
Alignment explanation
Indices: 90875510--90875561 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
90875500 GTTGTGTATA
* * *
90875510 TAT TAT TAT TACT AAT TAT TAT TAT T-T CTAG TAT TAT TAT AAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
90875556 TAT TAT
1 TAT TAT
90875562 GTTAGTGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 1 0.03
3 37 0.93
4 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:90875531 original size:16 final size:15
Alignment explanation
Indices: 90875510--90875549 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
90875500 GTTGTGTATA
*
90875510 TATTATTATTACTAAT
1 TATTATTATTACT-AG
*
90875526 TATTATTATTTCTAG
1 TATTATTATTACTAG
90875541 TATTATTAT
1 TATTATTAT
90875550 AATTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (15 bp):
TATTATTATTACTAG
Found at i:90875714 original size:23 final size:26
Alignment explanation
Indices: 90875688--90875743 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 26
90875678 TTTTTTTGTA
90875688 TATATTATTCAT-ACTA-T-CA-TTAT
1 TATATTATT-ATCACTATTACATTTAT
90875711 TATATTATTATCACTATTACATTTAT
1 TATATTATTATCACTATTACATTTAT
90875737 TATATTA
1 TATATTA
90875744 GTATTATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 2 0.07
23 13 0.45
24 1 0.03
25 2 0.07
26 11 0.38
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.54
Consensus pattern (26 bp):
TATATTATTATCACTATTACATTTAT
Found at i:90877177 original size:31 final size:31
Alignment explanation
Indices: 90877138--90877204 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
90877128 TGGAAGTATG
90877138 ACTA-CTTATCAAGAGTGGTATGGTTCAAAA
1 ACTACCTTATCAAGAGTGGTATGGTTCAAAA
90877168 ACTACCTTATCAAGAGTGGTATGGTTCAAAA
1 ACTACCTTATCAAGAGTGGTATGGTTCAAAA
90877199 ACTACC
1 ACTACC
90877205 CCCATCGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (31 bp):
ACTACCTTATCAAGAGTGGTATGGTTCAAAA
Found at i:90880273 original size:26 final size:25
Alignment explanation
Indices: 90880243--90880319 Score: 127
Period size: 25 Copynumber: 3.0 Consensus size: 25
90880233 AGCCCTCCCC
90880243 AAAAAAAAACCTAACCCAAAAAAAA
1 AAAAAAAAACCTAACCCAAAAAAAA
* *
90880268 AGAAAAAAACATAACCCAAAAAAAA
1 AAAAAAAAACCTAACCCAAAAAAAA
90880293 AAAGAAAAAACCTAACCCAAAAAAAA
1 AAA-AAAAAACCTAACCCAAAAAAAA
90880319 A
1 A
90880320 CCTAACCCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 25 0.53
26 22 0.47
ACGTcount: A:0.75, C:0.18, G:0.03, T:0.04
Consensus pattern (25 bp):
AAAAAAAAACCTAACCCAAAAAAAA
Found at i:90880293 original size:18 final size:17
Alignment explanation
Indices: 90880292--90880339 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 17
90880282 CCCAAAAAAA
90880292 AAAAGAAAAAACCTAACCC
1 AAAA-AAAA-ACCTAACCC
90880311 AAAAAAAAACCTAACCCC
1 AAAAAAAAACCTAA-CCC
90880329 AAAAAAAAACC
1 AAAAAAAAACC
90880340 AAGAAACCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.21
18 18 0.64
19 4 0.14
ACGTcount: A:0.67, C:0.27, G:0.02, T:0.04
Consensus pattern (17 bp):
AAAAAAAAACCTAACCC
Found at i:90880319 original size:17 final size:18
Alignment explanation
Indices: 90880297--90880339 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
90880287 AAAAAAAAAG
90880297 AAAAAACCTAA-CCCAAA
1 AAAAAACCTAACCCCAAA
90880314 AAAAAACCTAACCCCAAA
1 AAAAAACCTAACCCCAAA
90880332 AAAAAACC
1 AAAAAACC
90880340 AAGAAACCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.65, C:0.30, G:0.00, T:0.05
Consensus pattern (18 bp):
AAAAAACCTAACCCCAAA
Found at i:90883944 original size:27 final size:27
Alignment explanation
Indices: 90883882--90883959 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
90883872 GGGCATATTC
*
90883882 GTCATTTTACCATACATGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
90883909 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
90883936 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
90883960 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.05
27 39 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:90884030 original size:27 final size:27
Alignment explanation
Indices: 90884000--90884187 Score: 119
Period size: 27 Copynumber: 6.9 Consensus size: 27
90883990 GTAAATCTAC
*
90884000 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTCAGTAATTTTAT
* * * *
90884027 AAACCAATGGTATTTCTA-CAATTTTTAG
1 AAACTAAGGGTATTTC-AGTAA-TTTTAT
* * * *
90884055 AAAGTCAAGGGTATTTCTGTAACTTTGT
1 AAACT-AAGGGTATTTCAGTAATTTTAT
* * * *
90884083 ACA-TCAGGGGTATTTTAGTAATTTTAC
1 AAACT-AAGGGTATTTCAGTAATTTTAT
* * * *
90884110 AAATTGAGGGTATTTCAGTAATTTCAC
1 AAACTAAGGGTATTTCAGTAATTTTAT
* ** *
90884137 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAACTAAGGGTATTTCAGTAATTTTAT
* *
90884164 AAACTAAGGATATTTTAGTAATTT
1 AAACTAAGGGTATTTCAGTAATTT
90884188 GTAAATCGAG
Statistics
Matches: 122, Mismatches: 34, Indels: 10
0.73 0.20 0.06
Matches are distributed among these distances:
27 96 0.79
28 14 0.11
29 12 0.10
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
AAACTAAGGGTATTTCAGTAATTTTAT
Found at i:90884221 original size:27 final size:27
Alignment explanation
Indices: 90884181--90884390 Score: 253
Period size: 27 Copynumber: 7.8 Consensus size: 27
90884171 GGATATTTTA
**
90884181 GTAATT-TGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
90884207 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
90884234 GTAGTTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
90884261 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
90884288 GTAATTCTATAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
90884315 ATAATTATGTAAATC-AGGGGTAAAACG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* * *
90884342 GTAATTATGTAAATTGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
90884369 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
90884391 CTTTGGTGAT
Statistics
Matches: 162, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
26 7 0.04
27 155 0.96
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:90884429 original size:27 final size:27
Alignment explanation
Indices: 90884399--90884485 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
90884389 TACTTTGGTG
*
90884399 ATTTTACAAGTCGAAGGTATTTCAATA
1 ATTTTACAAATCGAAGGTATTTCAATA
* *
90884426 ATTTTACAAATCGAGGGTATTTCAGTA
1 ATTTTACAAATCGAAGGTATTTCAATA
* * **
90884453 TTTTTACAAA-CTAAGCGTATTTCGGTA
1 ATTTTACAAATCGAAG-GTATTTCAATA
90884480 ATTTTA
1 ATTTTA
90884486 GTAAACTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (27 bp):
ATTTTACAAATCGAAGGTATTTCAATA
Found at i:90884492 original size:28 final size:27
Alignment explanation
Indices: 90884415--90884494 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
90884405 CAAGTCGAAG
* * *
90884415 GTATTTCAATAATTTTACAAA-TCGAGG
1 GTATTTCAGTAATTTTACAAACT-AAGC
*
90884442 GTATTTCAGTATTTTTACAAACTAAGC
1 GTATTTCAGTAATTTTACAAACTAAGC
* *
90884469 GTATTTCGGTAATTTTAGTAAACTAA
1 GTATTTCAGTAATTTTA-CAAACTAA
90884495 AGTATTCTAA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 36 0.82
28 8 0.18
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGC
Found at i:90886551 original size:12 final size:12
Alignment explanation
Indices: 90886534--90886569 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
90886524 TCATGACTGA
90886534 CATTCATGCATT
1 CATTCATGCATT
90886546 CATTCATGCATT
1 CATTCATGCATT
*
90886558 CATTCATACATT
1 CATTCATGCATT
90886570 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:90892075 original size:13 final size:15
Alignment explanation
Indices: 90892051--90892084 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
90892041 TTTAATTTTC
90892051 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
90892065 AAAATTT-AAAAATA
1 AAAATTTCAAAAATA
90892079 AAAATT
1 AAAATT
90892085 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:90892114 original size:30 final size:31
Alignment explanation
Indices: 90892080--90892181 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
90892070 TTAAAAATAA
*
90892080 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
90892110 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
90892140 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
90892170 AAATTTCATTTT
1 AAATTTCATTTT
90892182 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:90893222 original size:17 final size:17
Alignment explanation
Indices: 90893183--90893511 Score: 192
Period size: 17 Copynumber: 19.3 Consensus size: 17
90893173 NNNNNNNAAA
* *
90893183 AAAAATCTTCGTATTTTC
1 AAAAATTTTCGT-GTTTC
90893201 AAAAAATTTTCGTGTTTC
1 -AAAAATTTTCGTGTTTC
*
90893219 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
90893237 AAAAA-TTTCGGTGTTTC
1 AAAAATTTTC-GTGTTTC
*
90893254 AAAGATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* * *
90893272 AAAAA-CTCCGGTGATTTA
1 AAAAATTTTC-GTG-TTTC
***
90893290 AAAAAAAATCGT-TTTC
1 AAAAATTTTCGTGTTTC
*
90893306 TAAAAAATTTCCGTGTTTC
1 --AAAAATTTTCGTGTTTC
*
90893325 AAAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTC
*
90893342 AAAAATTTTCGTGTTTT
1 AAAAATTTTCGTGTTTC
* *
90893359 AAAAATTCTCGTATTT-
1 AAAAATTTTCGTGTTTC
* *
90893375 -TAAATTTT--T-TTTAAG
1 AAAAATTTTCGTGTTT--C
**
90893390 AAAAAAATT-GTGTTTC
1 AAAAATTTTCGTGTTTC
* * * * *
90893406 AAAAAATGTCTTCTTTT
1 AAAAATTTTCGTGTTTC
*
90893423 AAAAATTCTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* * *
90893440 AAAAAATGTCGTGTTTT
1 AAAAATTTTCGTGTTTC
*
90893457 AAAAATTTTCATGTTTC
1 AAAAATTTTCGTGTTTC
* *
90893474 TAAAATTTCCGTGTTT-
1 AAAAATTTTCGTGTTTC
* *
90893490 AAAAATTCTCGTGTTTT
1 AAAAATTTTCGTGTTTC
90893507 AAAAA
1 AAAAA
90893512 AAAACTTTCA
Statistics
Matches: 242, Mismatches: 51, Indels: 36
0.74 0.16 0.11
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
15 6 0.02
16 28 0.12
17 136 0.56
18 52 0.21
19 16 0.07
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:90893251 original size:35 final size:34
Alignment explanation
Indices: 90893183--90893364 Score: 170
Period size: 35 Copynumber: 5.2 Consensus size: 34
90893173 NNNNNNNAAA
*
90893183 AAAAATCTTCGTATTTTCAAAAAATTTTCGTGTTTC
1 AAAAATCTTCGTGTTTTC-AAAAA-TTTCGTGTTTC
90893219 AAAAATCTTCGTGTTTTCAAAAATTTCGGTGTTTC
1 AAAAATCTTCGTGTTTTCAAAAATTTC-GTGTTTC
* * * * *
90893254 AAAGATTTTCGTGTTTTCAAAAACTCCGGTGATTTA
1 AAAAATCTTCGTGTTTTCAAAAATTTC-GTG-TTTC
*** *
90893290 AAAAAAAATCGT-TTTCTAAAAAATTTCCGTGTTTC
1 AAAAATCTTCGTGTTT-TCAAAAATTT-CGTGTTTC
* *
90893325 AAAAATTTTCGTGTTTT-AAAAATTTTCGTGTTTT
1 AAAAATCTTCGTGTTTTCAAAAA-TTTCGTGTTTC
90893359 AAAAAT
1 AAAAAT
90893365 TCTCGTATTT
Statistics
Matches: 122, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
34 22 0.18
35 58 0.48
36 41 0.34
37 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAAATCTTCGTGTTTTCAAAAATTTCGTGTTTC
Found at i:90893550 original size:17 final size:17
Alignment explanation
Indices: 90893530--90893567 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
90893520 CATTTTTTAA
*
90893530 AAAAATTTTCGTG-CTT
1 AAAAATTCTCGTGTCTT
*
90893546 CAAAATTCTCGTGTCTT
1 AAAAATTCTCGTGTCTT
90893563 AAAAA
1 AAAAA
90893568 AAGTTTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (17 bp):
AAAAATTCTCGTGTCTT
Found at i:90893569 original size:19 final size:19
Alignment explanation
Indices: 90893490--90893569 Score: 51
Period size: 19 Copynumber: 4.3 Consensus size: 19
90893480 TTCCGTGTTT
*
90893490 AAAAATTCTCGTGTTTTAAAA
1 AAAAATTCTCGTGTCTT--AA
* * *
90893511 AAAAACTT-TCATTTTTTAA
1 AAAAA-TTCTCGTGTCTTAA
*
90893530 AAAAATTTTCGTG-CTT--
1 AAAAATTCTCGTGTCTTAA
*
90893546 CAAAATTCTCGTGTCTTAA
1 AAAAATTCTCGTGTCTTAA
90893565 AAAAA
1 AAAAA
90893570 GTTTTCATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
16 11 0.24
17 3 0.07
18 4 0.09
19 14 0.30
21 12 0.26
22 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (19 bp):
AAAAATTCTCGTGTCTTAA
Found at i:90898541 original size:17 final size:17
Alignment explanation
Indices: 90898512--90898600 Score: 92
Period size: 17 Copynumber: 5.4 Consensus size: 17
90898502 TTTTTTAAGA
90898512 AAAAAAT-T-GTGTTTC
1 AAAAAATGTCGTGTTTC
* *
90898527 AAAAAATGTCTTGTTTT
1 AAAAAATGTCGTGTTTC
* *
90898544 AAAAATTCTCGTGTTTC
1 AAAAAATGTCGTGTTTC
*
90898561 AAAAAATGTCGTGTTTT
1 AAAAAATGTCGTGTTTC
* * *
90898578 AAAAATTTTCGTGTTTT
1 AAAAAATGTCGTGTTTC
90898595 AAAAAA
1 AAAAAA
90898601 AAAACTTTCA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
15 7 0.12
16 1 0.02
17 52 0.87
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (17 bp):
AAAAAATGTCGTGTTTC
Found at i:90898560 original size:34 final size:34
Alignment explanation
Indices: 90898520--90898600 Score: 135
Period size: 34 Copynumber: 2.4 Consensus size: 34
90898510 GAAAAAAATT
*
90898520 GTGTTTCAAAAAATGTCTTGTTTTAAAAATTCTC
1 GTGTTTCAAAAAATGTCGTGTTTTAAAAATTCTC
*
90898554 GTGTTTCAAAAAATGTCGTGTTTTAAAAATTTTC
1 GTGTTTCAAAAAATGTCGTGTTTTAAAAATTCTC
*
90898588 GTGTTTTAAAAAA
1 GTGTTTCAAAAAA
90898601 AAAACTTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.43
Consensus pattern (34 bp):
GTGTTTCAAAAAATGTCGTGTTTTAAAAATTCTC
Found at i:90898640 original size:17 final size:17
Alignment explanation
Indices: 90898620--90898657 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
90898610 ATTTTTTTAA
*
90898620 AAAAATTTTCGTG-CTT
1 AAAAATTCTCGTGTCTT
*
90898636 CAAAATTCTCGTGTCTT
1 AAAAATTCTCGTGTCTT
90898653 AAAAA
1 AAAAA
90898658 AAGTTTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (17 bp):
AAAAATTCTCGTGTCTT
Found at i:90902238 original size:75 final size:73
Alignment explanation
Indices: 90902078--90902245 Score: 216
Period size: 73 Copynumber: 2.3 Consensus size: 73
90902068 TGAGTTAAGC
* * *
90902078 CTTTT-AATTTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTAAGCCTCAGGACAC
1 CTTTTCAATTTCTGTTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACAC
90902141 GCTGAGGT
66 GCTGAGGT
** * *
90902149 AATTTCAATTTCTGTTGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCA
1 CTTTTCAATTTCTGTTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGG---A
*
90902213 CATGCTGAGGT
63 CACGCTGAGGT
90902224 CTTTTCAATTTCTGTTCTTCAA
1 CTTTTCAATTTCTGTTCTTCAA
90902246 TTTCTGTTCG
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
71 3 0.04
72 14 0.17
73 35 0.43
75 30 0.37
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (73 bp):
CTTTTCAATTTCTGTTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACAC
GCTGAGGT
Found at i:90902246 original size:14 final size:14
Alignment explanation
Indices: 90902227--90902254 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
90902217 CTGAGGTCTT
90902227 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
90902241 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
90902255 GTAAAAAAAA
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:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:90902346 original size:92 final size:85
Alignment explanation
Indices: 90902164--90902379 Score: 285
Period size: 92 Copynumber: 2.4 Consensus size: 85
90902154 CAATTTCTGT
*
90902164 TGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTT
1 TGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACA-GCTGAGGTATTTT
90902229 CAATTTCTGTTCTTCAATTTC
65 CAATTTCTGTTCTTCAATTTC
90902250 TGTTCGTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC-GCTGAGG
1 TGTTC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACAGCTGAGG
90902313 TATTTTCAATTTCTGTT-TTCAATTTAC
59 TATTTTCAATTTCTGTTCTTCAATTT-C
* *
90902340 GTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 --TGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
90902380 ACCTTTTAAT
Statistics
Matches: 117, Mismatches: 3, Indels: 20
0.84 0.02 0.14
Matches are distributed among these distances:
86 36 0.31
89 8 0.07
90 24 0.21
92 47 0.40
93 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (85 bp):
TGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAGCTGAGGTATTTTC
AATTTCTGTTCTTCAATTTC
Found at i:90902515 original size:140 final size:140
Alignment explanation
Indices: 90902262--90902578 Score: 598
Period size: 140 Copynumber: 2.3 Consensus size: 140
90902252 TTCGTAAAAA
*
90902262 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
* *
90902327 GTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTT
66 GTTTTCAATTTACGTTGCTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTT
90902392 CTACTTTTTC
131 CTACTTTTTC
90902402 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
*
90902467 GTTTTTAATTTACGTTGCTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTT
66 GTTTTCAATTTACGTTGCTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTT
90902532 CTACTTTTTC
131 CTACTTTTTC
90902542 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC
90902579 NNNNNNNNNN
Statistics
Matches: 173, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
140 173 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (140 bp):
AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
GTTTTCAATTTACGTTGCTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTT
CTACTTTTTC
Found at i:90904747 original size:16 final size:16
Alignment explanation
Indices: 90904685--90904773 Score: 53
Period size: 16 Copynumber: 5.5 Consensus size: 16
90904675 TTATTATAAC
*
90904685 TATTATTATATTAGTGTA
1 TATTATTAT-TT-GTATA
*
90904703 TATT-TTA--TGTACA
1 TATTATTATTTGTATA
*
90904716 TATGTATATATATGTATA
1 TAT-TAT-TATTTGTATA
*
90904734 TATATATT-TTTGTACA
1 TAT-TATTATTTGTATA
90904750 TATTATTATTT-TATA
1 TATTATTATTTGTATA
90904765 TTATTATTA
1 -TATTATTA
90904774 CCAAATATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
13 6 0.11
14 2 0.04
15 8 0.14
16 22 0.39
17 4 0.07
18 15 0.26
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (16 bp):
TATTATTATTTGTATA
Found at i:90904752 original size:18 final size:17
Alignment explanation
Indices: 90904701--90904761 Score: 61
Period size: 16 Copynumber: 3.5 Consensus size: 17
90904691 TATATTAGTG
90904701 TATATTTTATGTACATAT
1 TATATTTT-TGTACATAT
* * *
90904719 GTATATATATGTATATA-
1 -TATATTTTTGTACATAT
90904736 TATATTTTTGTACATAT
1 TATATTTTTGTACATAT
90904753 TATTATTTT
1 TA-TATTTT
90904762 ATATTATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 13 0.38
17 2 0.06
18 13 0.38
19 6 0.18
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (17 bp):
TATATTTTTGTACATAT
Found at i:90906869 original size:16 final size:16
Alignment explanation
Indices: 90906850--90906880 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90906840 AGGAAATAAA
*
90906850 GAAAATAAAAAGAAAT
1 GAAAACAAAAAGAAAT
90906866 GAAAACAAAAAGAAA
1 GAAAACAAAAAGAAA
90906881 AACATGAAAA
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:0.77, C:0.03, G:0.13, T:0.06
Consensus pattern (16 bp):
GAAAACAAAAAGAAAT
Found at i:90906905 original size:3 final size:3
Alignment explanation
Indices: 90906897--90906946 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
90906887 AAAAGAAAGA
* * * *
90906897 AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAC AAT AAC AAT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
90906945 AA
1 AA
90906947 CGTGAACCAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:90907519 original size:3 final size:3
Alignment explanation
Indices: 90907511--90907548 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
90907501 TAATTTAAAG
90907511 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
90907549 CGTGTCACTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:90908629 original size:13 final size:13
Alignment explanation
Indices: 90908621--90908645 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90908611 CCAAACATTA
90908621 ATTTTAAACTAAG
1 ATTTTAAACTAAG
90908634 ATTTTAAACTAA
1 ATTTTAAACTAA
90908646 TCCAAAACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
ATTTTAAACTAAG
Found at i:90909065 original size:26 final size:26
Alignment explanation
Indices: 90909029--90909138 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
90909019 TGATACAAAT
90909029 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
90909055 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
90909081 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
90909107 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
90909133 TGATAA
1 TGATAA
90909139 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:90910798 original size:27 final size:27
Alignment explanation
Indices: 90910757--90910869 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
90910747 GAGGAAGCGT
*
90910757 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
90910784 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
90910811 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
90910839 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
90910865 TCTGG
1 TCTGG
90910870 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:90910862 original size:54 final size:54
Alignment explanation
Indices: 90910755--90910869 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
90910745 TGGAGGAAGC
*
90910755 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
90910809 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
90910863 GTTCTGG
1 GTTCTGG
90910870 CAGCCATGCT
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:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:90913718 original size:3 final size:3
Alignment explanation
Indices: 90913710--90913753 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
90913700 TCATTCTCTA
90913710 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
90913754 CTTCAATTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:90918456 original size:3 final size:3
Alignment explanation
Indices: 90918448--90918535 Score: 95
Period size: 3 Copynumber: 29.0 Consensus size: 3
90918438 AAGGGGCTAC
* * * *
90918448 TAT TAT TAT TAT TAT TAT TAT TATT TAC TAT TAC TAT TAC TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * **
90918494 TAT TAC AAT TGC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
90918536 ACCTAAAGTT
Statistics
Matches: 68, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:90919182 original size:26 final size:26
Alignment explanation
Indices: 90919146--90919229 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
90919136 TGATACAAAT
90919146 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
90919172 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
90919198 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
90919224 TGATAA
1 TGATAA
90919230 GAATTCCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:90926141 original size:47 final size:47
Alignment explanation
Indices: 90926009--90926226 Score: 206
Period size: 47 Copynumber: 4.6 Consensus size: 47
90925999 ATAGTAAAAC
* * ** * *
90926009 TATGGTCTTGCACATAGTCACATATCACATACCGAAGCCATAGCCCAGC
1 TATGGTCTTACACAGAAACACATATCAC--ACCGATGCCATAGCCCAGA
* * * * * * *
90926058 CATGGTCTTACAC-GGATCACATACCACACTGATGCCATATCCCAAA
1 TATGGTCTTACACAGAAACACATATCACACCGATGCCATAGCCCAGA
*
90926104 TATGGTCTTACACAGAAACACATATCACACCGATGCCATATCCCAGA
1 TATGGTCTTACACAGAAACACATATCACACCGATGCCATAGCCCAGA
* * * * *
90926151 TATGGTCTTATACGGAAGCTCATATCACACCGATGCCATAGCCCAGC
1 TATGGTCTTACACAGAAACACATATCACACCGATGCCATAGCCCAGA
* *
90926198 TATGGTCTTATACGGAAATCACATA-CACA
1 TATGGTCTTACACAGAAA-CACATATCACA
90926227 TGTTGTCATG
Statistics
Matches: 142, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
46 26 0.18
47 90 0.63
48 15 0.11
49 11 0.08
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (47 bp):
TATGGTCTTACACAGAAACACATATCACACCGATGCCATAGCCCAGA
Found at i:90926166 original size:93 final size:94
Alignment explanation
Indices: 90926009--90926226 Score: 233
Period size: 94 Copynumber: 2.3 Consensus size: 94
90925999 ATAGTAAAAC
* * ** *
90926009 TATGGTCTTGCACATAGTCACATATCACATACCGAAGCCATAGCCCAGCCATGGTCTTACACGG-
1 TATGGTCTTACACAGAAACACATATCAC--ACCGAAGCCATAGCCCAGACATGGTCTTACACGGA
* * *
90926073 ATCACATACCACACTGATGCCATATCCCAAA
64 AGCACATACCACACCGATGCCATAGCCCAAA
* * * *
90926104 TATGGTCTTACACAGAAACACATATCACACCGATGCCATATCCCAGATATGGTCTTATACGGAAG
1 TATGGTCTTACACAGAAACACATATCACACCGAAGCCATAGCCCAGACATGGTCTTACACGGAAG
* * **
90926169 CTCATATCACACCGATGCCATAGCCCAGC
66 CACATACCACACCGATGCCATAGCCCAAA
* *
90926198 TATGGTCTTATACGGAAATCACATA-CACA
1 TATGGTCTTACACAGAAA-CACATATCACA
90926227 TGTTGTCATG
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
93 29 0.28
94 44 0.43
95 30 0.29
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (94 bp):
TATGGTCTTACACAGAAACACATATCACACCGAAGCCATAGCCCAGACATGGTCTTACACGGAAG
CACATACCACACCGATGCCATAGCCCAAA
Found at i:90927160 original size:23 final size:22
Alignment explanation
Indices: 90927130--90927177 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
90927120 ATGTCATATT
* *
90927130 TTATGTTTCTTTTAAT-TTGTGA
1 TTATGTTT-TTATAATGTTGTCA
90927152 TTATCGTTTTTATAATGTTGTCA
1 TTAT-GTTTTTATAATGTTGTCA
90927175 TTA
1 TTA
90927178 AAATTCTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.60
Consensus pattern (22 bp):
TTATGTTTTTATAATGTTGTCA
Found at i:90931106 original size:26 final size:26
Alignment explanation
Indices: 90931075--90931182 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
90931065 TGAAATGCCC
*
90931075 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
90931101 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
90931127 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
90931153 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90931179 ATCA
1 ATCA
90931183 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90932571 original size:70 final size:70
Alignment explanation
Indices: 90932451--90932657 Score: 315
Period size: 70 Copynumber: 3.0 Consensus size: 70
90932441 GGAAAATCAT
* * * *
90932451 ATACTTCGATGCTCACCCAAAGCTACGGTAGTCCACAACATATGCGGAATTACTACCAATCACTA
1 ATACCTCGATGCTCACACAGAGCTACGGTAGTCCACAACATATGTGGAATTACTACCAATCACTA
*
90932516 TGCTA
66 TACTA
* *
90932521 ATACCTCGATGCTCACACAGAGCTACGGTAGTCCACAACATATGTAGAATTACTACCAATCACCA
1 ATACCTCGATGCTCACACAGAGCTACGGTAGTCCACAACATATGTGGAATTACTACCAATCACTA
* *
90932586 CACTT
66 TACTA
* *
90932591 ATACCTCGATGCTCACATAGAGCTACAGTAGTCCACAACATATGTGGAATTACTACCAATCACTA
1 ATACCTCGATGCTCACACAGAGCTACGGTAGTCCACAACATATGTGGAATTACTACCAATCACTA
90932656 TA
66 TA
90932658 TTCGTAAAAC
Statistics
Matches: 123, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 123 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (70 bp):
ATACCTCGATGCTCACACAGAGCTACGGTAGTCCACAACATATGTGGAATTACTACCAATCACTA
TACTA
Found at i:90935847 original size:10 final size:10
Alignment explanation
Indices: 90935832--90935881 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
90935822 AAATTTTAGG
90935832 ATTTAT-TTT
1 ATTTATCTTT
90935841 CATTTATCTTT
1 -ATTTATCTTT
*
90935852 AATTATCTTT
1 ATTTATCTTT
90935862 ATTTAT-TTGT
1 ATTTATCTT-T
90935872 ATTTATCTTT
1 ATTTATCTTT
90935882 TAAAATTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:90936793 original size:12 final size:12
Alignment explanation
Indices: 90936776--90936808 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
90936766 CTACTTCCCC
90936776 TTTACTATTATT
1 TTTACTATTATT
90936788 TTTACTATTATT
1 TTTACTATTATT
90936800 TTTACTATT
1 TTTACTATT
90936809 TACAGGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTACTATTATT
Found at i:90937390 original size:19 final size:18
Alignment explanation
Indices: 90937362--90937398 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
90937352 TTTTGGTGGA
*
90937362 TTTTAATTTTTATATTTT
1 TTTTAATTTTTAAATTTT
90937380 TTTTGAATTTTTAAATTTT
1 TTTT-AATTTTTAAATTTT
90937399 AATCTCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (18 bp):
TTTTAATTTTTAAATTTT
Found at i:90938007 original size:42 final size:42
Alignment explanation
Indices: 90937961--90938044 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
90937951 ACCAGAGAGT
90937961 ATGGTATTTTCTTTAATCAGTTAATTGAATTCAAAATAATTG
1 ATGGTATTTTCTTTAATCAGTTAATTGAATTCAAAATAATTG
90938003 ATGGTATTTTCTTTAATCAGTTAATTGAATTCAAAATAATTG
1 ATGGTATTTTCTTTAATCAGTTAATTGAATTCAAAATAATTG
90938045 TTAGAATTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (42 bp):
ATGGTATTTTCTTTAATCAGTTAATTGAATTCAAAATAATTG
Found at i:90938362 original size:5 final size:5
Alignment explanation
Indices: 90938352--90938384 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
90938342 TTGTGTGTTC
90938352 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
90938385 TACAAATTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:90939474 original size:301 final size:301
Alignment explanation
Indices: 90938932--90939533 Score: 1204
Period size: 301 Copynumber: 2.0 Consensus size: 301
90938922 ATATAGCCGC
90938932 GAGTCTCTCACAGTTGATGAGGTTTATGATTCTTTGACCTCGTATGATAAGATGAAACATCTTGT
1 GAGTCTCTCACAGTTGATGAGGTTTATGATTCTTTGACCTCGTATGATAAGATGAAACATCTTGT
90938997 TCTTAAACCTGACTCTCAAAGAGAGGGTCTCATTGTTCGTGGGAGACAAGATCGGAATGCTGATG
66 TCTTAAACCTGACTCTCAAAGAGAGGGTCTCATTGTTCGTGGGAGACAAGATCGGAATGCTGATG
90939062 ATAATCGTGGAAGGACACAGGAAAGGAATCCTGGCGGTAAATCTAAGGGTAGATCAAAGTCTTCA
131 ATAATCGTGGAAGGACACAGGAAAGGAATCCTGGCGGTAAATCTAAGGGTAGATCAAAGTCTTCA
90939127 GACAGAGGTAAAACTTGTAACTTCTGCAAGAAGAAAAGACACATTAAATCTAAGTGCTATAAGCT
196 GACAGAGGTAAAACTTGTAACTTCTGCAAGAAGAAAAGACACATTAAATCTAAGTGCTATAAGCT
90939192 ACAGAACAAGATTAAGAGGGAGGCTGTGAATCAAAAGGGCA
261 ACAGAACAAGATTAAGAGGGAGGCTGTGAATCAAAAGGGCA
90939233 GAGTCTCTCACAGTTGATGAGGTTTATGATTCTTTGACCTCGTATGATAAGATGAAACATCTTGT
1 GAGTCTCTCACAGTTGATGAGGTTTATGATTCTTTGACCTCGTATGATAAGATGAAACATCTTGT
90939298 TCTTAAACCTGACTCTCAAAGAGAGGGTCTCATTGTTCGTGGGAGACAAGATCGGAATGCTGATG
66 TCTTAAACCTGACTCTCAAAGAGAGGGTCTCATTGTTCGTGGGAGACAAGATCGGAATGCTGATG
90939363 ATAATCGTGGAAGGACACAGGAAAGGAATCCTGGCGGTAAATCTAAGGGTAGATCAAAGTCTTCA
131 ATAATCGTGGAAGGACACAGGAAAGGAATCCTGGCGGTAAATCTAAGGGTAGATCAAAGTCTTCA
90939428 GACAGAGGTAAAACTTGTAACTTCTGCAAGAAGAAAAGACACATTAAATCTAAGTGCTATAAGCT
196 GACAGAGGTAAAACTTGTAACTTCTGCAAGAAGAAAAGACACATTAAATCTAAGTGCTATAAGCT
90939493 ACAGAACAAGATTAAGAGGGAGGCTGTGAATCAAAAGGGCA
261 ACAGAACAAGATTAAGAGGGAGGCTGTGAATCAAAAGGGCA
90939534 AACAACCAGA
Statistics
Matches: 301, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
301 301 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (301 bp):
GAGTCTCTCACAGTTGATGAGGTTTATGATTCTTTGACCTCGTATGATAAGATGAAACATCTTGT
TCTTAAACCTGACTCTCAAAGAGAGGGTCTCATTGTTCGTGGGAGACAAGATCGGAATGCTGATG
ATAATCGTGGAAGGACACAGGAAAGGAATCCTGGCGGTAAATCTAAGGGTAGATCAAAGTCTTCA
GACAGAGGTAAAACTTGTAACTTCTGCAAGAAGAAAAGACACATTAAATCTAAGTGCTATAAGCT
ACAGAACAAGATTAAGAGGGAGGCTGTGAATCAAAAGGGCA
Found at i:90940723 original size:21 final size:21
Alignment explanation
Indices: 90940672--90940723 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
90940662 GGAGTGTTAA
*
90940672 TAAGTTAATATTAAAGTTTTG
1 TAAGTTAATTTTAAAGTTTTG
*
90940693 TCAAG-AAATTTTAAAGTTTTG
1 T-AAGTTAATTTTAAAGTTTTG
90940714 -ATAGTTAATT
1 TA-AGTTAATT
90940724 GAACAAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 19 0.76
22 3 0.12
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.46
Consensus pattern (21 bp):
TAAGTTAATTTTAAAGTTTTG
Found at i:90942575 original size:67 final size:64
Alignment explanation
Indices: 90942501--90942707 Score: 161
Period size: 67 Copynumber: 3.2 Consensus size: 64
90942491 CATCATGTGT
*
90942501 ACAAGAGAGCTACGAGACATTATGATTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
1 ACAAGAGAGCTACGAGA-A-TATGA-TAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGT
90942566 AG
63 AG
** * *** * * * *
90942568 ACAAGAGATATACGGGATATATG-TAGCTAGGTCGCATACATGGTTCCAGGTGAAGGACACCATG
1 ACAAGAGAGCTACGAGA-ATATGATAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATG
90942632 TAG
62 TAG
* * * * *
90942635 ACAAGAGAGCTACGAG-ATA-AACTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGAATATGA-TAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
90942697 TACAAGAGAGC
1 -ACAAGAGAGC
90942708 CGAACTATAT
Statistics
Matches: 107, Mismatches: 27, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
62 1 0.01
63 19 0.18
64 20 0.19
65 3 0.03
66 24 0.22
67 40 0.37
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGAATATGATAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:90945857 original size:29 final size:29
Alignment explanation
Indices: 90945815--90945890 Score: 134
Period size: 29 Copynumber: 2.6 Consensus size: 29
90945805 GGAAGAAGTG
90945815 AGAACTTGTTCGTTGAGAGTTTGCGATGA
1 AGAACTTGTTCGTTGAGAGTTTGCGATGA
90945844 AGAACTTGTTCGTTGAGAGTTTGCGATGA
1 AGAACTTGTTCGTTGAGAGTTTGCGATGA
* *
90945873 AGAGCTTGTTCATTGAGA
1 AGAACTTGTTCGTTGAGA
90945891 ATTCGTGTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.25, C:0.11, G:0.30, T:0.34
Consensus pattern (29 bp):
AGAACTTGTTCGTTGAGAGTTTGCGATGA
Found at i:90946234 original size:5 final size:5
Alignment explanation
Indices: 90946224--90946251 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
90946214 TTGTGTGTTC
90946224 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
90946252 CACAATATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:90953508 original size:18 final size:17
Alignment explanation
Indices: 90953485--90953518 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
90953475 TTTGCACCAG
90953485 ACTAACAACTCATAACAA
1 ACTAACAACTC-TAACAA
*
90953503 ACTAACTACTCTAACA
1 ACTAACAACTCTAACA
90953519 TGCATCCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (17 bp):
ACTAACAACTCTAACAA
Found at i:90958398 original size:18 final size:17
Alignment explanation
Indices: 90958375--90958408 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
90958365 TTTGCACTAG
90958375 ACTAACAACTCATAACAA
1 ACTAACAACTC-TAACAA
*
90958393 ACTAACTACTCTAACA
1 ACTAACAACTCTAACA
90958409 CACCTTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (17 bp):
ACTAACAACTCTAACAA
Found at i:90958915 original size:26 final size:25
Alignment explanation
Indices: 90958875--90958923 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
90958865 AAAAAGAATT
*
90958875 TAAAATTTGAAATTTTGAGATAAAAA
1 TAAAATATGAAA-TTTGAGATAAAAA
* *
90958901 TAAAATATGAGATTTGTGATAAA
1 TAAAATATGAAATTTGAGATAAA
90958924 CCATAAAGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 10 0.50
26 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (25 bp):
TAAAATATGAAATTTGAGATAAAAA
Found at i:90959390 original size:14 final size:15
Alignment explanation
Indices: 90959371--90959407 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
90959361 ATAATTAAAA
90959371 ATATAATAATAAT-G
1 ATATAATAATAATAG
90959385 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
90959399 TTATAATAA
1 ATATAATAA
90959408 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:90971809 original size:18 final size:19
Alignment explanation
Indices: 90971777--90971812 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
90971767 AATATTTAAG
*
90971777 AAATAATAATTATAATAAA
1 AAATAATAATAATAATAAA
90971796 AAAT-ATAATAATAATAA
1 AAATAATAATAATAATAA
90971813 TGATATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATAATAATAATAATAAA
Found at i:90971923 original size:45 final size:45
Alignment explanation
Indices: 90971856--90971964 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
90971846 AATAAAACAT
*
90971856 AAAG-AAAAGGGAAAAAGAAGGGCACGAACAGAATAGGGAAAAAAAG
1 AAAGAAAAAGGG--AAAGAAGGGCACGAACAGAACAGGGAAAAAAAG
* *
90971902 AAAGAAAAAGGGAAAGAAGGGCAGGAACAGAACAGGGAAAGAAAG
1 AAAGAAAAAGGGAAAGAAGGGCACGAACAGAACAGGGAAAAAAAG
**
90971947 AAAGAAAAAATGAAAGAA
1 AAAGAAAAAGGGAAAGAA
90971965 AAAAAAGGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
45 46 0.81
46 4 0.07
47 7 0.12
ACGTcount: A:0.62, C:0.06, G:0.30, T:0.02
Consensus pattern (45 bp):
AAAGAAAAAGGGAAAGAAGGGCACGAACAGAACAGGGAAAAAAAG
Found at i:90972839 original size:18 final size:18
Alignment explanation
Indices: 90972812--90972849 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
90972802 TTTGTACCTG
*
90972812 ACTATGACTGTTATTGTT
1 ACTATGACTGTTACTGTT
*
90972830 ACTATTACTGTTACTGTT
1 ACTATGACTGTTACTGTT
90972848 AC
1 AC
90972850 CCTATGGTGT
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:0.24, C:0.16, G:0.13, T:0.47
Consensus pattern (18 bp):
ACTATGACTGTTACTGTT
Found at i:90974100 original size:31 final size:31
Alignment explanation
Indices: 90974029--90974103 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
90974019 TGTAACACAT
* *
90974029 AAACTTTAA-TTTGGTGCAATTATATACGTG
1 AAACTTTAATTTTGGTGCAAATATATACGTA
* * * *
90974059 ATACTCTAATTTTGGTTCAAATATATACTTA
1 AAACTTTAATTTTGGTGCAAATATATACGTA
90974090 AAACTTTAATTTTG
1 AAACTTTAATTTTG
90974104 ATTTAATCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
30 7 0.19
31 29 0.81
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.44
Consensus pattern (31 bp):
AAACTTTAATTTTGGTGCAAATATATACGTA
Found at i:90976388 original size:482 final size:482
Alignment explanation
Indices: 90975671--90976935 Score: 2290
Period size: 482 Copynumber: 2.7 Consensus size: 482
90975661 CAAAATTAAT
*
90975671 TCCAATCAA-TTTTTTGAATAATTAATTAAAAATCTAAAAGAATTTGATAAAAAATGTGGAAGGG
1 TCCAATCAATTTTTTTGAATAATTAATTAAAAATCTAAAAGAATTTGATAAAAAACGTGGAAGGG
* *
90975735 CACAATTGTACGATG-A-A-T-A-G----TAATGATAGAAGTTGTTTTCCTGGCACAAGGAACTT
66 CACACTTGTATGATGAATAGTAATGATAATAATGATAGAAGTTGTTTTCCTGGCACAAGGAACTT
90975791 ATGGGATTGTCCATTTGGTTCTATATTTGTCCA----C--------TT--GAGTTAAAAGGACAA
131 ATGGGATTGTCCATTTGGTTCTATATTTGTCCACTTGCTTGAGTGTTTAAGAGTTAAAAGGACAA
90975842 ACTATTAAGTAGAAAACACCAAACGAATTGGAAGGCTTTTGTCTTCTTCAATTAGTATGACCTTA
196 ACTATTAAGTAGAAAACACCAAACGAATTGGAAGGCTTTTGTCTTCTTCAATTAGTATGACCTTA
90975907 TATTTCTTATTAAACTTCACATTTTACATTCAATATCATCATCACAATCATTTTAATTTATTTTT
261 TATTTCTTATTAAACTTCACATTTTACATTCAATATCATCATCACAATCATTTTAATTTATTTTT
90975972 TTAAAAACACTTTTTCACAGTATTGTTAAACTTAAATAATAAACTGGCCTTTAACTGGCCTTTTA
326 TTAAAAACACTTTTTCACAGTATTGTTAAACTTAAATAATAAACTGGCCTTTAACTGGCCTTTTA
90976037 GCCACTCTTTTCTAACATATAGCTTATCTCCTAGCAACTGTTTGGGCGAATAAAACTAATGTATA
391 GCCACTCTTTTCTAACATATAGCTTATCTCCTAGCAACTGTTTGGGCGAATAAAACTAATGTATA
90976102 TATGAAAACGAATATTGAATTTGGATG
456 TATGAAAACGAATATTGAATTTGGATG
90976129 TCCAATCAATTTTTTTGAATAATTAATTAAAAATCTAAAAGAATTTGATAAAAAACGTGGAAGGG
1 TCCAATCAATTTTTTTGAATAATTAATTAAAAATCTAAAAGAATTTGATAAAAAACGTGGAAGGG
90976194 CACACTTGTATGATGAATAGTAATGATAATAATGATAGAAGTTGTTTTCCTGGCACAAGGAACTT
66 CACACTTGTATGATGAATAGTAATGATAATAATGATAGAAGTTGTTTTCCTGGCACAAGGAACTT
90976259 ATGGGATTGTCCATTTGGTTCTATATTTGTCCACTTGCTTGAGTGTTTAAGAGTTAAAAGGACAA
131 ATGGGATTGTCCATTTGGTTCTATATTTGTCCACTTGCTTGAGTGTTTAAGAGTTAAAAGGACAA
90976324 ACTATTAAGTAGAAAACACCAAACGAATTGGAAGGCTTTTGTCTTCTTCAATTAGTATGACCTTA
196 ACTATTAAGTAGAAAACACCAAACGAATTGGAAGGCTTTTGTCTTCTTCAATTAGTATGACCTTA
90976389 TATTTCTTATTAAACTTCACATTTTACATTCAATATCATCATCACAATCATTTTAATTTATTTTT
261 TATTTCTTATTAAACTTCACATTTTACATTCAATATCATCATCACAATCATTTTAATTTATTTTT
90976454 TTAAAAACACTTTTTCACAGTATTGTTAAACTTAAATAATAAACTGGCCTTTAACTGGCCTTTTA
326 TTAAAAACACTTTTTCACAGTATTGTTAAACTTAAATAATAAACTGGCCTTTAACTGGCCTTTTA
90976519 GCCACTCTTTTCTAACATATAGCTTATCTCCTAGCAACTGTTTGGGCGAATAAAACTAATGTATA
391 GCCACTCTTTTCTAACATATAGCTTATCTCCTAGCAACTGTTTGGGCGAATAAAACTAATGTATA
90976584 TATGAAAACGAATATTGAATTTGGATG
456 TATGAAAACGAATATTGAATTTGGATG
90976611 TCCAATCAATTTTTTTGAATAATTAATTAAAAATCTAAAAGAATTTGATAAAAAACGTGGAAGGG
1 TCCAATCAATTTTTTTGAATAATTAATTAAAAATCTAAAAGAATTTGATAAAAAACGTGGAAGGG
90976676 CACACTTGTATGATGAATAGTAATGATAATAATGATAGAAGTTGTTTTCCTGGCACAAGGAACTT
66 CACACTTGTATGATGAATAGTAATGATAATAATGATAGAAGTTGTTTTCCTGGCACAAGGAACTT
*
90976741 ATGGGATTGTCCATTTGGTTCTATATTTGTCCACTTGCTTGAGTGTTTAAGAGTTAAAAGGGCAA
131 ATGGGATTGTCCATTTGGTTCTATATTTGTCCACTTGCTTGAGTGTTTAAGAGTTAAAAGGACAA
90976806 ACTATTAAGTAGAAAACACCAAACGAATTGGAAGGCTTTTGTCTTCTTCAATTAGTATGACCTTA
196 ACTATTAAGTAGAAAACACCAAACGAATTGGAAGGCTTTTGTCTTCTTCAATTAGTATGACCTTA
* ** *
90976871 TATTTCTTATTAAACTTCACATTTTACATTCGATATCATCATCACAATCATGGTAATTTACTTTT
261 TATTTCTTATTAAACTTCACATTTTACATTCAATATCATCATCACAATCATTTTAATTTATTTTT
90976936 ATGTCCCATT
Statistics
Matches: 775, Mismatches: 8, Indels: 24
0.96 0.01 0.03
Matches are distributed among these distances:
458 9 0.01
459 67 0.09
460 1 0.00
461 1 0.00
462 1 0.00
463 1 0.00
464 1 0.00
468 69 0.09
472 1 0.00
480 2 0.00
482 622 0.80
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (482 bp):
TCCAATCAATTTTTTTGAATAATTAATTAAAAATCTAAAAGAATTTGATAAAAAACGTGGAAGGG
CACACTTGTATGATGAATAGTAATGATAATAATGATAGAAGTTGTTTTCCTGGCACAAGGAACTT
ATGGGATTGTCCATTTGGTTCTATATTTGTCCACTTGCTTGAGTGTTTAAGAGTTAAAAGGACAA
ACTATTAAGTAGAAAACACCAAACGAATTGGAAGGCTTTTGTCTTCTTCAATTAGTATGACCTTA
TATTTCTTATTAAACTTCACATTTTACATTCAATATCATCATCACAATCATTTTAATTTATTTTT
TTAAAAACACTTTTTCACAGTATTGTTAAACTTAAATAATAAACTGGCCTTTAACTGGCCTTTTA
GCCACTCTTTTCTAACATATAGCTTATCTCCTAGCAACTGTTTGGGCGAATAAAACTAATGTATA
TATGAAAACGAATATTGAATTTGGATG
Found at i:90977403 original size:3 final size:3
Alignment explanation
Indices: 90977395--90977429 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
90977385 AGAAGGAAAG
90977395 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
90977430 GAGAATTGCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:90977697 original size:18 final size:17
Alignment explanation
Indices: 90977670--90977705 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
90977660 TTTTGGTGGA
*
90977670 TTTTAATTTTTATATTT
1 TTTTAATTTTTAAATTT
90977687 TTTTAAATTTTTAAATTT
1 TTTT-AATTTTTAAATTT
90977705 T
1 T
90977706 AATCTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTAATTTTTAAATTT
Found at i:90977716 original size:25 final size:25
Alignment explanation
Indices: 90977670--90977718 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
90977660 TTTTGGTGGA
* *
90977670 TTTTAATTTTTATATTTTTTTAAAT
1 TTTTAAATTTTATATTTATTTAAAT
90977695 TTTTAAATTTTA-ATCTTATTTAAA
1 TTTTAAATTTTATAT-TTATTTAAA
90977719 CTATATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTAAATTTTATATTTATTTAAAT
Found at i:90977780 original size:38 final size:34
Alignment explanation
Indices: 90977739--90977808 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
90977729 AAATATGCAT
90977739 TATA-TATATAAT-TAATTATATACTTATACTTAA
1 TATATTATAT-ATCTAATTATATACTTATACTTAA
90977772 TATATTATATATCTAATTATATACTTATACTTAA
1 TATATTATATATCTAATTATATACTTATACTTAA
90977806 TAT
1 TAT
90977809 TCTCGCCATT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 6 0.17
34 29 0.83
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (34 bp):
TATATTATATATCTAATTATATACTTATACTTAA
Found at i:90980499 original size:72 final size:73
Alignment explanation
Indices: 90979954--90982801 Score: 3611
Period size: 75 Copynumber: 38.5 Consensus size: 73
90979944 CATGTGAACC
** * * *
90979954 GAGGCTCAACTCATTTCTCGCAACATGAGTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTC
*
90980018 AGCGTGTTCT
64 AGCGTGTCCT
* * *
90980028 GAGGTTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAAGTAGAAATTGAAAATACCTCG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-CAGAAATTGAAAATACCTCA
* *
90980092 GCGTGCCCC
65 GCGTGTCCT
*
90980101 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAATACCTCA
90980166 GCGTGTCCT
65 GCGTGTCCT
*
90980175 GAGGCTCAAGTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC----A--G---A--AATTGA
* * *
90980240 AAATACCTCAACGCGTCTT
55 AAATACCTCAGCGTGTCCT
*
90980259 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90980324 AATGTGTCTT
64 AGCGTGTCCT
* * *
90980334 GAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTTG-ACAACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTC
90980398 AGCGTGTCCT
64 AGCGTGTCCT
* * *
90980408 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG
90980472 CGTGTCCT
66 CGTGTCCT
* * *
90980480 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG
90980544 CGTGTCCT
66 CGTGTCCT
** * *
90980552 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTC
90980616 AGCGTGTCCT
64 AGCGTGTCCT
* *
90980626 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACA-AAAGTTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCA
90980689 GCGTGTCCT
65 GCGTGTCCT
* *
90980698 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACA-AAAGTTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCA
90980761 GCGTGTCCT
65 GCGTGTCCT
* *
90980770 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACA-AAAGTTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCA
90980833 GCGTGTCCT
65 GCGTGTCCT
* *
90980842 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACA-AAAGTTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCA
90980905 GCGTGTCCT
65 GCGTGTCCT
* *
90980914 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACA-AAAGTTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCA
90980977 GCGTGTCCT
65 GCGTGTCCT
* *
90980986 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACA-AAAGTTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCA
90981049 GCGTGTCCT
65 GCGTGTCCT
* *
90981058 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACA-AAAGTTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCA
90981121 GCGTGTCCT
65 GCGTGTCCT
* *
90981130 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACA-AAAGTTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCA
90981193 GCGTGTCCT
65 GCGTGTCCT
* *
90981202 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACA-AAAGTTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCA
90981265 GCGTGTCCT
65 GCGTGTCCT
* *
90981274 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACA-AAAGTTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCA
90981337 GCGTGTCCT
65 GCGTGTCCT
* * *
90981346 GAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG
90981410 CGTGTCCT
66 CGTGTCCT
*
90981418 GAGGCTCAAGTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC----A--G---A--AATTGA
* * *
90981483 AAATACCTCAACGCGTCTT
55 AAATACCTCAGCGTGTCCT
*
90981502 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90981567 AATGTGTCTT
64 AGCGTGTCCT
*
90981577 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90981642 AATGTGTCTT
64 AGCGTGTCCT
*
90981652 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90981717 AATGTGTCTT
64 AGCGTGTCCT
*
90981727 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90981792 AATGTGTCTT
64 AGCGTGTCCT
*
90981802 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90981867 AATGTGTCTT
64 AGCGTGTCCT
*
90981877 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90981942 AATGTGTCTT
64 AGCGTGTCCT
*
90981952 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90982017 AATGTGTCTT
64 AGCGTGTCCT
*
90982027 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90982092 AATGTGTCTT
64 AGCGTGTCCT
*
90982102 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90982167 AATGTGTCTT
64 AGCGTGTCCT
*
90982177 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90982242 AATGTGTCTT
64 AGCGTGTCCT
*
90982252 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90982317 AATGTGTCTT
64 AGCGTGTCCT
*
90982327 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90982392 AATGTGTCTT
64 AGCGTGTCCT
*
90982402 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAAATACCTC
** *
90982467 AATGTGTCTT
64 AGCGTGTCCT
* * *
90982477 GAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTTG-ACAACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCTC
*
90982541 AGCGTGTTCT
64 AGCGTGTCCT
* * *
90982551 GAGGTTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAAGTAGAAATTGAAAATACCTCG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-CAGAAATTGAAAATACCTCA
* *
90982615 GCGTGCCCC
65 GCGTGTCCT
*
90982624 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAAATACCTCA
90982689 GCGTGTCCT
65 GCGTGTCCT
** * * * * * * *
90982698 GAGGCTCAACTCATTTCTCGCAATATGAG-TCA-ATTT--AAAACATAAACTAAAAATACATCGG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG
* *
90982759 CGTGCCCC
66 CGTGTCCT
*
90982767 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
90982802 AAAAATACCT
Statistics
Matches: 2633, Mismatches: 95, Indels: 95
0.93 0.03 0.03
Matches are distributed among these distances:
69 53 0.02
70 2 0.00
71 23 0.01
72 917 0.35
73 132 0.05
74 328 0.12
75 1031 0.39
76 8 0.00
77 4 0.00
79 1 0.00
80 2 0.00
82 4 0.00
84 106 0.04
85 6 0.00
86 16 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG
CGTGTCCT
Found at i:91006094 original size:31 final size:29
Alignment explanation
Indices: 91006019--91006097 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 29
91006009 GTACAAGATC
*
91006019 AAATCAAAATTTCATGTATAAAATTGAACA
1 AAATC-AAAGTTCATGTATAAAATTGAACA
* *
91006049 AAA-CAAAGTTCATGTATACAATTGCACA
1 AAATCAAAGTTCATGTATAAAATTGAACA
91006077 TTAAATCATAA-TTCATGTATA
1 --AAATCA-AAGTTCATGTATA
91006098 GTTTTGGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
28 21 0.50
29 1 0.02
30 6 0.14
31 12 0.29
32 2 0.05
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.32
Consensus pattern (29 bp):
AAATCAAAGTTCATGTATAAAATTGAACA
Found at i:91006800 original size:3 final size:3
Alignment explanation
Indices: 91006792--91006823 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
91006782 TGTCATTCTC
91006792 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
91006824 GGATAACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:91007206 original size:60 final size:63
Alignment explanation
Indices: 91007105--91007240 Score: 163
Period size: 60 Copynumber: 2.2 Consensus size: 63
91007095 ATTGATTTAA
** * *
91007105 TAATAAATTTAACCTTTTAATATTTACACATTCTATCAATTTGATACTAAA-TAT-AAAA-ATT
1 TAATAAATTTAACCTCCTAATATTTACAAATTCTATCAATTTAATAC-AAATTATAAAAATATT
* * * *
91007166 TAATAAATTTAACC-CCTAATATTTACAAATTTTATTAATTTAATTCAAATTTTAAAAATATT
1 TAATAAATTTAACCTCCTAATATTTACAAATTCTATCAATTTAATACAAATTATAAAAATATT
91007228 TAATAAATTTAAC
1 TAATAAATTTAAC
91007241 TTCAACATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
59 3 0.05
60 27 0.42
61 18 0.28
62 16 0.25
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (63 bp):
TAATAAATTTAACCTCCTAATATTTACAAATTCTATCAATTTAATACAAATTATAAAAATATT
Found at i:91007237 original size:31 final size:33
Alignment explanation
Indices: 91007159--91007245 Score: 94
Period size: 31 Copynumber: 2.8 Consensus size: 33
91007149 TACTAAATAT
** *
91007159 AAAA-ATTTAATAAATTTAACCCCTAATATTTA
1 AAAATATTTAATAAATTTAACTTCAAATATTTA
* *
91007191 CAAAT-TTT-ATTAATTTAA-TTCAAAT-TTTA
1 AAAATATTTAATAAATTTAACTTCAAATATTTA
91007220 AAAATATTTAATAAATTTAACTTCAA
1 AAAATATTTAATAAATTTAACTTCAA
91007246 CATTAAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
29 8 0.18
30 7 0.16
31 18 0.41
32 11 0.25
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (33 bp):
AAAATATTTAATAAATTTAACTTCAAATATTTA
Done.