Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 271 of 349
Found at i:90512867 original size:15 final size:15
Alignment explanation
Indices: 90512827--90512867 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
90512817 GTTTGCCAGT
*
90512827 AAAAT-ATTTTCCAG
1 AAAATGATTTTCTAG
90512841 AAAATGA-TTTCTAG
1 AAAATGATTTTCTAG
90512855 AAAATGATTTTCT
1 AAAATGATTTTCT
90512868 TTTCTGGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (15 bp):
AAAATGATTTTCTAG
Found at i:90513286 original size:22 final size:22
Alignment explanation
Indices: 90513269--90513355 Score: 97
Period size: 22 Copynumber: 3.9 Consensus size: 22
90513259 GCATAATTAG
*
90513269 TATTACACCACATGATAACAACAA
1 TATTACACCACATGATAAC--TAA
*
90513293 TATTATA-CA-AGTGCATAACTAA
1 TATTACACCACA-TG-ATAACTAA
*
90513315 TATTACACTACATGATAACTAA
1 TATTACACCACATGATAACTAA
90513337 TATTACACCACATGATAAC
1 TATTACACCACATGATAAC
90513356 AACAACATTG
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
22 35 0.65
23 7 0.13
24 12 0.22
ACGTcount: A:0.46, C:0.21, G:0.06, T:0.28
Consensus pattern (22 bp):
TATTACACCACATGATAACTAA
Found at i:90513298 original size:46 final size:46
Alignment explanation
Indices: 90513245--90513333 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
90513235 AGAAATTAAT
* * *
90513245 AATATTATCCAAATGCATAATTAGTATTACACCACATGATAACAAC
1 AATATTATACAAATGCATAACTAATATTACACCACATGATAACAAC
* *
90513291 AATATTATACAAGTGCATAACTAATATTACACTACATGATAAC
1 AATATTATACAAATGCATAACTAATATTACACCACATGATAAC
90513334 TAATATTACA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (46 bp):
AATATTATACAAATGCATAACTAATATTACACCACATGATAACAAC
Found at i:90513437 original size:35 final size:35
Alignment explanation
Indices: 90513391--90513460 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
90513381 AATATTACAG
90513391 CACATTAAAAGTATCAATATCTTCAACCTTGAGAA
1 CACATTAAAAGTATCAATATCTTCAACCTTGAGAA
90513426 CACATTAAAAGTATCAATATCTTCAACCTTGAGAA
1 CACATTAAAAGTATCAATATCTTCAACCTTGAGAA
90513461 AATTTTTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (35 bp):
CACATTAAAAGTATCAATATCTTCAACCTTGAGAA
Found at i:90514426 original size:32 final size:32
Alignment explanation
Indices: 90514380--90514440 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
90514370 TGTCAATCAT
90514380 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
90514412 TTCAATATCTAACAAGCTTGAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
90514441 CAATATCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:90514447 original size:27 final size:30
Alignment explanation
Indices: 90514380--90514453 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
90514370 TGTCAATCAT
*
90514380 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
*
90514412 TTCAATATCTAACAAGCTTGAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
90514440 -TCAATATCTAACAA
1 TTCAATATCTAACAA
90514454 ATTCAAGACA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.35
28 2 0.05
29 2 0.05
32 22 0.55
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:90514464 original size:27 final size:27
Alignment explanation
Indices: 90514413--90514467 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
90514403 CATAATAAAT
* *
90514413 TCAATATCTAACAAGCTTGAAACATAA
1 TCAATATCTAACAAGATTCAAACATAA
90514440 TCAATATCTAACAA-ATTCAAGACATAA
1 TCAATATCTAACAAGATTCAA-ACATAA
90514467 T
1 T
90514468 AATTTCAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.49, C:0.18, G:0.05, T:0.27
Consensus pattern (27 bp):
TCAATATCTAACAAGATTCAAACATAA
Found at i:90515956 original size:13 final size:13
Alignment explanation
Indices: 90515938--90515971 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
90515928 AAACATATCA
*
90515938 AAAATTTAAATTT
1 AAAATTTAAAATT
90515951 AAAATTTAAAATT
1 AAAATTTAAAATT
90515964 AACAATTT
1 AA-AATTT
90515972 TTATTTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAATTTAAAATT
Found at i:90516556 original size:7 final size:7
Alignment explanation
Indices: 90516544--90516568 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
90516534 TATTTAATAC
90516544 AATATTT
1 AATATTT
90516551 AATATTT
1 AATATTT
90516558 AATATTT
1 AATATTT
90516565 AATA
1 AATA
90516569 CTCATTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (7 bp):
AATATTT
Found at i:90516836 original size:22 final size:20
Alignment explanation
Indices: 90516781--90516839 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
90516771 AAAATTGTAA
*
90516781 TTTAACTATA-AAATTAAGAT
1 TTTAA-TATATAAATTAAAAT
*
90516801 TTTAATATTTTAAATTGAAAAT
1 TTTAATA-TATAAATT-AAAAT
90516823 TTGTAATATATAAATTA
1 TT-TAATATATAAATTA
90516840 TGTATAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 6 0.19
22 13 0.41
23 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTAATATATAAATTAAAAT
Found at i:90517672 original size:5 final size:5
Alignment explanation
Indices: 90517664--90517690 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
90517654 TTATGGTATA
90517664 TTGTG TTGTG TTGTG TTGTG TTGTG TT
1 TTGTG TTGTG TTGTG TTGTG TTGTG TT
90517691 TGAATATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.37, T:0.63
Consensus pattern (5 bp):
TTGTG
Found at i:90523654 original size:50 final size:51
Alignment explanation
Indices: 90523535--90523666 Score: 169
Period size: 52 Copynumber: 2.6 Consensus size: 51
90523525 ATTGTGAGAA
* * * *
90523535 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTCTAAAATGG-TTTAGGT
* *
90523587 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACT-AGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGTAGGCTACTACGTGT-CTAAAATGGTTTAGGT
*
90523637 CACAAGTGTAGTACTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGTAGGCTACTA
90523667 TGCATACCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
50 34 0.48
52 36 0.51
53 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGTAGGCTACTACGTGTCTAAAATGGTTTAGGT
Found at i:90525552 original size:36 final size:36
Alignment explanation
Indices: 90525509--90525588 Score: 133
Period size: 36 Copynumber: 2.2 Consensus size: 36
90525499 GTATCCCAAG
*
90525509 CCACACGGACGTGTGTGACCACACGGGCATGTGTGA
1 CCACACGGACGTGTGTGACCACACAGGCATGTGTGA
* *
90525545 CCACACGGGCGTGTGTGACTACACAGGCATGTGTGA
1 CCACACGGACGTGTGTGACCACACAGGCATGTGTGA
90525581 CCACACGG
1 CCACACGG
90525589 TTCAACACAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.23, C:0.29, G:0.33, T:0.16
Consensus pattern (36 bp):
CCACACGGACGTGTGTGACCACACAGGCATGTGTGA
Found at i:90525561 original size:20 final size:18
Alignment explanation
Indices: 90525509--90525588 Score: 115
Period size: 18 Copynumber: 4.4 Consensus size: 18
90525499 GTATCCCAAG
*
90525509 CCACACGGACGTGTGTGA
1 CCACACGGGCGTGTGTGA
*
90525527 CCACACGGGCATGTGTGA
1 CCACACGGGCGTGTGTGA
90525545 CCACACGGGCGTGTGTGA
1 CCACACGGGCGTGTGTGA
* * *
90525563 CTACACAGGCATGTGTGA
1 CCACACGGGCGTGTGTGA
90525581 CCACACGG
1 CCACACGG
90525589 TTCAACACAC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 54 1.00
ACGTcount: A:0.23, C:0.29, G:0.33, T:0.16
Consensus pattern (18 bp):
CCACACGGGCGTGTGTGA
Found at i:90527472 original size:20 final size:20
Alignment explanation
Indices: 90527447--90527487 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
90527437 GTATTCGCCC
90527447 ATGGATGTATACCAAGATTT
1 ATGGATGTATACCAAGATTT
*
90527467 ATGGATGTATACCAGGATTT
1 ATGGATGTATACCAAGATTT
90527487 A
1 A
90527488 GTTCTTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (20 bp):
ATGGATGTATACCAAGATTT
Found at i:90528871 original size:47 final size:48
Alignment explanation
Indices: 90528767--90528874 Score: 130
Period size: 47 Copynumber: 2.3 Consensus size: 48
90528757 TTCTATTGGG
* * *
90528767 CCTTTGTGGTGTATTCAGTATGTTGCCTTTTTAGAGTACTCTGATAGA
1 CCTTTGTGGCGTATTCAGTAGGTTGCCTTTGTAGAGTACTCTGATAGA
* * * *
90528815 -CTTTGTGGCGTATTCGGTAGGTTTCCTTTGTGGAGTACTCTTATA-A
1 CCTTTGTGGCGTATTCAGTAGGTTGCCTTTGTAGAGTACTCTGATAGA
*
90528861 CCTTTTTGGCGTAT
1 CCTTTGTGGCGTAT
90528875 ACTGTCTGGC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 1 0.02
47 50 0.98
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (48 bp):
CCTTTGTGGCGTATTCAGTAGGTTGCCTTTGTAGAGTACTCTGATAGA
Found at i:90531797 original size:27 final size:28
Alignment explanation
Indices: 90531754--90531820 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
90531744 AAACACCATT
*
90531754 AAAA-ATAATAGAAAATATAAATT-T-TA
1 AAAATATAATATAAAATA-AAATTATATA
*
90531780 AAAATATAATATATAATAAAATTATATA
1 AAAATATAATATAAAATAAAATTATATA
*
90531808 AATAATTTAATAT
1 AA-AATATAATAT
90531821 TTGTAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.26
27 12 0.35
28 4 0.12
29 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (28 bp):
AAAATATAATATAAAATAAAATTATATA
Found at i:90558088 original size:20 final size:20
Alignment explanation
Indices: 90558024--90558124 Score: 66
Period size: 20 Copynumber: 5.1 Consensus size: 20
90558014 CACATATGTG
90558024 CCCCTGTTTGTACCTT-GGTA
1 CCCCTGTTTGTA-CTTCGGTA
* * * *
90558044 CCCC-GATTGCACATAC-GTG
1 CCCCTGTTTGTAC-TTCGGTA
90558063 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * *
90558083 CCCCTGATTGCACATAC-GTG
1 CCCCTGTTTGTAC-TTCGGTA
*
90558103 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
90558123 CC
1 CC
90558125 TTGAATGCAC
Statistics
Matches: 58, Mismatches: 17, Indels: 12
0.67 0.20 0.14
Matches are distributed among these distances:
18 1 0.02
19 16 0.28
20 39 0.67
21 2 0.03
ACGTcount: A:0.15, C:0.34, G:0.19, T:0.33
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:90558103 original size:40 final size:40
Alignment explanation
Indices: 90558008--90558124 Score: 193
Period size: 40 Copynumber: 3.0 Consensus size: 40
90557998 AATTATTGTA
*
90558008 TGATTGCACATATGTGCCCCTGTTTGTACCTT-GGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTA-CTTCGGTACCCC
90558048 -GATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*
90558087 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
90558125 TTGAATGCAC
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 3 0.04
39 34 0.47
40 36 0.49
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.33
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:90558143 original size:79 final size:79
Alignment explanation
Indices: 90558008--90558155 Score: 192
Period size: 79 Copynumber: 1.9 Consensus size: 79
90557998 AATTATTGTA
* * * * *
90558008 TGATTGCACATATGTGCCCCTGTTTGTACCTTGGTACCCCGATTGCACATACGTGCCCCTGTTTG
1 TGATTGCACATACGTGCCCCTATTTGTACCTTGGTACCCCGAATGCACATACGTGCCCCTATTTA
90558073 TACTTCGGTACCCC
66 TACTTCGGTACCCC
** *
90558087 TGATTGCACATACGTGCCCCTATTTGTA-CTTCGGTACCTTGAATGCACTTTA-GTGCCCCTATT
1 TGATTGCACATACGTGCCCCTATTTGTACCTT-GGTACCCCGAATGCAC-ATACGTGCCCCTATT
90558150 TATACT
64 TATACT
90558156 CTGGTGACTC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
78 3 0.05
79 54 0.92
80 2 0.03
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (79 bp):
TGATTGCACATACGTGCCCCTATTTGTACCTTGGTACCCCGAATGCACATACGTGCCCCTATTTA
TACTTCGGTACCCC
Found at i:90558145 original size:39 final size:39
Alignment explanation
Indices: 90558008--90558155 Score: 183
Period size: 39 Copynumber: 3.8 Consensus size: 39
90557998 AATTATTGTA
* *
90558008 TGATTGCACATATGTGCCCCTGTTTGTACCTT-GGTACCC
1 TGATTGCACATACGTGCCCCTATTTGTA-CTTCGGTACCC
* *
90558047 CGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTA-CCC
*
90558087 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCT
1 TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
* * *
90558126 TGAATGCACTTTA-GTGCCCCTATTTATACT
1 TGATTGCAC-ATACGTGCCCCTATTTGTACT
90558156 CTGGTGACTC
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
38 3 0.03
39 56 0.57
40 39 0.40
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (39 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTCGGTACCC
Found at i:90560196 original size:25 final size:26
Alignment explanation
Indices: 90560168--90560216 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
90560158 GAGCATCCCG
*
90560168 ATTAA-AGGTTCTTTGTGAACTTCTC
1 ATTAATAGGCTCTTTGTGAACTTCTC
* *
90560193 ATTAATTGGCTCTTTGTGAGCTTC
1 ATTAATAGGCTCTTTGTGAACTTC
90560217 CCGATAGTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.45
Consensus pattern (26 bp):
ATTAATAGGCTCTTTGTGAACTTCTC
Found at i:90560287 original size:24 final size:24
Alignment explanation
Indices: 90560255--90560326 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 24
90560245 ATTAGCTATC
90560255 TGAAGCTTCCCGATATGGTTCTTTG
1 TGAA-CTTCCCGATATGGTTCTTTG
* * *
90560280 TGAACTTCCCAACAAGGTTCTTTG
1 TGAACTTCCCGATATGGTTCTTTG
*
90560304 TGAACTTCCCGATTATGGCTCTT
1 TGAACTTCCCGA-TATGGTTCTT
90560327 ATGAGCTACC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 28 0.72
25 11 0.28
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (24 bp):
TGAACTTCCCGATATGGTTCTTTG
Found at i:90562485 original size:46 final size:44
Alignment explanation
Indices: 90562435--90562610 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 44
90562425 TGGTTGAGCA
90562435 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
90562481 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
*
90562528 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *
90562574 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
90562611 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:90562591 original size:93 final size:93
Alignment explanation
Indices: 90562432--90562602 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
90562422 GGATGGTTGA
* *
90562432 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90562497 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
90562525 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90562590 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
90562603 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:90566383 original size:49 final size:49
Alignment explanation
Indices: 90566322--90566553 Score: 241
Period size: 49 Copynumber: 4.7 Consensus size: 49
90566312 CTGGTATGCA
* * *
90566322 TAGTAGCCTGCACATAGTGCTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACG
* *
90566371 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACG
** ** *
90566420 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCAT-CTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCAG-TACACG
* * * * ** ** *
90566470 TAGTAGCCTACACTTAGTACTACACACGTGATCACAGTTTTCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCCAGTACACG
*
90566521 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
90566554 TCACAATAGA
Statistics
Matches: 155, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
49 79 0.51
50 40 0.26
51 34 0.22
52 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCAGTACACG
Found at i:90566492 original size:99 final size:101
Alignment explanation
Indices: 90566365--90566546 Score: 287
Period size: 101 Copynumber: 1.8 Consensus size: 101
90566355 AATTATCCAG
* *
90566365 TACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACGTAGTAGCC
1 TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCACAATTATCCGGTACACATAGTAGCC
90566428 TGCACTTAGTACTACACACATGACCTAACCATCTGA
66 TGCACTTAGTACTACACACATGACCTAACCATCTGA
* * * **
90566464 TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCACAGTTTTCGGGTATGCATAGTAGCC
1 TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCACAATTATCCGGTACACATAGTAGCC
90566529 TGCACTTAGTACTACACA
66 TGCACTTAGTACTACACA
90566547 TGCGACCTCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
99 36 0.49
100 1 0.01
101 37 0.50
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (101 bp):
TACACGTAGTAGCCTACACTTAGTACTACACACGTGATCACAATTATCCGGTACACATAGTAGCC
TGCACTTAGTACTACACACATGACCTAACCATCTGA
Found at i:90566547 original size:99 final size:96
Alignment explanation
Indices: 90566309--90566548 Score: 284
Period size: 99 Copynumber: 2.4 Consensus size: 96
90566299 TAGCCAAAGC
* * * **
90566309 TATCTGGTATGCATAGTAGCCTGCACATAGTGCTACACATGCGACCAATTATCCAGTACACGTAG
1 TATCCGGTATGCATAGTAGCCTGCACTTAGTACTACACAT--GACCAACCATCCAGTACACGTAG
*
90566374 TAGCCTGCACTTAGTACTACACACGTGACCAAT
64 TAGCCTACACTTAGTACTACACACGTGACCAAT
** * *
90566407 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCAT-CTGATACACGT
1 TATCCGGTATGCATAGTAGCCTGCACTTAGTACT--ACACATGACC-AACCATCCAG-TACACGT
*
90566471 AGTAGCCTACACTTAGTACTACACACGTGATCACAGT
62 AGTAGCCTACACTTAGTACTACACACGTGA-C-CAAT
* *
90566508 TTTCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATG
1 TATCCGGTATGCATAGTAGCCTGCACTTAGTACTACACATG
90566549 CGACCTCACA
Statistics
Matches: 120, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
98 34 0.28
99 47 0.39
100 7 0.06
101 32 0.27
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (96 bp):
TATCCGGTATGCATAGTAGCCTGCACTTAGTACTACACATGACCAACCATCCAGTACACGTAGTA
GCCTACACTTAGTACTACACACGTGACCAAT
Found at i:90569810 original size:79 final size:80
Alignment explanation
Indices: 90569711--90569878 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 80
90569701 CTCGTTCAAG
* * ** * *
90569711 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATTC-AATGCCTTCAGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCAGGACTTAACCCGGA-A
*
90569774 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * * *
90569790 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCAGGACTTAACCCGGAATT
90569855 AATAACTCGCACAAA
66 AATAACTCGCACAAA
*
90569870 TACCTTCGG
1 TGCCTTCGG
90569879 ATCTTAGTCC
Statistics
Matches: 74, Mismatches: 12, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
79 32 0.43
80 42 0.57
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCAGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:90569862 original size:80 final size:80
Alignment explanation
Indices: 90569751--90569931 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
90569741 CTCATTCAAT
* * * *
90569751 GCCTTCAGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
90569814 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
90569830 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
90569894 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
90569911 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
90569932 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
79 7 0.08
80 70 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:90569891 original size:40 final size:40
Alignment explanation
Indices: 90569748--90569931 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
90569738 TAACTCATTC
* * *
90569748 AATGCCTTCAGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
90569788 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
90569828 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
90569868 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
90569909 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
90569932 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 102 0.84
41 11 0.09
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:90577238 original size:80 final size:80
Alignment explanation
Indices: 90577125--90577304 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
90577115 CTCATTCAAT
* * *
90577125 GCCTTC-GGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
90577187 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
90577203 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
90577267 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
90577284 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
90577305 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 13 0.15
80 64 0.73
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:90577264 original size:40 final size:40
Alignment explanation
Indices: 90577122--90577304 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
90577112 TAACTCATTC
* *
90577122 AATGCCTTC-GGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
90577161 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
90577201 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
90577241 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
90577282 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
90577305 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 17 0.14
40 93 0.77
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:90585139 original size:80 final size:80
Alignment explanation
Indices: 90585026--90585205 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
90585016 CTCATTCAAT
* * *
90585026 GCCTTC-GGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
90585088 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
90585104 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
90585168 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
90585185 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
90585206 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 13 0.15
80 64 0.73
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:90585165 original size:40 final size:40
Alignment explanation
Indices: 90585023--90585205 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
90585013 TAACTCATTC
* *
90585023 AATGCCTTC-GGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
90585062 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
90585102 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
90585142 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
90585183 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
90585206 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 17 0.14
40 93 0.77
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:90588455 original size:46 final size:46
Alignment explanation
Indices: 90588388--90588557 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 46
90588378 GCCCCTAAGA
* * *
90588388 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAAT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAAT
* * * * ** *
90588434 GAACTCGGACTCAACTCAACGAGTTCAGATGCCTAG-TTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATG-TTAGCATCCAT-AAAT
** * *
90588481 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAAT
*
90588527 GAACTCGAACTCAACTCAACGAGTTCGGATG
1 GAACTCGGACTCAACTCAACGAGTTCGGATG
90588558 CTCAACCATC
Statistics
Matches: 97, Mismatches: 24, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
46 62 0.64
47 35 0.36
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAAT
Found at i:90588547 original size:93 final size:93
Alignment explanation
Indices: 90588388--90588558 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
90588378 GCCCCTAAGA
*** *
90588388 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
90588453 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* * *
90588481 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
*
90588546 CGAGTTCGGATGC
66 CGAGTTCAGATGC
90588559 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:90592848 original size:17 final size:17
Alignment explanation
Indices: 90592826--90592860 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
90592816 GCTAGTGGAA
90592826 TATTCATATATATTTTC
1 TATTCATATATATTTTC
90592843 TATTCATATATATTTTC
1 TATTCATATATATTTTC
90592860 T
1 T
90592861 TCCTCCTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTCATATATATTTTC
Found at i:90594051 original size:8 final size:8
Alignment explanation
Indices: 90594009--90594033 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
90593999 ATATAGACTA
90594009 AATAAAAT
1 AATAAAAT
90594017 AATAAAAT
1 AATAAAAT
90594025 AATAAAAT
1 AATAAAAT
90594033 A
1 A
90594034 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:90594057 original size:29 final size:31
Alignment explanation
Indices: 90594006--90594078 Score: 82
Period size: 29 Copynumber: 2.5 Consensus size: 31
90593996 TATATATAGA
*
90594006 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
90594035 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
90594066 CTAATT-AAATAAT
1 CTAATTAAAATAAT
90594079 TATAAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
28 6 0.17
29 14 0.39
30 6 0.17
31 10 0.28
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:90594083 original size:29 final size:30
Alignment explanation
Indices: 90594013--90594084 Score: 71
Period size: 31 Copynumber: 2.4 Consensus size: 30
90594003 AGACTAAATA
*
90594013 AAATAA-TA-AAATAATAAAATATCTTATT
1 AAATAATTATAAATAATAAAATATCTAATT
*
90594041 AAA-ATATTAAATAAATAAT-AATTATCTAATT
1 AAATA-ATT--ATAAATAATAAAATATCTAATT
90594072 AAATAATTATAAA
1 AAATAATTATAAA
90594085 ATATCACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
27 1 0.03
28 4 0.11
29 6 0.17
31 17 0.47
32 8 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (30 bp):
AAATAATTATAAATAATAAAATATCTAATT
Found at i:90602220 original size:43 final size:43
Alignment explanation
Indices: 90602073--90602226 Score: 165
Period size: 43 Copynumber: 3.6 Consensus size: 43
90602063 TGGGATTTCG
* *
90602073 TGTAAGACCACGTCTGGGACATTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACGTTTGGGACATTGGCATCGA-TATTTGA-TTACA
* * *
90602117 TGTAAAACCATGTTTGAGG-CATTGGCATCG-TATTTGATTTCA
1 TGTAAGACCACGTTTG-GGACATTGGCATCGATATTTGATTACA
*
90602159 TGTAAGACC-C-TATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCACGT-T-TGGGACATTGGCATCGATATTTGATTACA
*
90602202 TGTAAGACCACGTTTGGGACGTTGG
1 TGTAAGACCACGTTTGGGACATTGG
90602227 TATTGTACGA
Statistics
Matches: 91, Mismatches: 11, Indels: 17
0.76 0.09 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 25 0.27
43 33 0.36
44 26 0.29
45 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTTTGGGACATTGGCATCGATATTTGATTACA
Found at i:90605624 original size:20 final size:20
Alignment explanation
Indices: 90605599--90605638 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
90605589 AAATATATAT
90605599 GAGATATGTATATGTAGTAA
1 GAGATATGTATATGTAGTAA
*
90605619 GAGATATGTATATGTGGTAA
1 GAGATATGTATATGTAGTAA
90605639 AGCCGAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.35
Consensus pattern (20 bp):
GAGATATGTATATGTAGTAA
Found at i:90605682 original size:48 final size:48
Alignment explanation
Indices: 90605619--90606075 Score: 413
Period size: 48 Copynumber: 9.1 Consensus size: 48
90605609 TATGTAGTAA
90605619 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
1 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
90605667 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
1 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
* * *
90605715 GAGATAAGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATATAT
1 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
* * * * *
90605763 GAGATATGTGAAATAT-GT-ATG-AGATAT-G-TATATGTGGTAAAGCCGAATGGCTAAT
1 GAGATATGT-ATATGTGGTAAAGCCGA-ATGGCTA-ATGT-G-AAA----TAT-G-T-AT
* * * * * ** * * * * * *
90605818 GTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAA-ATATGTAT
1 GAGATATGTATAT--G-T-GGTA-AAGCCG-AATGGCTAA----T-GTG-AAATATGT-A-T
90605879 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
1 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
*
90605927 GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAT
1 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
*
90605975 GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAT
1 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
* *
90606023 GAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAG
1 GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
90606071 GAGAT
1 GAGAT
90606076 GTGTGTATAT
Statistics
Matches: 340, Mismatches: 39, Indels: 60
0.77 0.09 0.14
Matches are distributed among these distances:
45 2 0.01
46 7 0.02
47 4 0.01
48 254 0.75
49 6 0.02
50 6 0.02
51 1 0.00
52 2 0.01
54 4 0.01
55 14 0.04
56 3 0.01
57 4 0.01
58 1 0.00
59 3 0.01
60 1 0.00
61 14 0.04
62 4 0.01
63 2 0.01
64 1 0.00
67 5 0.01
68 2 0.01
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
GAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
Found at i:90605771 original size:20 final size:20
Alignment explanation
Indices: 90605748--90605791 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
90605738 CGAATGGCTA
90605748 ATGTGAAATATATATGAGAT
1 ATGTGAAATATATATGAGAT
*
90605768 ATGTGAAATATGTATGAGAT
1 ATGTGAAATATATATGAGAT
90605788 ATGT
1 ATGT
90605792 ATATGTGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.23, T:0.36
Consensus pattern (20 bp):
ATGTGAAATATATATGAGAT
Found at i:90605779 original size:68 final size:68
Alignment explanation
Indices: 90605700--90605839 Score: 262
Period size: 68 Copynumber: 2.1 Consensus size: 68
90605690 CGAATGGCTA
*
90605700 ATGTGAAATATGTATGAGATAAGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATATATGA
1 ATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
90605765 GAT
66 GAT
*
90605768 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 ATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
90605833 GAT
66 GAT
90605836 ATGT
1 ATGT
90605840 ATATGTGGTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (68 bp):
ATGTGAAATATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
GAT
Found at i:90605789 original size:164 final size:164
Alignment explanation
Indices: 90605589--90605936 Score: 608
Period size: 164 Copynumber: 2.1 Consensus size: 164
90605579 AAATATAGAT
* *
90605589 AAATATATATGAGATATGTATATGTAGTAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
1 AAATATATATGAGATATGTAAATATAGTAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
*
90605654 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
66 GTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
*
90605719 TAAGTATATGTGGTAAATCCGAATGGCTAATGTG
131 TAAGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
90605753 AAATATATATGAGATATGTGAAATAT-GTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
1 AAATATATATGAGATATGT-AAATATAGTAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
*
90605817 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
65 TGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
90605882 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
130 ATAAGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
90605917 AAATATGTATGAGATATGTA
1 AAATATATATGAGATATGTA
90605937 TATGTGGTAA
Statistics
Matches: 175, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
163 1 0.01
164 170 0.97
165 4 0.02
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (164 bp):
AAATATATATGAGATATGTAAATATAGTAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
GTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
TAAGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:90605793 original size:116 final size:116
Alignment explanation
Indices: 90605652--90605887 Score: 427
Period size: 116 Copynumber: 2.0 Consensus size: 116
90605642 CGAATGGCTA
*
90605652 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
*
90605717 GATAAGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATATATGAGAT
66 GATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
90605768 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
* * *
90605833 GATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
66 GATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
90605884 ATGT
1 ATGT
90605888 ATATGTGGTA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (116 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
GATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
Found at i:90605886 original size:96 final size:96
Alignment explanation
Indices: 90605769--90606075 Score: 587
Period size: 96 Copynumber: 3.2 Consensus size: 96
90605759 ATATGAGATA
*
90605769 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
90605834 ATATGTATATGTGGTAAAGCCGAATGGCTAG
66 ATATGTATATGTGGTAAAGCCGAATGGCTAG
90605865 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
90605930 ATATGTATATGTGGTAAAGCCGAATGGCTAG
66 ATATGTATATGTGGTAAAGCCGAATGGCTAG
*
90605961 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
90606026 ATATGTATATGTGGTAAAGCCGAATGGCTAG
66 ATATGTATATGTGGTAAAGCCGAATGGCTAG
*
90606057 TGTGAAATATGTAGGAGAT
1 TGTGAAATATGTATGAGAT
90606076 GTGTGTATAT
Statistics
Matches: 208, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 208 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (96 bp):
TGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
ATATGTATATGTGGTAAAGCCGAATGGCTAG
Found at i:90606028 original size:144 final size:144
Alignment explanation
Indices: 90605768--90606075 Score: 580
Period size: 144 Copynumber: 2.1 Consensus size: 144
90605758 TATATGAGAT
90605768 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
90605833 GATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTA
66 GATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTA
90605898 AAGCCGAATGGCTA
131 AAGCCGAATGGCTA
* *
90605912 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGA
1 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
90605977 GATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTA
66 GATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTA
90606042 AAGCCGAATGGCTA
131 AAGCCGAATGGCTA
* *
90606056 GTGTGAAATATGTAGGAGAT
1 ATGTGAAATATGTATGAGAT
90606076 GTGTGTATAT
Statistics
Matches: 160, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 160 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (144 bp):
ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGA
GATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTA
AAGCCGAATGGCTA
Found at i:90606266 original size:37 final size:37
Alignment explanation
Indices: 90606216--90606318 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
90606206 GGAAATATAT
90606216 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
90606253 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
90606290 TTCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
90606319 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:90608230 original size:43 final size:43
Alignment explanation
Indices: 90608160--90608329 Score: 175
Period size: 43 Copynumber: 4.0 Consensus size: 43
90608150 CATAAGCTCG
* * * *
90608160 TACAATGCC-ATATCCTAGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCTAGACAGGGTCTTACATGTAATCACAA
* * *
90608201 TATCGATGCCACTGTGCC-AGACAGGGTCTTACACGTAATCACAA
1 TA-CAATGCCAATGT-CCTAGACAGGGTCTTACATGTAATCACAA
*
90608245 TACAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACAA
1 TACAATGCCAATGTCCTAGACAGGGTCTTACATGTAATCACAA
* * * * * *
90608288 TACAATTCCAATTTCCCAAACATGGTCTTACGTGTAATCACA
1 TACAATGCCAATGTCCTAGACAGGGTCTTACATGTAATCACA
90608330 TCTCTGTAAC
Statistics
Matches: 108, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.02
42 8 0.07
43 93 0.86
44 5 0.05
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
TACAATGCCAATGTCCTAGACAGGGTCTTACATGTAATCACAA
Found at i:90608317 original size:86 final size:85
Alignment explanation
Indices: 90608160--90608329 Score: 207
Period size: 86 Copynumber: 2.0 Consensus size: 85
90608150 CATAAGCTCG
* * * * * *
90608160 TACAATGCCATATCCTAGATATGGTCTTACATGTTATCACATATCGATGCCACTGTGCCAGACAG
1 TACAATGCCATATCCTAGACATGGTCTTACATGTAATCACATATCAATGCCAATGTCCCAAACAG
90608225 GGTCTTACACGTAATCACAA
66 GGTCTTACACGTAATCACAA
* * *
90608245 TACAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACA-ATACAATTCCAATTTCCCAAAC
1 TACAATGCC-ATATCCTAGACATGGTCTTACATGTAATCACATAT-CAATGCCAATGTCCCAAAC
* **
90608309 ATGGTCTTACGTGTAATCACA
64 AGGGTCTTACACGTAATCACA
90608330 TCTCTGTAAC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
85 11 0.15
86 60 0.85
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (85 bp):
TACAATGCCATATCCTAGACATGGTCTTACATGTAATCACATATCAATGCCAATGTCCCAAACAG
GGTCTTACACGTAATCACAA
Found at i:90621021 original size:28 final size:29
Alignment explanation
Indices: 90620987--90621071 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 29
90620977 AGGAAAAGAA
90620987 AAGCCTTTATGGTGAACCTATTAAAGGAT
1 AAGCCTTTATGGTGAACCTATTAAAGGAT
** * *
90621016 -AGCCTTTATGGCAAAACTCTA-GAAATG-T
1 AAGCCTTTATGG-TGAAC-CTATTAAAGGAT
*
90621044 AAGCCTTTATCGTGAACCTATTAAAGGA
1 AAGCCTTTATGGTGAACCTATTAAAGGA
90621072 CATCCTTTTA
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
27 3 0.07
28 19 0.45
29 17 0.40
30 3 0.07
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (29 bp):
AAGCCTTTATGGTGAACCTATTAAAGGAT
Found at i:90621079 original size:57 final size:58
Alignment explanation
Indices: 90620987--90621129 Score: 189
Period size: 58 Copynumber: 2.5 Consensus size: 58
90620977 AGGAAAAGAA
* * * * *
90620987 AAGCCTTTATGGTGAACCTATTAAAGGATAGCC-TTTATGGCAAAACTCTAGAAATGT
1 AAGCCTTTATGGTGAACCTATTAAAGGACAGCCTTTTACGGAAAAACGCTAGAAAGGT
* *
90621044 AAGCCTTTATCGTGAACCTATTAAAGGACATCCTTTTACGGAAAAACGCTAGAAAGGT
1 AAGCCTTTATGGTGAACCTATTAAAGGACAGCCTTTTACGGAAAAACGCTAGAAAGGT
* * *
90621102 AAGCCTTTTTGGTAAACCTCTTAAAGGA
1 AAGCCTTTATGGTGAACCTATTAAAGGA
90621130 TGCATTTGTA
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
57 30 0.41
58 44 0.59
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (58 bp):
AAGCCTTTATGGTGAACCTATTAAAGGACAGCCTTTTACGGAAAAACGCTAGAAAGGT
Found at i:90621166 original size:28 final size:28
Alignment explanation
Indices: 90621134--90621194 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
90621124 AAAGGATGCA
*
90621134 TTTGTAGCGAGACTCTGAAATGAAAGCC
1 TTTGTAGCGAGACTCTGAAAGGAAAGCC
* *
90621162 TTTGTGGTGAGACTCTGAAAGGAAAGCC
1 TTTGTAGCGAGACTCTGAAAGGAAAGCC
90621190 TTTGT
1 TTTGT
90621195 GGTGAGTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (28 bp):
TTTGTAGCGAGACTCTGAAAGGAAAGCC
Found at i:90621195 original size:28 final size:28
Alignment explanation
Indices: 90621142--90621200 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
90621132 CATTTGTAGC
*
90621142 GAGACTCTGAAATGAAAGCCTTTGTGGT
1 GAGACTCTGAAAGGAAAGCCTTTGTGGT
90621170 GAGACTCTGAAAGGAAAGCCTTTGTGGT
1 GAGACTCTGAAAGGAAAGCCTTTGTGGT
90621198 GAG
1 GAG
90621201 TACTTAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (28 bp):
GAGACTCTGAAAGGAAAGCCTTTGTGGT
Found at i:90621223 original size:31 final size:28
Alignment explanation
Indices: 90621142--90621227 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 28
90621132 CATTTGTAGC
* *
90621142 GAGACTCTGAAATGAAAGCCTTTGTGGT
1 GAGACTATGAAAGGAAAGCCTTTGTGGT
*
90621170 GAGACTCTGAAAGGAAAGCCTTTGTGGT
1 GAGACTATGAAAGGAAAGCCTTTGTGGT
*
90621198 GAGTACTTAATGAAAAGGATA-CCTTTGTGG
1 GAG-AC-T-ATG-AAAGGAAAGCCTTTGTGG
90621228 CAACCTCTGG
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
28 30 0.59
29 2 0.04
30 1 0.02
31 11 0.22
32 7 0.14
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (28 bp):
GAGACTATGAAAGGAAAGCCTTTGTGGT
Found at i:90623090 original size:26 final size:27
Alignment explanation
Indices: 90623016--90623083 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
90623006 TGCCATAAAG
* *
90623016 TGGAAGCCTTTATGGAAATCTATGAAA
1 TGGAAGCCTTTGTGGCAATCTATGAAA
**
90623043 TGTTAGCCTTTGTGGCAATCTATGAAA
1 TGGAAGCCTTTGTGGCAATCTATGAAA
90623070 TGGAAGCC-TTGTGG
1 TGGAAGCCTTTGTGG
90623084 GGATCTAAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (27 bp):
TGGAAGCCTTTGTGGCAATCTATGAAA
Found at i:90624721 original size:8 final size:8
Alignment explanation
Indices: 90624708--90624738 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
90624698 CTTATTTCTC
90624708 AAAAAAAT
1 AAAAAAAT
90624716 -AAAAAAT
1 AAAAAAAT
90624723 AAAAAAAT
1 AAAAAAAT
90624731 AAAAAAAT
1 AAAAAAAT
90624739 TCATGCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:90624728 original size:15 final size:15
Alignment explanation
Indices: 90624708--90624736 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
90624698 CTTATTTCTC
90624708 AAAAAAATAAAAAAT
1 AAAAAAATAAAAAAT
90624723 AAAAAAATAAAAAA
1 AAAAAAATAAAAAA
90624737 ATTCATGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAATAAAAAAT
Found at i:90628970 original size:32 final size:32
Alignment explanation
Indices: 90628934--90628999 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
90628924 ACTACTAAGT
90628934 AAGTATTTTTT-TTTAAAAAATGTGACATCAAC
1 AAGTATTTTTTATTT-AAAAATGTGACATCAAC
90628966 AAGTATTTTTTATTTAAAAATGTGACATCAAC
1 AAGTATTTTTTATTTAAAAATGTGACATCAAC
90628998 AA
1 AA
90629000 AATTGACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 30 0.91
33 3 0.09
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (32 bp):
AAGTATTTTTTATTTAAAAATGTGACATCAAC
Found at i:90629181 original size:15 final size:15
Alignment explanation
Indices: 90629161--90629212 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
90629151 ACTACAAAAC
90629161 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
90629176 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
90629195 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
90629210 ATT
1 ATT
90629213 AATATTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:90629210 original size:19 final size:20
Alignment explanation
Indices: 90629174--90629225 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
90629164 TATTATTAAT
* **
90629174 ATATTTATAATTGTAATA-A
1 ATATTTATTATTAAAATATA
90629193 ATATTTATTATTAAAATATTA
1 ATATTTATTATTAAAATA-TA
*
90629214 ATATTTAATATT
1 ATATTTATTATT
90629226 TTCAATAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATTTATTATTAAAATATA
Found at i:90629222 original size:49 final size:48
Alignment explanation
Indices: 90629169--90629262 Score: 113
Period size: 49 Copynumber: 1.9 Consensus size: 48
90629159 ACATTTATTA
90629169 TTAATATATTT-ATAAT-TGT-AATAAATATTTATTATTAAAATATTAATAT
1 TTAATAT-TTTAATAATATGTGAAT-AATA-TTATT-TTAAAATATTAATAT
*
90629218 TTAATATTTTCAATAATATGTGAATAATATTATTTTAAATTATTA
1 TTAATATTTT-AATAATATGTGAATAATATTATTTTAAAATATTA
90629263 TTTTTAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
48 3 0.08
49 17 0.43
50 10 0.25
51 7 0.17
52 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (48 bp):
TTAATATTTTAATAATATGTGAATAATATTATTTTAAAATATTAATAT
Found at i:90629282 original size:13 final size:13
Alignment explanation
Indices: 90629243--90629286 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
90629233 ATATGTGAAT
90629243 AATATTATTTTAA
1 AATATTATTTTAA
*
90629256 ATTATTATTTTTAA
1 AATATTA-TTTTAA
90629270 AAT-TTATTATTAA
1 AATATTATT-TTAA
90629283 AATA
1 AATA
90629287 AAATTGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 2 0.08
13 16 0.62
14 8 0.31
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AATATTATTTTAA
Found at i:90629333 original size:22 final size:22
Alignment explanation
Indices: 90629293--90629348 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
90629283 AATAAAATTG
*
90629293 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
90629313 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
90629335 TATTAATAATTTAT
1 AAATAATAAATTAT
90629349 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:90629947 original size:14 final size:16
Alignment explanation
Indices: 90629916--90629967 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
90629906 GTTATAAATT
* *
90629916 TAATTATGTTAAATTA
1 TAATTATATTATATTA
90629932 TAA-TA-ATTATATTA
1 TAATTATATTATATTA
*
90629946 TAATTATGTTATATTA
1 TAATTATATTATATTA
90629962 T-ATTAT
1 TAATTAT
90629968 GAAATAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 10 0.32
15 9 0.29
16 12 0.39
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (16 bp):
TAATTATATTATATTA
Found at i:90630911 original size:16 final size:17
Alignment explanation
Indices: 90630890--90630922 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
90630880 TAAAAGAGTT
90630890 AATTAGGAT-TAAATTG
1 AATTAGGATATAAATTG
*
90630906 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
90630923 GATAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (17 bp):
AATTAGGATATAAATTG
Found at i:90632258 original size:26 final size:25
Alignment explanation
Indices: 90632201--90632259 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
90632191 AAGTATGAGA
* *
90632201 AAGTGAAATTATGAATTGAAATGTG
1 AAGTGAAATTAAGAATAGAAATGTG
*
90632226 AATTGAAATTAAGATATAGAAAT-TAG
1 AAGTGAAATTAAGA-ATAGAAATGT-G
90632252 AAGTGAAA
1 AAGTGAAA
90632260 ATAGAATGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.51, C:0.00, G:0.20, T:0.29
Consensus pattern (25 bp):
AAGTGAAATTAAGAATAGAAATGTG
Found at i:90639373 original size:35 final size:35
Alignment explanation
Indices: 90639312--90639605 Score: 234
Period size: 35 Copynumber: 8.3 Consensus size: 35
90639302 CTTCTTGATA
* **
90639312 TTAATTGAATGAAGTATCAAAT-TTGTGGTGGGATG
1 TTAATTGAAAGAAGTATC-GGTGTTGTGGTGGGATG
* * * *
90639347 TTAATTGAAAGAATTATTGGTGTTGTGGTAGGACG
1 TTAATTGAAAGAAGTATCGGTGTTGTGGTGGGATG
* * *
90639382 TTAAATTGGAAGAAGTATCGGTGTTGTTGCGGGATG
1 TT-AATTGAAAGAAGTATCGGTGTTGTGGTGGGATG
* * * * *
90639418 TTAAATGAATGAAGTATCGATGTTGTGGCGAGATG
1 TTAATTGAAAGAAGTATCGGTGTTGTGGTGGGATG
* * * * * * *
90639453 CTCATTAAAAGAAGTATCAGTTTTATGGTGAGATG
1 TTAATTGAAAGAAGTATCGGTGTTGTGGTGGGATG
* * * *
90639488 TTAAATGAATGAAGTATCGATGTTGTAGTGGGATG
1 TTAATTGAAAGAAGTATCGGTGTTGTGGTGGGATG
* * *
90639523 TTAATTGAAAGAAGTATTGATGTCGTGGT-GGACTG
1 TTAATTGAAAGAAGTATCGGTGTTGTGGTGGGA-TG
* *
90639558 TTAATTGAAAGAGAAGT-TTGGTGTTGTGGTGAGATG
1 TTAATTG-AA-AGAAGTATCGGTGTTGTGGTGGGATG
*
90639594 TTATTTGAAAGA
1 TTAATTGAAAGA
90639606 GGACCGGCTT
Statistics
Matches: 203, Mismatches: 50, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
34 7 0.03
35 139 0.68
36 49 0.24
37 8 0.04
ACGTcount: A:0.30, C:0.04, G:0.31, T:0.35
Consensus pattern (35 bp):
TTAATTGAAAGAAGTATCGGTGTTGTGGTGGGATG
Found at i:90642065 original size:28 final size:28
Alignment explanation
Indices: 90642025--90642134 Score: 105
Period size: 28 Copynumber: 3.9 Consensus size: 28
90642015 TGACTGTAAT
*
90642025 TGTGATTTGGGCCTAGT-GGCCATATGAA
1 TGTGA-TTGGGCCTAATGGGCCATATGAA
* *
90642053 TGTGATTTGGGCCTAATGGGCCACATAAA
1 TGTGA-TTGGGCCTAATGGGCCATATGAA
* *
90642082 TGTGAATGGACCTAATGGGCCATATGAA
1 TGTGATTGGGCCTAATGGGCCATATGAA
* * * * *
90642110 AGAGATTGAGCCTAGTAGGCCATAT
1 TGTGATTGGGCCTAATGGGCCATAT
90642135 ATATAAAAGA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 53 0.79
29 14 0.21
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.27
Consensus pattern (28 bp):
TGTGATTGGGCCTAATGGGCCATATGAA
Found at i:90647130 original size:40 final size:38
Alignment explanation
Indices: 90647010--90647141 Score: 132
Period size: 35 Copynumber: 3.6 Consensus size: 38
90647000 TCCTCATTGA
* * *
90647010 AATACCATACGTACATTTTACAACTCGGTATGG--GA-
1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
* * ** *
90647045 AATGCCATACCTACGTTTCTTAAGTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGA--TGAT
90647085 AATACCATACCTACATTTCACAACTCAGTATGGATG--
1 AATACCATACCTACATTTCACAACTCAGTATGGATGAT
90647121 -ATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
90647142 CTTTGGCATG
Statistics
Matches: 79, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
35 46 0.58
38 2 0.03
39 2 0.03
40 29 0.37
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (38 bp):
AATACCATACCTACATTTCACAACTCAGTATGGATGAT
Found at i:90649133 original size:19 final size:18
Alignment explanation
Indices: 90649111--90649147 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
90649101 TGAATTGGCC
90649111 AAATGGGCTAGAATGGGCT
1 AAATGGGCTAG-ATGGGCT
*
90649130 AAATGGGCTCGATGGGCT
1 AAATGGGCTAGATGGGCT
90649148 GTTGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.27, C:0.14, G:0.38, T:0.22
Consensus pattern (18 bp):
AAATGGGCTAGATGGGCT
Found at i:90649254 original size:28 final size:28
Alignment explanation
Indices: 90649222--90649320 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
90649212 TGACTGTAAT
*
90649222 TGTGATTTGGGCCTAGT-AGCCATATGAA
1 TGTGA-TTGGGCCTAATGAGCCATATGAA
* * *
90649250 TGTGATTTGGGCCTAATGGGCCACATAAA
1 TGTGA-TTGGGCCTAATGAGCCATATGAA
* *
90649279 TGTGAATGGGCCTAATGGGCCATATGAA
1 TGTGATTGGGCCTAATGAGCCATATGAA
* * *
90649307 AGAGATTGAGCCTA
1 TGTGATTGGGCCTA
90649321 GTAGGCCATA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 46 0.78
29 13 0.22
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.27
Consensus pattern (28 bp):
TGTGATTGGGCCTAATGAGCCATATGAA
Found at i:90649282 original size:29 final size:29
Alignment explanation
Indices: 90649222--90649300 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 29
90649212 TGACTGTAAT
* * * *
90649222 TGTGATTTGGGCCTAGT-AGCCATATGAA
1 TGTGATTTGGGCCTAATGGGCCACATAAA
90649250 TGTGATTTGGGCCTAATGGGCCACATAAA
1 TGTGATTTGGGCCTAATGGGCCACATAAA
*
90649279 TGTGA-ATGGGCCTAATGGGCCA
1 TGTGATTTGGGCCTAATGGGCCA
90649301 TATGAAAGAG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 32 0.71
29 13 0.29
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
TGTGATTTGGGCCTAATGGGCCACATAAA
Found at i:90659947 original size:55 final size:55
Alignment explanation
Indices: 90659824--90659967 Score: 144
Period size: 55 Copynumber: 2.6 Consensus size: 55
90659814 TGCGACATAG
* * * *
90659824 CCGTGGGCGAACCTGTCAAAACAAAACGGGTGTACGACACGCCCGTGCCTAGAAA
1 CCGTGGCCAAACCTGTCAAAACAAAACGGGCGTACGACACGCCCGTGCCAAGAAA
* * ** * * *
90659879 TCGTGGCCGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCCAAGCAA
1 CCGTGGCCAAACCTGTCAAAACAAAACGGGCGTACGACACGCCCGTGCCAAGAAA
* * * * *
90659934 CCTTGGTCAAACCTGCCAAAACAACACGAGCGTA
1 CCGTGGCCAAACCTGTCAAAACAAAACGGGCGTA
90659968 GACCTTCATA
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 71 1.00
ACGTcount: A:0.30, C:0.31, G:0.25, T:0.14
Consensus pattern (55 bp):
CCGTGGCCAAACCTGTCAAAACAAAACGGGCGTACGACACGCCCGTGCCAAGAAA
Found at i:90661749 original size:27 final size:26
Alignment explanation
Indices: 90661719--90661780 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
90661709 AGATAATTAA
90661719 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
90661746 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
90661773 AATAAAAT
1 AATAAAAT
90661781 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:90662296 original size:312 final size:311
Alignment explanation
Indices: 90661731--90662354 Score: 1185
Period size: 312 Copynumber: 2.0 Consensus size: 311
90661721 TAAAATCCTA
90661731 AAATTAAATAATCCTAATAATTATCTTAATATTAATTATCCTAATAAAATGGAGTCTTATAAAAT
1 AAATTAAATAATCCTAATAATTATCTTAATATTAATTATCCTAATAAAATGGAGTCTTATAAAAT
90661796 AAAATCTCTTCTTTTTGCGTTTTTAGTCCTTGTGTCTTCCATGCTTGCACTTTTGGCACAATCTT
66 AAAATCTCTTCTTTTTGCGTTTTTAGTCCTTGTGTCTTCCATGCTTGCACTTTTGGCACAATCTT
*
90661861 TTTCCTGCGTCGCATATTAGCCCATTGTGTCTCCAAATTCGCACTTTTGTCCCTTAATTTTGCTT
131 TTTCCTGCGTCGCATATCAGCCCATTGTGTCTCCAAATTCGCACTTTTGTCCCTTAATTTTGCTT
*
90661926 TTGCCTCCAAATCAGTCCCTAATCGATAAAAAGACATAAATAGCTCAAATTAGTAGGATCAAGCC
196 TTGCCTCCAAATCAGTCCCTAATCGATAAAAAGACAAAAATAGCTCAAATTAGTAGGATCAAGCC
*
90661991 CAAAATAAACACATGATTAATACATAAAAATACGTTATTCTAGAGCATTATC
261 CAAAATAAACACATGATTAATACA-AAAAAAACGTTATTCTAGAGCATTATC
90662043 AAATTAAATAATCCTAATAATTATCTTAATATTAATTATCCTAATAAAATGGAGTCTTATAAAAT
1 AAATTAAATAATCCTAATAATTATCTTAATATTAATTATCCTAATAAAATGGAGTCTTATAAAAT
90662108 AAAATCTCTTCTTTTTGCGTTTTTAGTCCTTGTGTCTTCCATGCTTGCACTTTTGGCACAATCTT
66 AAAATCTCTTCTTTTTGCGTTTTTAGTCCTTGTGTCTTCCATGCTTGCACTTTTGGCACAATCTT
90662173 TTTCCTGCGTCGCATATCAGCCCATTGTGTCTCCAAATTCGCACTTTTGTCCCTTAATTTTGCTT
131 TTTCCTGCGTCGCATATCAGCCCATTGTGTCTCCAAATTCGCACTTTTGTCCCTTAATTTTGCTT
*
90662238 TTGCCTCTAAATCAGTCCCTAATCGATAAAAAGACAAAAATAGCTCAAATTAGTAGGATCAAGCC
196 TTGCCTCCAAATCAGTCCCTAATCGATAAAAAGACAAAAATAGCTCAAATTAGTAGGATCAAGCC
* *
90662303 CAGAATAAACACATGATTAATACAAAAAAAAGGTTATTCTAGAGCATTATC
261 CAAAATAAACACATGATTAATACAAAAAAAACGTTATTCTAGAGCATTATC
90662354 A
1 A
90662355 GTTTCCCAAG
Statistics
Matches: 306, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
311 26 0.08
312 280 0.92
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (311 bp):
AAATTAAATAATCCTAATAATTATCTTAATATTAATTATCCTAATAAAATGGAGTCTTATAAAAT
AAAATCTCTTCTTTTTGCGTTTTTAGTCCTTGTGTCTTCCATGCTTGCACTTTTGGCACAATCTT
TTTCCTGCGTCGCATATCAGCCCATTGTGTCTCCAAATTCGCACTTTTGTCCCTTAATTTTGCTT
TTGCCTCCAAATCAGTCCCTAATCGATAAAAAGACAAAAATAGCTCAAATTAGTAGGATCAAGCC
CAAAATAAACACATGATTAATACAAAAAAAACGTTATTCTAGAGCATTATC
Found at i:90668813 original size:20 final size:20
Alignment explanation
Indices: 90668788--90668862 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
90668778 TAGGGGCACC
90668788 TGCCCGTGTGGCCTGGGACA
1 TGCCCGTGTGGCCTGGGACA
90668808 TGCCCGTGTGGCCTGGGACA
1 TGCCCGTGTGGCCTGGGACA
* * * *
90668828 CGCCCGTGTTGCCTAGAACA
1 TGCCCGTGTGGCCTGGGACA
*
90668848 TGCCCGTGTGACCTG
1 TGCCCGTGTGGCCTG
90668863 CCCATGGGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.12, C:0.32, G:0.35, T:0.21
Consensus pattern (20 bp):
TGCCCGTGTGGCCTGGGACA
Found at i:90669679 original size:46 final size:49
Alignment explanation
Indices: 90669604--90669745 Score: 132
Period size: 53 Copynumber: 2.9 Consensus size: 49
90669594 TGTCACACAT
* ** * *
90669604 CACA-CACCGAAGCCATAGCCCTGCCATGGTCTTACACGGATCACA-TA
1 CACATCACCGATGCCATAGCCCAACTATGGTCTTATACGGATCACATTA
* *
90669651 -ACAT-ACCGATGCCATATCCCAGA-TATGGTCTTATATGGAATCACATTA
1 CACATCACCGATGCCATAGCCCA-ACTATGGTCTTATACGG-ATCACATTA
90669699 TCACATCACACCGATGCCATAGCCCAACTATGGTCTTATACGAGATC
1 -CACAT--CACCGATGCCATAGCCCAACTATGGTCTTATACG-GATC
90669746 TCGAATCACA
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
46 29 0.39
47 6 0.08
48 2 0.03
50 4 0.05
52 1 0.01
53 32 0.43
54 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.23
Consensus pattern (49 bp):
CACATCACCGATGCCATAGCCCAACTATGGTCTTATACGGATCACATTA
Found at i:90669805 original size:51 final size:50
Alignment explanation
Indices: 90669655--90669808 Score: 132
Period size: 53 Copynumber: 3.0 Consensus size: 50
90669645 CACATAACAT
* *
90669655 ACCGATGCCATATCCCAGATATGGTCTTATATGGAATCACATTATCACATCAC
1 ACCGATGCCATGT-CCAGCTATGGTCTTATATGGAAT-ACA-TATCACATCAC
* * * * ***
90669708 ACCGATGCCATAGCCCAACTATGGTCTTATA-CGAGATCTCGA-ATCACATTGT
1 ACCGATGCCAT-GTCCAGCTATGGTCTTATATGGA-AT-AC-ATATCACATCAC
*
90669760 ACTGATGCCATGTCCAGCTATGGTCTTATATGGAAGTACATATCACATC
1 ACCGATGCCATGTCCAGCTATGGTCTTATATGGAA-TACATATCACATC
90669809 CTTTCCGTCA
Statistics
Matches: 80, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
50 1 0.01
51 26 0.32
52 22 0.28
53 30 0.38
54 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (50 bp):
ACCGATGCCATGTCCAGCTATGGTCTTATATGGAATACATATCACATCAC
Found at i:90677215 original size:52 final size:52
Alignment explanation
Indices: 90677083--90677218 Score: 141
Period size: 52 Copynumber: 2.6 Consensus size: 52
90677073 ATATCTCATA
* *
90677083 TATGGTCTTATACGGAATCACATTATCACATCACACCGATTCCATAGCCCAGC
1 TATGGTCTTATACGGAATCACA-TATCACATCACACCGATGCCATAGCCCAAC
* * * *** **
90677136 TATGGTCTTATATGGGATCTCGA-ATCACATTGTACCGATGCCATAGCTTAAC
1 TATGGTCTTATACGGAATCAC-ATATCACATCACACCGATGCCATAGCCCAAC
90677188 TATGGTCTTATACGGAAGT-ACATATCACATC
1 TATGGTCTTATACGGAA-TCACATATCACATC
90677219 TTTTCCGTCA
Statistics
Matches: 66, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
51 1 0.02
52 45 0.68
53 19 0.29
54 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (52 bp):
TATGGTCTTATACGGAATCACATATCACATCACACCGATGCCATAGCCCAAC
Found at i:90678695 original size:49 final size:48
Alignment explanation
Indices: 90678628--90678799 Score: 174
Period size: 49 Copynumber: 3.6 Consensus size: 48
90678618 TGTTTTGTGG
90678628 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACTTATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCG-CACTTATAGATGAGAGC
* * * * * *
90678677 CAGTGTAAGACCTATCTGGGACATGGCATTGGC-CTCGATAAATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCA-TCGCACT-TATAGATGAGAGC
* * *
90678726 CAGTGCAAGACCGGTCTGGGACATGGCATCG-ACTT-T-GATGTGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGCACTTATAGATGAG--AGC
90678773 C-GTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
90678800 GTCGGTGTCT
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
45 3 0.03
46 10 0.10
47 17 0.17
48 6 0.06
49 62 0.62
50 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGCACTTATAGATGAGAGC
Found at i:90682327 original size:38 final size:38
Alignment explanation
Indices: 90682284--90682362 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
90682274 GACAATTAAG
*
90682284 AGAATGTTTTAAACTAACATTGATTATCTAATTAACTA
1 AGAATGTTTTAAACTAACACTGATTATCTAATTAACTA
90682322 AGAATGTTTTAAACTAACACTGATTATCTAATTAACTA
1 AGAATGTTTTAAACTAACACTGATTATCTAATTAACTA
90682360 AGA
1 AGA
90682363 TTACGACAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (38 bp):
AGAATGTTTTAAACTAACACTGATTATCTAATTAACTA
Found at i:90683945 original size:16 final size:16
Alignment explanation
Indices: 90683898--90683949 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
90683888 ATAAGTCTTC
90683898 AAAAATAGATAA-AAAT
1 AAAAATA-ATAATAAAT
*
90683914 CAAAATAA-AATTTAAAT
1 AAAAATAATAA--TAAAT
90683931 AAAAATAATAATAAAT
1 AAAAATAATAATAAAT
90683947 AAA
1 AAA
90683950 TAAATAGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 2 0.07
15 1 0.03
16 14 0.47
17 11 0.37
18 2 0.07
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (16 bp):
AAAAATAATAATAAAT
Found at i:90693908 original size:6 final size:6
Alignment explanation
Indices: 90693897--90693924 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
90693887 CAACACAAGT
90693897 ATAAGA ATAAGA ATAAGA ATAAGA ATAA
1 ATAAGA ATAAGA ATAAGA ATAAGA ATAA
90693925 TAACAATAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.18
Consensus pattern (6 bp):
ATAAGA
Found at i:90700290 original size:18 final size:18
Alignment explanation
Indices: 90700269--90700310 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
90700259 TAAAATAATC
90700269 CATTTCATGCAAATTGGT
1 CATTTCATGCAAATTGGT
90700287 CATTTCATGCAAATTGGT
1 CATTTCATGCAAATTGGT
90700305 CATTTC
1 CATTTC
90700311 TAACATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (18 bp):
CATTTCATGCAAATTGGT
Found at i:90701589 original size:8 final size:8
Alignment explanation
Indices: 90701547--90701571 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
90701537 ATATAGACTA
90701547 AATAAAAT
1 AATAAAAT
90701555 AATAAAAT
1 AATAAAAT
90701563 AATAAAAT
1 AATAAAAT
90701571 A
1 A
90701572 TATTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:90702457 original size:13 final size:13
Alignment explanation
Indices: 90702439--90702465 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
90702429 GAAAACGAAT
90702439 TCGTAAATATTTA
1 TCGTAAATATTTA
90702452 TCGTAAATATTTA
1 TCGTAAATATTTA
90702465 T
1 T
90702466 TAAAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TCGTAAATATTTA
Found at i:90702521 original size:10 final size:11
Alignment explanation
Indices: 90702482--90702523 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
90702472 TATTTACGAA
*
90702482 GTTAATTGAGTG
1 GTTAATT-AGAG
90702494 GTTAATTAGAG
1 GTTAATTAGAG
*
90702505 TTTAATTA-AG
1 GTTAATTAGAG
90702515 GTTAATTAG
1 GTTAATTAG
90702524 GTATAAGGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (11 bp):
GTTAATTAGAG
Found at i:90702972 original size:24 final size:23
Alignment explanation
Indices: 90702945--90702997 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
90702935 TATGTATTTG
90702945 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
*
90702969 TTATT--ATAGTTTTATATTAAA
1 TTATTAAATAGTATTATATTAAA
90702990 TTATTAAA
1 TTATTAAA
90702998 ATGAAGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 10 0.40
22 9 0.36
23 1 0.04
24 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:90703116 original size:3 final size:3
Alignment explanation
Indices: 90703108--90703153 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
90703098 ATGAATTAAA
*
90703108 TAT TAT TA- TAT TA- TAT TAT TAT TAT GTAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
90703152 TA
1 TA
90703154 ACTAATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 4 0.11
3 31 0.82
4 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:90703125 original size:13 final size:13
Alignment explanation
Indices: 90703107--90703151 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 13
90703097 TATGAATTAA
90703107 ATATTATTATATT
1 ATATTATTATATT
90703120 ATATTATTATTATGT
1 ATATTATTA-TAT-T
90703135 ATTATTATTAATATT
1 A-TATTATT-ATATT
90703150 AT
1 AT
90703152 TAACTAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 9 0.32
14 4 0.14
15 4 0.14
16 10 0.36
17 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:90703129 original size:16 final size:17
Alignment explanation
Indices: 90703108--90703153 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
90703098 ATGAATTAAA
90703108 TATTATTA-TATTATAT
1 TATTATTATTATTATAT
90703124 TATTATTATGTATTATTAT
1 TATTATTAT-TATTA-TAT
*
90703143 TAATATTATTA
1 TATTATTATTA
90703154 ACTAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 8 0.31
18 7 0.27
19 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TATTATTATTATTATAT
Found at i:90705309 original size:17 final size:19
Alignment explanation
Indices: 90705287--90705329 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
90705277 ATGGAAATAT
90705287 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
* *
90705304 AATCTTAGATATGATATGT
1 AATCTTACATATGATATGC
90705323 AATCTTA
1 AATCTTA
90705330 GAAGATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 1 0.05
19 15 0.68
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:90705357 original size:22 final size:22
Alignment explanation
Indices: 90705295--90705354 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
90705285 ATAATCTTCA
*
90705295 ATGATATGCAATCTT---AGAT
1 ATGATATGTAATCTTAGAAGAT
90705314 ATGATATGTAATCTTAGAAGAT
1 ATGATATGTAATCTTAGAAGAT
*
90705336 ATGATTTTGTAATCTTAGA
1 ATGA-TATGTAATCTTAGA
90705355 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.40
22 8 0.23
23 13 0.37
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (22 bp):
ATGATATGTAATCTTAGAAGAT
Found at i:90705364 original size:22 final size:23
Alignment explanation
Indices: 90705320--90705364 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
90705310 AGATATGATA
*
90705320 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
90705343 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
90705365 GTAGATACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:90709040 original size:46 final size:46
Alignment explanation
Indices: 90708990--90709162 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
90708980 TGGTTGAGCA
*
90708990 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
90709036 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
90709083 TCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
90709129 -CTCGAGCTCGTTGAGTTGAGTCCGGGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
90709163 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 58 0.56
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:90709146 original size:93 final size:93
Alignment explanation
Indices: 90708987--90709157 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
90708977 GGATGGTTGA
*
90708987 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
90709052 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
90709080 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAG
*
90709144 TTGAGTCCGGGTTC
65 TTGAGTCCGAGTTC
90709158 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90709424 original size:19 final size:20
Alignment explanation
Indices: 90709387--90709424 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
90709377 ATAAGGTGGT
90709387 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
90709407 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
90709425 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:90711261 original size:38 final size:38
Alignment explanation
Indices: 90711176--90711403 Score: 242
Period size: 38 Copynumber: 5.9 Consensus size: 38
90711166 GAATCCAGTC
* * * *
90711176 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* *
90711216 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
90711254 ACTAGCACGAAGCCTGCGGGATTTAACCTGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * * *
90711292 ACCAGCGCGAAGCCTGTGGGATTTAACCTGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* *
90711330 ACCAGCGCGAAGCCTGCGGGATTTAACCCGAATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
90711368 TCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGATA
90711404 CACATCAAAT
Statistics
Matches: 163, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
37 1 0.01
38 127 0.78
39 10 0.06
40 25 0.15
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:90722172 original size:78 final size:77
Alignment explanation
Indices: 90721966--90722172 Score: 324
Period size: 78 Copynumber: 2.7 Consensus size: 77
90721956 CGAAGAAACA
* * *
90721966 GATTTGACATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGAT-TGACCTTCATTGAA
*
90722031 GTAGATCCAAGAT
65 GCAGATCCAAGAT
*
90722044 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGATTGGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATT-GACCTTCATTGAA
90722109 GCAGATCCAAGAT
65 GCAGATCCAAGAT
* * *
90722122 GATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGACATAGTAGATT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATT
90722173 TGGCTTTCAC
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
77 1 0.01
78 118 0.99
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (77 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATTGACCTTCATTGAAG
CAGATCCAAGAT
Found at i:90722289 original size:287 final size:287
Alignment explanation
Indices: 90721906--90722448 Score: 917
Period size: 287 Copynumber: 1.9 Consensus size: 287
90721896 TGACCTTCAT
90721906 TGAAGTAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
1 TGAAGTAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
* *** * *
90721971 GACATCTCTATATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGTAGA
66 GACATCTCCATATTAGACGAAAAGAAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGA
* * *
90722036 TCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACC
131 TCCAAGATGATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACACAACAGATCT-GACC
*
90722100 TTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAAATCGAAGACAT
195 TTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGAGGAGCAAATCGAAGACAT
90722165 AGTAGATTTGGCTTTCACGTGTTTATGC
260 AGTAGATTTGGCTTTCACGTGTTTATGC
90722193 TGAAGTAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
1 TGAAGTAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
* * *
90722258 GGCATCTCCATATTCGACGAAAAGAAGATCGAAGACATAGCAGATCTGACCTTCATTGAAGCAGA
66 GACATCTCCATATTAGACGAAAAGAAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGA
* *
90722323 TCCAAGATGATTTGGCATCTCTATATTAGATGGGGAGCAGATCAAAGACACAGCAGATCTGACCT
131 TCCAAGATGATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACACAACAGATCTGACCT
* *
90722388 TCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGA
196 TCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGAGGAGCAAATCGAAGA
90722449 TATAACAGAT
Statistics
Matches: 238, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
287 237 1.00
288 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (287 bp):
TGAAGTAGATCTAAGATGATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAAGAAACAGATTT
GACATCTCCATATTAGACGAAAAGAAGATCGAAGACACAGCAGATCTGACCTTCATTGAAGCAGA
TCCAAGATGATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGACACAACAGATCTGACCT
TCATTGAAGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGAGGAGCAAATCGAAGACATA
GTAGATTTGGCTTTCACGTGTTTATGC
Found at i:90722362 original size:41 final size:41
Alignment explanation
Indices: 90722317--90722449 Score: 105
Period size: 41 Copynumber: 3.3 Consensus size: 41
90722307 CCTTCATTGA
90722317 AGCAGATCCAAGATGATTTGGCATCTCTATATTAGATGGGG
1 AGCAGATCCAAGATGATTTGGCATCTCTATATTAGATGGGG
**** ** ** * * *
90722358 AGCAGAT-CAA-A-GACACAGCAGATCTGACCTT-CAT-TGA
1 AGCAGATCCAAGATGATTTGGCATCTCT-ATATTAGATGGGG
*
90722395 AGCAGATCCAAGATGATTTGGCATCTCTATATTAGACGGGG
1 AGCAGATCCAAGATGATTTGGCATCTCTATATTAGATGGGG
*
90722436 AGCAGATCGAAGAT
1 AGCAGATCCAAGAT
90722450 ATAACAGATT
Statistics
Matches: 62, Mismatches: 24, Indels: 12
0.63 0.24 0.12
Matches are distributed among these distances:
37 8 0.13
38 13 0.21
39 8 0.13
40 12 0.19
41 21 0.34
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (41 bp):
AGCAGATCCAAGATGATTTGGCATCTCTATATTAGATGGGG
Found at i:90722382 original size:78 final size:78
Alignment explanation
Indices: 90722253--90722547 Score: 430
Period size: 78 Copynumber: 3.8 Consensus size: 78
90722243 CGAAGAAACA
* * *** *
90722253 GATTTGGCATCTCCATATTCGACGAAAAGAAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
90722318 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
90722331 GATTTGGCATCTCTATATTAGATGGGGAGCAGATCAAAGACACAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
90722396 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
90722409 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGATATAACAGAT-TAGACCTTCATTGA
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
90722473 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * * * *
90722487 GATTTGGCATCTTTGTATTAGACGGGGAGCAAATCGAAGAAATAGCATATCTGACCTTCAT
1 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
90722548 GTGTTTACAT
Statistics
Matches: 195, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.01
78 193 0.99
79 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTATATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:90722642 original size:45 final size:45
Alignment explanation
Indices: 90722564--90722760 Score: 270
Period size: 45 Copynumber: 4.4 Consensus size: 45
90722554 ACATCAAAGT
* * * *
90722564 AGATCCAAGATGATAGATTTGGCATCTTTGTATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* * *
90722609 AAATCGGAGATAACAGATTTGGCATCTCTGTATTAGACGGTGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* * *
90722654 AGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
*
90722698 AGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* *
90722743 AGATCAAAGATAGCAGAT
1 AGATCGAAGATAACAGAT
90722761 ATCGCCTTCT
Statistics
Matches: 134, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 40 0.30
45 94 0.70
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.25
Consensus pattern (45 bp):
AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
Found at i:90722729 original size:89 final size:90
Alignment explanation
Indices: 90722578--90722760 Score: 287
Period size: 89 Copynumber: 2.0 Consensus size: 90
90722568 CCAAGATGAT
* *
90722578 AGATTTGGCATCTTTGTATTAGACGGGGAGCAAATCGGAGATAACAGATTTGGCATCTCTGTATT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
* **
90722643 AGACGGTGAGCAGATTGAAGA-AGC
66 AGACGGGGAGCAGATCAAAGATAGC
* * *
90722667 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
90722732 AGACGGGGAGCAGATCAAAGATAGC
66 AGACGGGGAGCAGATCAAAGATAGC
90722757 AGAT
1 AGAT
90722761 ATCGCCTTCT
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 78 0.92
90 7 0.08
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (90 bp):
AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTTGGCATCTCTGTATT
AGACGGGGAGCAGATCAAAGATAGC
Found at i:90723201 original size:17 final size:19
Alignment explanation
Indices: 90723107--90723194 Score: 146
Period size: 19 Copynumber: 4.8 Consensus size: 19
90723097 GTCTTCAATA
90723107 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
90723126 ATATGCTATCTTAGATATG
1 ATATGCAATCTTAGATATG
90723145 ATA--CAATCTTAGATATG
1 ATATGCAATCTTAGATATG
90723162 AT-TGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
90723180 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
90723195 AGATATGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.23
18 16 0.25
19 33 0.52
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:90723220 original size:22 final size:22
Alignment explanation
Indices: 90723107--90723217 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 22
90723097 GTCTTCAATA
90723107 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
*
90723126 ATATGCTATCTTAG---ATATG
1 ATATGCAATCTTAGAAGATATG
90723145 ATA--CAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
90723162 AT-TGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
90723180 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
90723202 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
90723218 GATTTAATTT
Statistics
Matches: 77, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
17 13 0.17
18 16 0.21
19 28 0.36
22 8 0.10
23 12 0.16
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:90730828 original size:20 final size:20
Alignment explanation
Indices: 90730803--90730840 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90730793 GATTTACGTG
*
90730803 TAAGACCATGTCTGGGACAT
1 TAAGACCACGTCTGGGACAT
*
90730823 TAAGACCACGTTTGGGAC
1 TAAGACCACGTCTGGGAC
90730841 GTTGGCATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (20 bp):
TAAGACCACGTCTGGGACAT
Found at i:90730860 original size:64 final size:64
Alignment explanation
Indices: 90730759--90730887 Score: 240
Period size: 64 Copynumber: 2.0 Consensus size: 64
90730749 TGATTTCGTG
90730759 TAAGACCACGTCTGGGACATTGGCATCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACAT
1 TAAGACCACGTCTGGGACATTGGCATCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACAT
* *
90730823 TAAGACCACGTTTGGGACGTTGGCATCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACAT
1 TAAGACCACGTCTGGGACATTGGCATCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACAT
90730887 T
1 T
90730888 GGCTTTGTAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (64 bp):
TAAGACCACGTCTGGGACATTGGCATCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACAT
Found at i:90730890 original size:44 final size:43
Alignment explanation
Indices: 90730823--90730977 Score: 127
Period size: 43 Copynumber: 3.6 Consensus size: 43
90730813 TCTGGGACAT
* * * * *
90730823 TAAGACCACGTTTGGGACGTTGGCATCGATTTGA-GATTTACGTG
1 TAAGACCATGTCTGGGACATTGGCATCGATAT-ATGATTT-CATG
* *
90730867 TAAGACCATGTCTGGGACATTGGCTTTG-TATATGATTTCATG
1 TAAGACCATGTCTGGGACATTGGCATCGATATATGATTTCATG
* * * * *
90730909 TAAGACCTTGTCTGGGACAGTGGCATCGATATTTAATTACATG
1 TAAGACCATGTCTGGGACATTGGCATCGATATATGATTTCATG
* * *
90730952 AAAGACC-TCGTCTGGAACGTTGGCAT
1 TAAGACCAT-GTCTGGGACATTGGCAT
90730978 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 29 0.32
43 38 0.42
44 23 0.26
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATTGGCATCGATATATGATTTCATG
Found at i:90732906 original size:29 final size:29
Alignment explanation
Indices: 90732864--90732982 Score: 123
Period size: 29 Copynumber: 4.1 Consensus size: 29
90732854 AGGTTTATAT
* *
90732864 TTGGTGGATATATACCTGCAGACTCATAC
1 TTGGTGGATATATACCTACGGACTCATAC
* *
90732893 TTGGTGGATATATACCTACGGGCTAATAC
1 TTGGTGGATATATACCTACGGACTCATAC
* * ** *
90732922 TTGGTGGATACATACTTGTGGACTCATGC
1 TTGGTGGATATATACCTACGGACTCATAC
* * *
90732951 TTGGGGGA-ATGTCCCTACGGACTCATAC
1 TTGGTGGATATATACCTACGGACTCATAC
90732979 TTGG
1 TTGG
90732983 AGGAATGTCC
Statistics
Matches: 71, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
28 17 0.24
29 54 0.76
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (29 bp):
TTGGTGGATATATACCTACGGACTCATAC
Found at i:90732946 original size:58 final size:57
Alignment explanation
Indices: 90732864--90732982 Score: 139
Period size: 58 Copynumber: 2.1 Consensus size: 57
90732854 AGGTTTATAT
* * *
90732864 TTGGTGGATATATACCTGCAGACTCATACTTGGTGGATATATACCTACGGGCTAATAC
1 TTGGTGGATACATACCTGCAGACTCATACTTGGGGGA-ATATACCTACGGACTAATAC
* ** * * * *
90732922 TTGGTGGATACATACTTGTGGACTCATGCTTGGGGGAATGTCCCTACGGACTCATAC
1 TTGGTGGATACATACCTGCAGACTCATACTTGGGGGAATATACCTACGGACTAATAC
90732979 TTGG
1 TTGG
90732983 AGGAATGTCC
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
57 20 0.39
58 31 0.61
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (57 bp):
TTGGTGGATACATACCTGCAGACTCATACTTGGGGGAATATACCTACGGACTAATAC
Found at i:90733000 original size:28 final size:28
Alignment explanation
Indices: 90732938--90733001 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
90732928 GATACATACT
* *
90732938 TGTGGACTCATGCTTGGGGGAATGTCCC
1 TGTGGACTCATACTTGGAGGAATGTCCC
**
90732966 TACGGACTCATACTTGGAGGAATGTCCC
1 TGTGGACTCATACTTGGAGGAATGTCCC
90732994 TGTGGACT
1 TGTGGACT
90733002 GTCTTATCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (28 bp):
TGTGGACTCATACTTGGAGGAATGTCCC
Found at i:90735378 original size:20 final size:20
Alignment explanation
Indices: 90735353--90735399 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
90735343 CACATCTTAT
90735353 TTTCATACGAATATCACATA
1 TTTCATACGAATATCACATA
90735373 TTTCATACGAATATCACATA
1 TTTCATACGAATATCACATA
90735393 TTTCATA
1 TTTCATA
90735400 TAATCACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.38
Consensus pattern (20 bp):
TTTCATACGAATATCACATA
Found at i:90738516 original size:53 final size:53
Alignment explanation
Indices: 90738449--90738559 Score: 195
Period size: 53 Copynumber: 2.1 Consensus size: 53
90738439 AGCATAAGAA
*
90738449 AAGTAAGAATATCCAATGATACTTACCTCTTGGATGCCTAAATACTGAAAATC
1 AAGTTAGAATATCCAATGATACTTACCTCTTGGATGCCTAAATACTGAAAATC
* *
90738502 AAGTTAGAATATCCAGTGATACTTACCTCTTGGATGCCTAAATACTGGAAATC
1 AAGTTAGAATATCCAATGATACTTACCTCTTGGATGCCTAAATACTGAAAATC
90738555 AAGTT
1 AAGTT
90738560 TCCAAATACT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (53 bp):
AAGTTAGAATATCCAATGATACTTACCTCTTGGATGCCTAAATACTGAAAATC
Found at i:90742875 original size:58 final size:55
Alignment explanation
Indices: 90742813--90742951 Score: 138
Period size: 58 Copynumber: 2.4 Consensus size: 55
90742803 TACGATAAAT
* *
90742813 TTTATAAATTTTTTACAAATTTTATATTTCTTTATATTTTTTATAATTTTCTTATGA-C
1 TTTATAAA-TTTTTACAAATTTTATATTTC--TATATATTTTATAATTTT-ATATGATC
* *
90742871 TTTATAAAATTTATA-AATTATTTCTATATTTCTATATATTTTATAATTTTATATGATT
1 TTTAT-AAATTTTTACAA--ATTT-TATATTTCTATATATTTTATAATTTTATATGATC
* *
90742929 TTTATAAAATTTTACAAGTTTTA
1 TTTATAAATTTTTACAAATTTTA
90742952 ATAATTTTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 15
0.76 0.08 0.17
Matches are distributed among these distances:
55 2 0.03
56 3 0.04
57 14 0.21
58 34 0.50
59 7 0.10
60 8 0.12
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (55 bp):
TTTATAAATTTTTACAAATTTTATATTTCTATATATTTTATAATTTTATATGATC
Found at i:90742919 original size:8 final size:9
Alignment explanation
Indices: 90742831--90742934 Score: 52
Period size: 9 Copynumber: 11.1 Consensus size: 9
90742821 TTTTTTACAA
90742831 ATTTTATAT
1 ATTTTATAT
*
90742840 TTCTTTATAT
1 AT-TTTATAT
*
90742850 TTTTTATA-
1 ATTTTATAT
*
90742858 ATTTTCTTAT
1 ATTTT-ATAT
* *
90742868 GACTTTATAA
1 -ATTTTATAT
* *
90742878 AATTTATAA
1 ATTTTATAT
*
90742887 ATTATTTCTAT
1 A-T-TTTATAT
90742898 ATTTCTATAT
1 ATTT-TATAT
90742908 ATTTTATA-
1 ATTTTATAT
90742916 ATTTTATAT
1 ATTTTATAT
90742925 GATTTT-TAT
1 -ATTTTATAT
90742934 A
1 A
90742935 AAATTTTACA
Statistics
Matches: 75, Mismatches: 11, Indels: 19
0.71 0.10 0.18
Matches are distributed among these distances:
8 13 0.17
9 27 0.36
10 25 0.33
11 10 0.13
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (9 bp):
ATTTTATAT
Done.