Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 3 of 255
Found at i:695230 original size:21 final size:21
Alignment explanation
Indices: 695205--695268 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 21
695195 CACATCAATA
695205 ATTAATTAATTTTTAAAAATT
1 ATTAATTAATTTTTAAAAATT
*
695226 ATTAA--AATTATT-AAAATT
1 ATTAATTAATTTTTAAAAATT
*
695244 ATT-TTTAATTTTTAAAAA--
1 ATTAATTAATTTTTAAAAATT
695262 ATTAATT
1 ATTAATT
695269 GATTGTTGAC
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 12 0.34
19 14 0.40
20 4 0.11
21 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTAATTAATTTTTAAAAATT
Found at i:695234 original size:9 final size:9
Alignment explanation
Indices: 695220--695246 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
695210 TTAATTTTTA
695220 AAAATTATT
1 AAAATTATT
695229 AAAATTATT
1 AAAATTATT
695238 AAAATTATT
1 AAAATTATT
695247 TTTAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AAAATTATT
Found at i:699213 original size:72 final size:72
Alignment explanation
Indices: 699133--699353 Score: 300
Period size: 72 Copynumber: 3.1 Consensus size: 72
699123 TTAGGACTGG
* * * * *
699133 TTCCAAGATCACTGGGAAACCTCTTGCAACTTAATCATTTAGACTTGTCGTGGAACCAATTGAGT
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCGCGGAACCAATTGAGT
699198 GGACAAA
66 GGACAAA
** * **
699205 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGTGTTGTGGCAAAACCAATTGAGT
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCGCGGAACCAATTGAGT
*
699270 GGAAAAA
66 GGACAAA
* *
699277 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTA-AGCTTATCGGGGAACCAATTGAG
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGA-CTTGTCGCGGAACCAATTGAG
*
699341 TAGACAAA
65 TGGACAAA
699349 TTCCA
1 TTCCA
699354 TTATCAATTC
Statistics
Matches: 128, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
72 128 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (72 bp):
TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCGCGGAACCAATTGAGT
GGACAAA
Found at i:707150 original size:20 final size:20
Alignment explanation
Indices: 707127--707167 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
707117 AATCAGTTTA
*
707127 ATTAGAATCTAATCAAATTG
1 ATTAGAATCAAATCAAATTG
*
707147 ATTATAATCAAATCAAATTG
1 ATTAGAATCAAATCAAATTG
707167 A
1 A
707168 GATATTTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.07, T:0.34
Consensus pattern (20 bp):
ATTAGAATCAAATCAAATTG
Found at i:710343 original size:14 final size:14
Alignment explanation
Indices: 710324--710350 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
710314 CTAAAGTATG
710324 GTCAATAGACAATT
1 GTCAATAGACAATT
710338 GTCAATAGACAAT
1 GTCAATAGACAAT
710351 CGGTAGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (14 bp):
GTCAATAGACAATT
Found at i:711055 original size:4 final size:4
Alignment explanation
Indices: 711046--711077 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
711036 AGAGACAAAG
711046 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
711078 GAAAAGCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:721476 original size:24 final size:24
Alignment explanation
Indices: 721447--721499 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
721437 AGTTAAAGTA
* *
721447 TAGTCAATAGACAATTGATAGTCT
1 TAGTCAAAAGACAACTGATAGTCT
721471 TAGTCAAAAGACAACTGATAGTCT
1 TAGTCAAAAGACAACTGATAGTCT
721495 TAGTC
1 TAGTC
721500 TTTGTTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (24 bp):
TAGTCAAAAGACAACTGATAGTCT
Found at i:721579 original size:49 final size:52
Alignment explanation
Indices: 721471--721599 Score: 174
Period size: 49 Copynumber: 2.5 Consensus size: 52
721461 TTGATAGTCT
* * *
721471 TAGTCAAAAGACAACTGATAGTCTTAGTCTTTGTTTTTATCAAGTTAAAGTG
1 TAGTCAATAGACAATTGATAGTCTTAGTCTTTGTTTTTATCAAGTTAAAGTA
* * *
721523 TAATCAATAGACAATTGATAGTCTTAGTC-TT-TTTTTGTCGAG-TAAAGTA
1 TAGTCAATAGACAATTGATAGTCTTAGTCTTTGTTTTTATCAAGTTAAAGTA
*
721572 TAGTCAATAGACAATTGATAATCTTAGT
1 TAGTCAATAGACAATTGATAGTCTTAGT
721600 AAATAGACAA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 32 0.46
50 9 0.13
51 2 0.03
52 26 0.38
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (52 bp):
TAGTCAATAGACAATTGATAGTCTTAGTCTTTGTTTTTATCAAGTTAAAGTA
Found at i:721604 original size:24 final size:24
Alignment explanation
Indices: 721572--721623 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
721562 GAGTAAAGTA
*
721572 TAGTCAATAGACAATTGATAATCT
1 TAGTAAATAGACAATTGATAATCT
*
721596 TAGTAAATAGACAATTGATAGTCT
1 TAGTAAATAGACAATTGATAATCT
721620 TAGT
1 TAGT
721624 CTTTTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (24 bp):
TAGTAAATAGACAATTGATAATCT
Found at i:721626 original size:73 final size:69
Alignment explanation
Indices: 721528--721660 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 69
721518 AAGTGTAATC
721528 AATAGACAATTGATAGTCTTAGTCTTTTTTTGTCGAGTAAAGTATAGTCAATAGACAATTGATAA
1 AATAGACAATTGATAGTCTTAGTCTTTTTTTGTCGAGT----TATAGTCAATAGACAATTGATAA
721593 TCTTAGTA
62 TCTTAGTA
* *
721601 AATAGACAATTGATAGTCTTAGTCTTTTTTTGTGGAGTTATAGTGAATAGACAATTGATA
1 AATAGACAATTGATAGTCTTAGTCTTTTTTTGTCGAGTTATAGTCAATAGACAATTGATA
721661 GTTAAATTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
69 21 0.36
73 37 0.64
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (69 bp):
AATAGACAATTGATAGTCTTAGTCTTTTTTTGTCGAGTTATAGTCAATAGACAATTGATAATCTT
AGTA
Found at i:722209 original size:22 final size:22
Alignment explanation
Indices: 722167--722209 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
722157 ATTATAAGGT
*
722167 TATAAATATATACAGACACACA
1 TATAAATATATACAGAAACACA
*
722189 TATATATATATA-AGTAAACAC
1 TATAAATATATACAG-AAACAC
722210 GTTTTTATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (22 bp):
TATAAATATATACAGAAACACA
Found at i:724453 original size:22 final size:23
Alignment explanation
Indices: 724427--724537 Score: 69
Period size: 22 Copynumber: 5.2 Consensus size: 23
724417 CACACTTGAA
724427 ATATTATAT-TCAATTTATT-TAT
1 ATATTATATCT-AATTTATTATAT
*
724449 ATATTATATCTATTTTATTATAT
1 ATATTATATCTAATTTATTATAT
* ** *
724472 ATATTCTAAATATTTTA-TATAT
1 ATATTATATCTAATTTATTATAT
* * *
724494 -TTTTATAT-TTATATATTATAT
1 ATATTATATCTAATTTATTATAT
*
724515 TTA-TATAT-T-A-TTATTATAT
1 ATATTATATCTAATTTATTATAT
724534 ATAT
1 ATAT
724538 ATTTATTTCT
Statistics
Matches: 71, Mismatches: 13, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
19 10 0.14
20 5 0.07
21 16 0.23
22 22 0.31
23 18 0.25
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (23 bp):
ATATTATATCTAATTTATTATAT
Found at i:724469 original size:14 final size:14
Alignment explanation
Indices: 724450--724544 Score: 75
Period size: 15 Copynumber: 6.3 Consensus size: 14
724440 TTTATTTATA
*
724450 TATTATATCTATTT
1 TATTATATATATTT
724464 TATTATATATATTCT
1 TATTATATATATT-T
*
724479 AAATATTTTATATATTTT
1 ---TATTATATATA-TTT
* *
724497 TATATTTATATATTA
1 TAT-TATATATATTT
724512 TATT-TATATATTAT
1 TATTATATATATT-T
724526 TATTATATATATATT
1 TATTATATATAT-TT
724541 TATT
1 TATT
724545 TCTATTTTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 17
0.76 0.04 0.19
Matches are distributed among these distances:
13 8 0.12
14 17 0.25
15 21 0.31
16 9 0.13
18 11 0.16
19 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATATATATTT
Found at i:724469 original size:21 final size:20
Alignment explanation
Indices: 724427--724550 Score: 69
Period size: 19 Copynumber: 5.9 Consensus size: 20
724417 CACACTTGAA
*
724427 ATATTATATTCAATTTATTTAT
1 ATATTATATT-ATTTTA-TTAT
724449 ATATTATATCTATTTTATTATAT
1 ATATTATAT-TATTTTA-T-TAT
* *
724472 ATATTCTAAATATTTTA-TAT
1 ATATTAT-ATTATTTTATTAT
* *
724492 ATTTTTATATT-TATATATTAT
1 A-TATTATATTAT-TTTATTAT
724513 AT-TTATA-TATTATTATTAT
1 ATATTATATTATT-TTATTAT
724532 ATA-TATATTTATTTCTATT
1 ATATTATA-TTATTT-TATT
724551 TTTTGTATAC
Statistics
Matches: 82, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
18 2 0.02
19 19 0.23
20 11 0.13
21 16 0.20
22 16 0.20
23 17 0.21
24 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTATATTATTTTATTAT
Found at i:724495 original size:32 final size:30
Alignment explanation
Indices: 724448--724545 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 30
724438 AATTTATTTA
* *
724448 TATATTATATCTATTTTATTATATATAT-T
1 TATATTTTATATATTTTATTATATATATAT
*
724477 CTAAATATTTTATATATTTT-TATATTTATATAT
1 -T--ATATTTTATATATTTTAT-TATATATATAT
724510 TATA-TTTATATATTATTATTATATATATAT
1 TATATTTTATATATT-TTATTATATATATAT
724540 T-TATTT
1 TATATTT
724546 CTATTTTTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
29 12 0.21
30 19 0.33
31 2 0.04
32 23 0.40
33 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (30 bp):
TATATTTTATATATTTTATTATATATATAT
Found at i:724535 original size:34 final size:34
Alignment explanation
Indices: 724442--724544 Score: 93
Period size: 27 Copynumber: 3.4 Consensus size: 34
724432 ATATTCAATT
*
724442 TATTTATATATTATATCTAT-T-TTATTA-TATA
1 TATTTATATATTATATTTATATATTATTATTATA
*
724473 TA-TTCTA-A--ATATTT-TATA-TATT-TT-TA
1 TATTTATATATTATATTTATATATTATTATTATA
724499 TATTTATATATTATATTTATATATTATTATTATA
1 TATTTATATATTATATTTATATATTATTATTATA
* *
724533 TATATATTTATT
1 TATTTATATATT
724545 TCTATTTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
26 5 0.09
27 15 0.27
28 1 0.02
29 1 0.02
30 10 0.18
31 6 0.11
32 4 0.07
33 2 0.04
34 12 0.21
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (34 bp):
TATTTATATATTATATTTATATATTATTATTATA
Found at i:725224 original size:72 final size:73
Alignment explanation
Indices: 725133--725269 Score: 233
Period size: 72 Copynumber: 1.9 Consensus size: 73
725123 CAAGATCACT
* *
725133 GGGAAACATCTTGCAACTCACTCATTTAGACTTGTCAGGCAACCAATTGAGTGGACAAATTCCAA
1 GGGAAACATCTTGCAACTCACTAATTTAGACTTGTCAGGCAACCAATTGAGTGGACAAATGCCAA
725198 TATTATTA
66 TATTATTA
725206 GGGAAAC-TCATT-CAACTCACTAATTTAGACTTGTCAGGCAACCAATTGAGTGGACAAATGCCA
1 GGGAAACATC-TTGCAACTCACTAATTTAGACTTGTCAGGCAACCAATTGAGTGGACAAATGCCA
725269 A
65 A
725270 GGCAACCAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
72 52 0.85
73 9 0.15
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (73 bp):
GGGAAACATCTTGCAACTCACTAATTTAGACTTGTCAGGCAACCAATTGAGTGGACAAATGCCAA
TATTATTA
Found at i:725281 original size:28 final size:28
Alignment explanation
Indices: 725241--725298 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
725231 TAGACTTGTC
725241 AGGCAACCAATTGAGTGGACAAATGCCA
1 AGGCAACCAATTGAGTGGACAAATGCCA
725269 AGGCAACCAATTGAGTGGACAAATGCCA
1 AGGCAACCAATTGAGTGGACAAATGCCA
725297 AG
1 AG
725299 ATCACTGGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.14
Consensus pattern (28 bp):
AGGCAACCAATTGAGTGGACAAATGCCA
Found at i:725344 original size:100 final size:100
Alignment explanation
Indices: 725169--725369 Score: 282
Period size: 100 Copynumber: 2.0 Consensus size: 100
725159 TAGACTTGTC
* * * *
725169 AGGCAACCAATTGAGTGGACAAATTCCAATATTATTAGGGAAACTCATTCAACTCACTAATTTAG
1 AGGCAACCAATTGAGTGGACAAATGCCAAGATCACTAGGGAAACTCATTCAACTCACTAATTTAG
725234 ACTTGTCAGGCAACCAATTGAGTGGACAAATGCCA
66 ACTTGTCAGGCAACCAATTGAGTGGACAAATGCCA
* * *
725269 AGGCAACCAATTGAGTGGACAAATGCCAAGATCACTGGGGAACCTC-TTGCAACTCACTCATTT-
1 AGGCAACCAATTGAGTGGACAAATGCCAAGATCACTAGGGAAACTCATT-CAACTCACTAATTTA
*
725332 GTACTT-TCCAGGCAACCAATTGAGTGGACAAATTCCA
65 G-ACTTGT-CAGGCAACCAATTGAGTGGACAAATGCCA
725369 A
1 A
725370 TATCATTGGG
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
99 4 0.04
100 86 0.96
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (100 bp):
AGGCAACCAATTGAGTGGACAAATGCCAAGATCACTAGGGAAACTCATTCAACTCACTAATTTAG
ACTTGTCAGGCAACCAATTGAGTGGACAAATGCCA
Found at i:725408 original size:172 final size:172
Alignment explanation
Indices: 725122--725436 Score: 535
Period size: 172 Copynumber: 1.8 Consensus size: 172
725112 AGGATCGGTT
725122 CCAAGATCACTGGGAAACATCTTGCAACTCACTCATTTAGACTTGTCAGGCAACCAATTGAGTGG
1 CCAAGATCACTGGGAAACATCTTGCAACTCACTCATTTAGACTTGTCAGGCAACCAATTGAGTGG
* *
725187 ACAAATTCCAATATTATTAGGGAAACTCATTCAACTCACTAATTTAGACTTGTCAGGCAACCAAT
66 ACAAATTCCAATATCATTAGGGAAACTCATTCAACTCACTAATTTAGACTTGTCAGGAAACCAAT
725252 TGAGTGGACAAATGCCAAGGCAACCAATTGAGTGGACAAATG
131 TGAGTGGACAAATGCCAAGGCAACCAATTGAGTGGACAAATG
* *
725294 CCAAGATCACTGGGGAACCTCTTGCAACTCACTCATTT-GTACTT-TCCAGGCAACCAATTGAGT
1 CCAAGATCACTGGGAAACATCTTGCAACTCACTCATTTAG-ACTTGT-CAGGCAACCAATTGAGT
* * *
725357 GGACAAATTCCAATATCATTGGGGAAACTCTTTCAACTCACTCATTTAGACTTGTCAGGAAACCA
64 GGACAAATTCCAATATCATTAGGGAAACTCATTCAACTCACTAATTTAGACTTGTCAGGAAACCA
725422 ATTGAGTGGACAAAT
129 ATTGAGTGGACAAAT
725437 TCCATCGTCA
Statistics
Matches: 134, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
171 2 0.01
172 132 0.99
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (172 bp):
CCAAGATCACTGGGAAACATCTTGCAACTCACTCATTTAGACTTGTCAGGCAACCAATTGAGTGG
ACAAATTCCAATATCATTAGGGAAACTCATTCAACTCACTAATTTAGACTTGTCAGGAAACCAAT
TGAGTGGACAAATGCCAAGGCAACCAATTGAGTGGACAAATG
Found at i:725437 original size:72 final size:72
Alignment explanation
Indices: 725273--725440 Score: 250
Period size: 72 Copynumber: 2.3 Consensus size: 72
725263 ATGCCAAGGC
* *
725273 AACCAATTGAGTGGACAAATGCCAAGATCACTGGGGAACCTCTTGCAACTCACTCATTTGTACTT
1 AACCAATTGAGTGGACAAATTCCAAGATCACTGGGGAAACTCTTGCAACTCACTCATTTGTACTT
*
725338 TCCAGGC
66 TCCAGGA
* * *
725345 AACCAATTGAGTGGACAAATTCCAATATCATTGGGGAAACTCTTTCAACTCACTCATTTAG-ACT
1 AACCAATTGAGTGGACAAATTCCAAGATCACTGGGGAAACTCTTGCAACTCACTCATTT-GTACT
725409 TGT-CAGGA
65 T-TCCAGGA
725417 AACCAATTGAGTGGACAAATTCCA
1 AACCAATTGAGTGGACAAATTCCA
725441 TCGTCAATTC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
72 86 0.98
73 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (72 bp):
AACCAATTGAGTGGACAAATTCCAAGATCACTGGGGAAACTCTTGCAACTCACTCATTTGTACTT
TCCAGGA
Found at i:728126 original size:13 final size:13
Alignment explanation
Indices: 728108--728133 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
728098 ATCCTTCCAC
728108 AAAATACAATAAT
1 AAAATACAATAAT
728121 AAAATACAATAAT
1 AAAATACAATAAT
728134 GGATTACTGA
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:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATACAATAAT
Found at i:731709 original size:56 final size:56
Alignment explanation
Indices: 731600--731844 Score: 270
Period size: 56 Copynumber: 4.4 Consensus size: 56
731590 GCAAGTGTGA
* *
731600 AGTCAATAGACAATTGATAGTCTTAGTCTTAGTTTTAGTCTTTTTTTGTCGAGTTAAAGTGT
1 AGTCAATAGACAATTGATAGTCTTAGTCTTA-----A-CCTTTTTTTGTCGAGTTAAAGTAT
731662 AGTCAATAGACAATTGATAGTCTTAGTCTTAACCTTTTTTTGTCGAGTTAAAGTAT
1 AGTCAATAGACAATTGATAGTCTTAGTCTTAACCTTTTTTTGTCGAGTTAAAGTAT
* * * ** * *
731718 AGTCAATGGACAAGTGATAGTCTTAGTCGCTGTCC-TTTTTTGTCGAGTCAAAGTGT
1 AGTCAATAGACAATTGATAGTCTTAGTC-TTAACCTTTTTTTGTCGAGTTAAAGTAT
* *
731774 AGTCAACAGACAATTGATAGTCTTAG---T---CTTTTTTTGTGGAGTTAAAGTAT
1 AGTCAATAGACAATTGATAGTCTTAGTCTTAACCTTTTTTTGTCGAGTTAAAGTAT
*
731824 AGTGAATAGACAATTGATAGT
1 AGTCAATAGACAATTGATAGT
731845 TAAATTTGTA
Statistics
Matches: 164, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
49 1 0.01
50 37 0.23
52 1 0.01
56 90 0.55
57 4 0.02
62 31 0.19
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (56 bp):
AGTCAATAGACAATTGATAGTCTTAGTCTTAACCTTTTTTTGTCGAGTTAAAGTAT
Found at i:731739 original size:50 final size:50
Alignment explanation
Indices: 731685--731844 Score: 176
Period size: 50 Copynumber: 3.1 Consensus size: 50
731675 TTGATAGTCT
* *
731685 TAGTCTTAACCTTTTTTTGTCGAGTTAAAGTATAGTCAATGGACAAGTGA
1 TAGTCTTAACCTTTTTTTGTCGAGTTAAAGTATAGTCAATAGACAATTGA
* * * *
731735 TAGTCTTAGTCGCTGTCCTTTTTTGTCGAGTCAAAGTGTAGTCAACAGACAATTGA
1 TAGTCTTA-AC-C--T--TTTTTTGTCGAGTTAAAGTATAGTCAATAGACAATTGA
** * *
731791 TAGTCTTAGTCTTTTTTTGTGGAGTTAAAGTATAGTGAATAGACAATTGA
1 TAGTCTTAACCTTTTTTTGTCGAGTTAAAGTATAGTCAATAGACAATTGA
731841 TAGT
1 TAGT
731845 TAAATTTGTA
Statistics
Matches: 91, Mismatches: 13, Indels: 12
0.78 0.11 0.10
Matches are distributed among these distances:
50 45 0.49
51 1 0.01
52 2 0.02
54 2 0.02
56 41 0.45
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (50 bp):
TAGTCTTAACCTTTTTTTGTCGAGTTAAAGTATAGTCAATAGACAATTGA
Found at i:731803 original size:112 final size:106
Alignment explanation
Indices: 731600--731844 Score: 301
Period size: 112 Copynumber: 2.2 Consensus size: 106
731590 GCAAGTGTGA
* * * *
731600 AGTCAATAGACAATTGATAGTCTTAGTCTTAGTTTTAGTCTTTTTTTGTCGAGTTAAAGTGTAGT
1 AGTCAATAGACAAGTGATAGTCTTAGTC---G--CT-GTCCTTTTTTGTCGAGTCAAAGTGTAGT
*
731665 CAATAGACAATTGATAGTCTTAGTCTTAACCTTTTTTTGTCGAGTTAAAGTAT
60 CAACAGACAATTGATAGTCTTAG---T---CTTTTTTTGTCGAGTTAAAGTAT
*
731718 AGTCAATGGACAAGTGATAGTCTTAGTCGCTGTCCTTTTTTGTCGAGTCAAAGTGTAGTCAACAG
1 AGTCAATAGACAAGTGATAGTCTTAGTCGCTGTCCTTTTTTGTCGAGTCAAAGTGTAGTCAACAG
*
731783 ACAATTGATAGTCTTAGTCTTTTTTTGTGGAGTTAAAGTAT
66 ACAATTGATAGTCTTAGTCTTTTTTTGTCGAGTTAAAGTAT
* *
731824 AGTGAATAGACAATTGATAGT
1 AGTCAATAGACAAGTGATAGT
731845 TAAATTTGTA
Statistics
Matches: 117, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
106 40 0.34
109 1 0.01
112 48 0.41
113 1 0.01
115 1 0.01
118 26 0.22
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (106 bp):
AGTCAATAGACAAGTGATAGTCTTAGTCGCTGTCCTTTTTTGTCGAGTCAAAGTGTAGTCAACAG
ACAATTGATAGTCTTAGTCTTTTTTTGTCGAGTTAAAGTAT
Found at i:734573 original size:16 final size:16
Alignment explanation
Indices: 734504--734571 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
734494 TTTGGTTCGC
734504 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
734520 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
734536 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
734552 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
734568 TGTA
1 TGTA
734572 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:734603 original size:45 final size:44
Alignment explanation
Indices: 734552--734646 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
734542 GGATTAGAGG
* * *
734552 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
734597 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
734641 TGTAAT
1 TGTAAT
734647 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:734828 original size:18 final size:17
Alignment explanation
Indices: 734807--734841 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
734797 TTATTATTTA
*
734807 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
734825 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
734842 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:734835 original size:28 final size:27
Alignment explanation
Indices: 734764--734837 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
734754 TATTTATTAT
*
734764 CAAAATAAATAATTTAATCATATTTAAA
1 CAAAATATATAATTTAAT-ATATTTAAA
* * *
734792 CATAAT-TATTATTTAATATATTTTAAT
1 CAAAATATATAATTTAATATA-TTTAAA
*
734819 TAAAATATATAATTTAATA
1 CAAAATATATAATTTAATA
734838 AAATTCTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.08
27 18 0.49
28 16 0.43
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (27 bp):
CAAAATATATAATTTAATATATTTAAA
Found at i:734975 original size:18 final size:16
Alignment explanation
Indices: 734952--734987 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
734942 AATTATTATT
734952 AAATATAT-TTTAATTA
1 AAATATATATTTAA-TA
734968 AAATATATATTTAATA
1 AAATATATATTTAATA
734984 AAAT
1 AAAT
734988 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATATATATTTAATA
Found at i:735065 original size:147 final size:147
Alignment explanation
Indices: 734745--735045 Score: 327
Period size: 147 Copynumber: 2.0 Consensus size: 147
734735 ATTTAAATTT
* * * *
734745 TAATAAGATTATTTATTATCAA-AATAAATAATTTAATCATATTTAAACATAATTATTATTTAAT
1 TAATAAGATTA-TAAATATAAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAAT
* * * * **
734809 ATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAATTTGTTTTGGTAA
65 ATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAA
* ** * * *
734874 ATTATTTTATTTAAATTT
130 ATCATAATATTGAAACTG
* * *
734892 TAATAAGATTATTAATATCAATAATAAATAATTTACTCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATAAATATAAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
* **
734957 TATTTTAATTAAAATATAT-ATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACT
66 TATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACA--CAAATATG-ATTTACT
*
735021 CAAATCATAATATATGATACTG
128 -AAATCATAATAT-TGAAACTG
735043 TAA
1 TAA
735046 AATATAAATT
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
146 34 0.26
147 71 0.55
148 4 0.03
149 4 0.03
150 9 0.07
151 7 0.05
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (147 bp):
TAATAAGATTATAAATATAAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
TATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAACACAAATATGATTTACTAAA
TCATAATATTGAAACTG
Found at i:735095 original size:18 final size:17
Alignment explanation
Indices: 735055--735107 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
735045 AAATATAAAT
735055 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
735069 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
735084 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
735102 TAAAAT
1 TAAAAT
735108 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:735188 original size:65 final size:64
Alignment explanation
Indices: 734992--735188 Score: 168
Period size: 65 Copynumber: 3.2 Consensus size: 64
734982 TAAAATTCTT
* * *
734992 AATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTA
1 AATAATTAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTAT-AAATAT-AATTT
735057 A
64 A
** * * * *
735058 AATAA-TAATTATT-AAATAT-ATTTTAATTAAAAT-AT-ATA-AT-TTA--ATAAA-AT--TCT
1 AATAATTAA-TATTCTTATATGAATTT-ACTAAAATCATAATATATGATACTATAAATATAATTT
735111 -
64 A
*
735111 AATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAATATAATTTGA
1 AATAATTAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAATATAATTT-A
735176 AATAATTAATATT
1 AATAATTAATATT
735189 AAATATATTT
Statistics
Matches: 98, Mismatches: 17, Indels: 33
0.66 0.11 0.22
Matches are distributed among these distances:
53 9 0.09
54 14 0.14
55 6 0.06
56 3 0.03
57 4 0.04
58 5 0.05
59 1 0.01
60 5 0.05
61 4 0.04
62 2 0.02
63 5 0.05
64 6 0.06
65 25 0.26
66 9 0.09
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (64 bp):
AATAATTAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAATATAATTTA
Found at i:735219 original size:118 final size:119
Alignment explanation
Indices: 734934--735226 Score: 475
Period size: 119 Copynumber: 2.5 Consensus size: 119
734924 TTACTCATAT
* *
734934 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATATTTAATAAAATTCTTAATAATT
1 TTAAA-ATAATTAATATTAAATATATTTTAATTAAAATATATATTTAATAAAATTCTTAATAATC
* *
734999 AATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
735054 TTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAAT
1 TTAAAATAATTAA-TATTAAATATATTTTAATTAAAATATAT-ATTTAATAAAATTCTTAATAAT
*
735117 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTAT-AAATATAAT
64 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
*
735172 TTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTAAAATAATTAATATTAAATATATTTTAATTAAAATATAT-ATTTAATAAAATT
735227 TAAAATAATT
Statistics
Matches: 163, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
118 59 0.36
119 85 0.52
120 19 0.12
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (119 bp):
TTAAAATAATTAATATTAAATATATTTTAATTAAAATATATATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:735223 original size:58 final size:57
Alignment explanation
Indices: 735045--735223 Score: 136
Period size: 58 Copynumber: 3.1 Consensus size: 57
735035 TGATACTGTA
* *
735045 AAATATAAATTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAAT
1 AAATAT-AATTTAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAAT
* * ** * * *
735103 AAA-AT--TCT-AATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT-AT
1 AAATATAATTTAAATAATTAATATT-AAATAT--ATTT--T--AATTAAAATATATGAT-TTAAT
735163 AAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAAT
1 AAATATAATTT-AAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAAT
735221 AAA
1 AAA
735224 ATTTAAAATA
Statistics
Matches: 90, Mismatches: 16, Indels: 30
0.66 0.12 0.22
Matches are distributed among these distances:
53 9 0.10
54 7 0.08
56 4 0.04
57 3 0.03
58 23 0.26
60 19 0.21
61 3 0.03
62 4 0.04
63 2 0.02
64 4 0.04
65 12 0.13
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (57 bp):
AAATATAATTTAAATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAAT
Found at i:737217 original size:8 final size:8
Alignment explanation
Indices: 737200--737231 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
737190 TTCAATCACC
*
737200 AAAACCAT
1 AAAACAAT
737208 AAAACAAT
1 AAAACAAT
737216 AAAACAAT
1 AAAACAAT
737224 AAAACAAT
1 AAAACAAT
737232 CTGTTTAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.72, C:0.16, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAACAAT
Found at i:744893 original size:72 final size:72
Alignment explanation
Indices: 744802--744947 Score: 265
Period size: 72 Copynumber: 2.0 Consensus size: 72
744792 GGACCGGTTT
744802 CAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAGACTTGTCGCGAAACCAATTGAGTGGA
1 CAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAGACTTGTCGCGAAACCAATTGAGTGGA
744867 CAAATTC
66 CAAATTC
* * *
744874 CAAGATCATTGGGGAACCTCTTGCAACTCACTGATTTAGACTTGTCGCGGAACCAATTGAGTGGA
1 CAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAGACTTGTCGCGAAACCAATTGAGTGGA
744939 CAAATTC
66 CAAATTC
744946 CA
1 CA
744948 TTATCAATTC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (72 bp):
CAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAGACTTGTCGCGAAACCAATTGAGTGGA
CAAATTC
Found at i:752674 original size:16 final size:16
Alignment explanation
Indices: 752653--752686 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
752643 ATAGCGTTAG
752653 AGAATAATAAACTCAA
1 AGAATAATAAACTCAA
752669 AGAATAATAAACTCAA
1 AGAATAATAAACTCAA
752685 AG
1 AG
752687 GTCCTCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.09, T:0.18
Consensus pattern (16 bp):
AGAATAATAAACTCAA
Found at i:756020 original size:2 final size:2
Alignment explanation
Indices: 756013--756037 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
756003 TAAATTGTTC
756013 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
756038 TGTTTTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:756269 original size:18 final size:19
Alignment explanation
Indices: 756246--756283 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
756236 TTAAAACTTG
756246 TTTTA-TATCATATTGTTT
1 TTTTATTATCATATTGTTT
* *
756264 TTTTATTTTCATTTTGTTT
1 TTTTATTATCATATTGTTT
756283 T
1 T
756284 GTATATCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTTATTATCATATTGTTT
Found at i:756876 original size:127 final size:125
Alignment explanation
Indices: 756641--756957 Score: 422
Period size: 127 Copynumber: 2.5 Consensus size: 125
756631 AAATTCCTTA
* * *
756641 AAACGAAGGCAATGTTTGATGTTTGGAAATTCGGGGAATCGTGCCCTATCATGCTGGGTTTCGAT
1 AAAC-AAGGCAATGTTTAATGTTTGGAAATTC-GAGAATCGTGCCCTATCGTGCTGGGTTTCGAT
*
756706 TTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTTTT-TCAAATTCT
64 TTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAACTTCACTCGTGTTTTAT-AAATTCT
* * *
756768 GAAACAAGGCAATGTTCAATGTTTAGAAATTCAGAGAGTCGTGCCCTATCGTGCTGGGTTTCGAT
1 -AAACAAGGCAATGTTTAATGTTTGGAAATTC-GAGAATCGTGCCCTATCGTGCTGGGTTTCGAT
** *
756833 TT-TTGATTTGTTCAAAATAATTGAATATTCCTTTAGAACTTCACTCGTGTTTTATAAATTCT
64 TTCCCG-TTTGTTCAAAATAATCGAATATTCCTTTAGAACTTCACTCGTGTTTTATAAATTCT
** * *
756895 AAAGCAAGATAATGTTTAATGTTTGGAAATTCGAGAAATTGTGCCCTACCGTGCTGGGTTTCG
1 AAA-CAAGGCAATGTTTAATGTTTGGAAATTCGAG-AATCGTGCCCTATCGTGCTGGGTTTCG
756958 GTATTTCGTT
Statistics
Matches: 167, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
126 7 0.04
127 155 0.93
128 5 0.03
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (125 bp):
AAACAAGGCAATGTTTAATGTTTGGAAATTCGAGAATCGTGCCCTATCGTGCTGGGTTTCGATTT
CCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAACTTCACTCGTGTTTTATAAATTCT
Found at i:764972 original size:72 final size:72
Alignment explanation
Indices: 764832--764975 Score: 218
Period size: 72 Copynumber: 2.0 Consensus size: 72
764822 ACTGATTCTG
* *
764832 AGATCATTGGGGAACCTCTTGCAACTCACACATTTAAACTTGGCACGGAACCAATTGAGTAGATA
1 AGATCATTGGGGAACCTCTTGCAACTCACACATTTAAACTTGGCAAGGAACCAATTGAGTAGACA
764897 AATTCCA
66 AATTCCA
* * * *
764904 AGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCAATGAACCAATTGAGT-GAAC
1 AGATCATTGGGGAACCTCTTGCAACTCACACATTTAAACTTGGCAAGGAACCAATTGAGTAG-AC
764968 AAATTCCA
65 AAATTCCA
764976 TCATCAATTC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 1 0.02
72 64 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (72 bp):
AGATCATTGGGGAACCTCTTGCAACTCACACATTTAAACTTGGCAAGGAACCAATTGAGTAGACA
AATTCCA
Found at i:764992 original size:72 final size:72
Alignment explanation
Indices: 764844--764992 Score: 167
Period size: 72 Copynumber: 2.1 Consensus size: 72
764834 ATCATTGGGG
* * *
764844 AACCTCTTGCAACTCACACATTTAAACTTGGCACGGAACCAATTGAGTAGATAAATTCCAAGATC
1 AACCTCTTGCAACTCACACATTTAAACTTGGCAAGGAACCAATTGAGTAGACAAATTCCAACATC
***
764909 ATTGGGG
66 ATTGCAA
* * * * *
764916 AACCTCTTGCAACTCACTCATTTAGACTTGTCAATGAACCAATTGAGT-GAACAAATTCCATCAT
1 AACCTCTTGCAACTCACACATTTAAACTTGGCAAGGAACCAATTGAGTAG-ACAAATTCCAACAT
764980 CAATT-CAA
65 C-ATTGCAA
764988 AACCT
1 AACCT
764993 AATGCAGTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
71 1 0.02
72 60 0.94
73 3 0.05
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (72 bp):
AACCTCTTGCAACTCACACATTTAAACTTGGCAAGGAACCAATTGAGTAGACAAATTCCAACATC
ATTGCAA
Found at i:769088 original size:21 final size:21
Alignment explanation
Indices: 769062--769102 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
769052 AGACGAGCAA
* *
769062 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
769083 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
769103 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:769176 original size:9 final size:9
Alignment explanation
Indices: 769164--769188 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
769154 TAGAGGAATT
769164 AGAGGTTGA
1 AGAGGTTGA
769173 AGAGGTTGA
1 AGAGGTTGA
769182 AGAGGTT
1 AGAGGTT
769189 CTGACCCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.44, T:0.24
Consensus pattern (9 bp):
AGAGGTTGA
Found at i:776507 original size:17 final size:15
Alignment explanation
Indices: 776480--776518 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
776470 ATATAAGAAC
*
776480 ATTTTATTATTAAATT
1 ATTTTAATATT-AATT
776496 ATATTTAATATTAATT
1 AT-TTTAATATTAATT
776512 ATTTTAA
1 ATTTTAA
776519 ATTGTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 8 0.38
17 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTAATATTAATT
Found at i:776721 original size:59 final size:58
Alignment explanation
Indices: 776657--776855 Score: 158
Period size: 59 Copynumber: 3.3 Consensus size: 58
776647 ATTATTTTAA
776657 ATTTTATTA-AATCATATATTTTAATTAAAATATTTTTAATATTAATTACTTCAAATTAT
1 ATTTTA-TAGAATCATATATTTTAATTAAAATATTTTTAATATTAATTA-TTCAAATTAT
* * * *** * * *
776716 ATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATGTTGATTATT--AA-GA-
1 ATTTTATAGAATCATATATT-TTA-ATTA--AAA-T-AT-TTTTAATATTAATTATTCAAATTAT
*
776777 ATTTTATTA-AATTATATATTTTAATTAAAATATTTTTAATATTAATTAATTCAAATTAT
1 ATTTTA-TAGAATCATATATTTTAATTAAAATATTTTTAATATTAATT-ATTCAAATTAT
*
776836 ATTTTATAGTATCATATATT
1 ATTTTATAGAATCATATATT
776856 ATGATTTTAG
Statistics
Matches: 104, Mismatches: 21, Indels: 30
0.67 0.14 0.19
Matches are distributed among these distances:
54 9 0.09
55 5 0.05
56 1 0.01
57 5 0.05
58 5 0.05
59 34 0.33
60 4 0.04
61 18 0.17
62 3 0.03
63 5 0.05
64 1 0.01
65 4 0.04
66 10 0.10
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (58 bp):
ATTTTATAGAATCATATATTTTAATTAAAATATTTTTAATATTAATTATTCAAATTAT
Found at i:776781 original size:120 final size:121
Alignment explanation
Indices: 776656--777192 Score: 688
Period size: 120 Copynumber: 4.3 Consensus size: 121
776646 AATTATTTTA
* *
776656 AATTTTATTAAATCATATATTTTAATTAAAATATTTTTAATATTAATTACT-TCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATATTAATTAATATCAAATTATATTT
* *
776720 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATGTTGATTATTAAG
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
776776 AATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATATTAATTAAT-TCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATATTAATTAATATCAAATTATATTT
* *
776840 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATTTTGATTATTAAG
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
** * *
776896 AATTTTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATT-
1 AA--TT--TTATT-A-AA--TTA-T--A-TAT-T-TTAA--TTAAAATATTTTTAATATTAATTA
* * * *
776960 ATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAAT
50 ATATCAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAT
*
777025 TTTTAAG
115 TATTAAG
* * * * * *
777032 AATTTTACTAAATTATATATTTTAATTATAATATATTTAATAATAATT-ATGTTAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATATTAATTAATATCAAATTATATTT
777096 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAG-ATATTGATTATTAAG
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
* *
777151 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATA
1 AATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATA
777193 ATTATTATGT
Statistics
Matches: 379, Mismatches: 21, Indels: 35
0.87 0.05 0.08
Matches are distributed among these distances:
119 54 0.14
120 196 0.52
122 4 0.01
123 1 0.00
124 8 0.02
125 2 0.01
126 2 0.01
127 1 0.00
128 6 0.02
129 1 0.00
130 2 0.01
131 2 0.01
132 7 0.02
133 1 0.00
134 4 0.01
135 2 0.01
136 86 0.23
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (121 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATATTAATTAATATCAAATTATATTT
TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:776897 original size:16 final size:16
Alignment explanation
Indices: 776876--776921 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
776866 TAAATTCATA
776876 TAAGAATTTTGATTAT
1 TAAGAATTTTGATTAT
776892 TAAGAATTTTGATTAT
1 TAAGAATTTTGATTAT
776908 TAAGAATTTT-ATTA
1 TAAGAATTTTGATTA
776922 AATTATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
15 4 0.13
16 26 0.87
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (16 bp):
TAAGAATTTTGATTAT
Found at i:776912 original size:136 final size:136
Alignment explanation
Indices: 776756--777160 Score: 474
Period size: 136 Copynumber: 3.1 Consensus size: 136
776746 TAAATTCATA
* * *
776756 TAAGAATGTTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATATTA
1 TAAGAATTTTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
* *
776821 ATTAAT-TCAAATTATATTTTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATTT
66 ATT-ATGTCAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
*
776885 TGATTAT
130 TAATTAT
776892 TAAGAATTTTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
1 TAAGAATTTTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
* *
776957 ATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATT
66 ATTATGTCAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATT
*
777022 AATTTT
131 AATTAT
* * * * * *
777028 TAAGAATTTT-ACTAAATT-A-TATATT-TT-AATTATA-A-TAT-ATT-TAATA-A--TAATTA
1 TAAGAATTTTGA-T-TATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAA
* *
777081 T-GTTA---AA--TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG-ATA
64 TAATTATGTCAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
*
777139 TTGATTAT
129 TTAATTAT
777147 TAAGAATTTT-ATTA
1 TAAGAATTTTGATTA
777161 AATTATATAT
Statistics
Matches: 245, Mismatches: 21, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
117 1 0.00
118 1 0.00
119 20 0.08
120 47 0.19
122 1 0.00
125 3 0.01
126 6 0.02
128 1 0.00
129 4 0.02
130 3 0.01
131 2 0.01
132 1 0.00
133 7 0.03
134 2 0.01
135 7 0.03
136 136 0.56
137 3 0.01
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (136 bp):
TAAGAATTTTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATA
ATTATGTCAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATT
AATTAT
Found at i:776941 original size:18 final size:17
Alignment explanation
Indices: 776913--776947 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
776903 ATTATTAAGA
*
776913 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
776930 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
776948 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:777067 original size:16 final size:16
Alignment explanation
Indices: 777046--777092 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
777036 TTACTAAATT
777046 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
777062 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
777077 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
777093 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:777072 original size:15 final size:15
Alignment explanation
Indices: 777042--777092 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
777032 AATTTTACTA
777042 AATTAT-ATAT-TTT
1 AATTATAATATATTT
777055 AATTATAATATATTT
1 AATTATAATATATTT
*
777070 AATAATAAT-TATGTT
1 AATTATAATATAT-TT
777085 AAATTATA
1 -AATTATA
777093 TTTTATAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 6 0.19
14 7 0.22
15 13 0.41
16 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AATTATAATATATTT
Found at i:777111 original size:256 final size:254
Alignment explanation
Indices: 776656--777160 Score: 816
Period size: 256 Copynumber: 2.0 Consensus size: 254
776646 AATTATTTTA
* *
776656 AATTTTATTAAATCATATATTTTAATTAAAATATTTTTAATATTAATTACTTCAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTACTTCAAATTATATTTT
* * * *
776721 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATGTTGATTATTAAGAATTTTATTA
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTACTA
* *
776786 AATTATATATTTTAATTAAAATATTTTTAATATTAATTAATTCAAATTATATTTTATAGTATCAT
131 AATTATATATTTTAATTAAAATATATTTAATAATAATTAATTCAAATTATATTTTATAGTATCAT
* *
776851 ATATTATGATTTTAGTAAATTCATATAAGAATTTTGATTATTAAGAATTTTGATTATTAAG
196 ATATTATGATTTGAGTAAATTCATATAAG-ATATTGATTATTAAGAATTTT-ATTATTAAG
* * *
776912 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTA-TGTTAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTACT-TCAAATTATATTT
*
776976 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAGAATTTTACT
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTACT
* *
777041 AAATTATATATTTTAATTATAATATATTTAATAATAATT-ATGTTAAATTATATTTTATAGTATC
130 AAATTATATATTTTAATTAAAATATATTTAATAATAATTAAT-TCAAATTATATTTTATAGTATC
777105 ATATATTATGATTTGAGTAAATTCATATAAGATATTGATTATTAAGAATTTTATTA
194 ATATATTATGATTTGAGTAAATTCATATAAGATATTGATTATTAAGAATTTTATTA
777161 AATTATATAT
Statistics
Matches: 231, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
254 4 0.02
255 23 0.10
256 204 0.88
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.50
Consensus pattern (254 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTACTTCAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTACTA
AATTATATATTTTAATTAAAATATATTTAATAATAATTAATTCAAATTATATTTTATAGTATCAT
ATATTATGATTTGAGTAAATTCATATAAGATATTGATTATTAAGAATTTTATTATTAAG
Found at i:777434 original size:45 final size:44
Alignment explanation
Indices: 777351--777441 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 44
777341 ACCTCTATTC
* *
777351 CATTCAACCAAACATAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACATAAGATTACTATTACACATCTATTCCATTA
* *
777395 CATTCAACCAAACAGT-TGATTTGCTATTACACATCTATTCCATTA
1 CATTCAACCAAACA-TAAGA-TTACTATTACACATCTATTCCATTA
777440 CA
1 CA
777442 CCTCTAATTC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.33
Consensus pattern (44 bp):
CATTCAACCAAACATAAGATTACTATTACACATCTATTCCATTA
Found at i:777457 original size:16 final size:16
Alignment explanation
Indices: 777422--777473 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
777412 GATTTGCTAT
* * *
777422 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
*
777438 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
777454 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
777470 TACA
1 TACA
777474 GCGAACCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:779815 original size:3 final size:3
Alignment explanation
Indices: 779807--779834 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
779797 CCCCTTTATG
779807 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
779835 AGGATCTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:780903 original size:72 final size:71
Alignment explanation
Indices: 780823--780972 Score: 230
Period size: 72 Copynumber: 2.1 Consensus size: 71
780813 GTCAGGATTG
*
780823 ATTCCAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAGACTTGTCGAT-CAACCAATTGA
1 ATTCCAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAAACTTG-C-ATGCAACCAATTGA
780887 GTGGACAA
64 GTGGACAA
* * *
780895 ATTCCAAGATCATTGGGGAACCTCTTGCAACTCACTGATTTAAACTTGCATGGGAACCAATTGAG
1 ATTCCAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAAACTTGCAT-GCAACCAATTGAG
780960 TGGACAA
65 TGGACAA
780967 ATTCCA
1 ATTCCA
780973 TTATCAATTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
70 2 0.03
71 1 0.01
72 69 0.96
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (71 bp):
ATTCCAAGATCACTGGGAAACCTCTTGCAACTCACTGATTTAAACTTGCATGCAACCAATTGAGT
GGACAA
Found at i:786639 original size:11 final size:10
Alignment explanation
Indices: 786584--786661 Score: 50
Period size: 11 Copynumber: 7.2 Consensus size: 10
786574 TTATTTTAAT
*
786584 TTTAATATTA
1 TTTATTATTA
786594 TTTATACTATTA
1 TTTAT--TATTA
786606 TATT-TTATTA
1 T-TTATTATTA
786616 CTGTTATTATTA
1 -T-TTATTATTA
*
786628 TTATATTTTTA
1 TT-TATTATTA
**
786639 TTTATTAGCA
1 TTTATTATTA
786649 TTTCATTATTA
1 TTT-ATTATTA
786660 TT
1 TT
786662 ATTTTTACTT
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
10 18 0.34
11 20 0.38
12 13 0.25
13 2 0.04
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (10 bp):
TTTATTATTA
Found at i:786833 original size:40 final size:40
Alignment explanation
Indices: 786784--786859 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
786774 TATTACGCAT
786784 ATATATATATTA-ATATTATATTATGTATATTATTTTTTTAA
1 ATATATATATTATATA-TATATTATGTATA-TATTTTTTTAA
* *
786825 ATAT-TATATTTTTTATATATTATGTATATATTTTT
1 ATATATATATTATATATATATTATGTATATATTTTT
786860 AATATCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
39 7 0.22
40 19 0.59
41 6 0.19
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (40 bp):
ATATATATATTATATATATATTATGTATATATTTTTTTAA
Found at i:786838 original size:16 final size:15
Alignment explanation
Indices: 786810--786847 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
786800 TATATTATGT
786810 ATATTATTTTTTTAA
1 ATATTATTTTTTTAA
*
786825 ATATTATATTTTTTAT
1 ATATTAT-TTTTTTAA
786841 ATATTAT
1 ATATTAT
786848 GTATATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATTATTTTTTTAA
Found at i:786845 original size:11 final size:11
Alignment explanation
Indices: 786829--786890 Score: 61
Period size: 11 Copynumber: 5.3 Consensus size: 11
786819 TTTTAAATAT
786829 TATATTTTTTA
1 TATATTTTTTA
* *
786840 TATATTATGTA
1 TATATTTTTTA
786851 TATATTTTTAATA
1 TATATTTTT--TA
*
786864 TCATATTTTTCA
1 T-ATATTTTTTA
786876 TATATTTTATTA
1 TATATTTT-TTA
786888 TAT
1 TAT
786891 TACGTATATA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
11 23 0.56
12 7 0.17
13 3 0.07
14 8 0.20
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (11 bp):
TATATTTTTTA
Found at i:786871 original size:36 final size:39
Alignment explanation
Indices: 786800--786881 Score: 116
Period size: 36 Copynumber: 2.2 Consensus size: 39
786790 ATATTAATAT
* *
786800 TATATTATGTATATTATTTTTTTAAATATTATATTTTTTA
1 TATATTATGTATATTA-TTTTTTAAATATCATATTTTTCA
786840 TATATTATGTATA-TA-TTTTT-AATATCATATTTTTCA
1 TATATTATGTATATTATTTTTTAAATATCATATTTTTCA
786876 TATATT
1 TATATT
786882 TTATTATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
36 20 0.50
37 5 0.12
39 2 0.05
40 13 0.32
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (39 bp):
TATATTATGTATATTATTTTTTAAATATCATATTTTTCA
Found at i:786957 original size:51 final size:51
Alignment explanation
Indices: 786886--786984 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
786876 TATATTTTAT
* * *
786886 TATATTACGTATATATTTTTAATAAC-TATATTATGTATGTATTTTTAACAC
1 TATATTACGTACATACTTTTAATAACAT-TATTATGTATATATTTTTAACAC
*
786937 TATATTACGTACATACTTTTAATATCATTATTATGTATATATTTTTAA
1 TATATTACGTACATACTTTTAATAACATTATTATGTATATATTTTTAA
786985 TATATATGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (51 bp):
TATATTACGTACATACTTTTAATAACATTATTATGTATATATTTTTAACAC
Found at i:786987 original size:26 final size:26
Alignment explanation
Indices: 786842--786987 Score: 123
Period size: 26 Copynumber: 5.9 Consensus size: 26
786832 ATTTTTTATA
786842 TATTATGTATATATTTTTAATATCA-
1 TATTATGTATATATTTTTAATATCAT
*
786867 TATT-TTTCATATA-TTTT-AT-T-A-
1 TATTATGT-ATATATTTTTAATATCAT
* *
786888 TATTACGTATATATTTTTAATAAC-T
1 TATTATGTATATATTTTTAATATCAT
* *
786913 ATATTATGTATGTATTTTTAACA-C-T
1 -TATTATGTATATATTTTTAATATCAT
* * *
786938 ATATTACGTACATACTTTTAATATCAT
1 -TATTATGTATATATTTTTAATATCAT
786965 TATTATGTATATATTTTTAATAT
1 TATTATGTATATATTTTTAATAT
786988 ATATGTGTAT
Statistics
Matches: 96, Mismatches: 15, Indels: 19
0.74 0.12 0.15
Matches are distributed among these distances:
21 10 0.10
22 6 0.06
23 4 0.04
24 6 0.06
25 29 0.30
26 40 0.42
27 1 0.01
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (26 bp):
TATTATGTATATATTTTTAATATCAT
Found at i:787015 original size:46 final size:47
Alignment explanation
Indices: 786829--787132 Score: 188
Period size: 46 Copynumber: 6.5 Consensus size: 47
786819 TTTTAAATAT
* * *
786829 TATATTTTTTATATATTATGTATATATTTTTAATA-TCA-TATT-TTTCA
1 TATATTTTTAATATA-TATGTATATATTTATAATAGT-ATTATTATGT-A
* * * *
786876 TATA-TTTTATTATATTACGTATATATTTTTAATAACTA-TATTATGTA
1 TATATTTTTAATATA-TATGTATATATTTATAAT-AGTATTATTATGTA
* * *
786923 TGTATTTTTAACACTATATTACGTACATACTTT-TAATA-TCATTATTATGTA
1 TATATTTTT-A-A-TATA-TATGTATATA-TTTATAATAGT-ATTATTATGTA
* * *
786974 TATATTTTTAATATATATGTGTATATTTAT-GTAGTATTATTA-ATA
1 TATATTTTTAATATATATGTATATATTTATAATAGTATTATTATGTA
* *
787019 GT-TGTTTTTAATAT-TAT-TAT-TATTTCTAATATGTATATATTATGTA
1 -TATATTTTTAATATATATGTATATATTTATAATA-GTAT-TATTATGTA
* * * *
787065 TATATTTTTAATA-CTATGTATATACTTTTTAATACTATTATTATGTT
1 TATATTTTTAATATATATGTATATA-TTTATAATAGTATTATTATGTA
*
787112 TATA-TTTTAATATATACGTAT
1 TATATTTTTAATATATATGTAT
787133 GTATATAGGT
Statistics
Matches: 210, Mismatches: 24, Indels: 46
0.75 0.09 0.16
Matches are distributed among these distances:
42 6 0.03
43 4 0.02
44 7 0.03
45 19 0.09
46 62 0.30
47 44 0.21
48 16 0.08
49 11 0.05
50 3 0.01
51 35 0.17
52 3 0.01
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.56
Consensus pattern (47 bp):
TATATTTTTAATATATATGTATATATTTATAATAGTATTATTATGTA
Found at i:787064 original size:11 final size:11
Alignment explanation
Indices: 787048--787088 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
787038 TTATTTCTAA
787048 TATGTATATAT
1 TATGTATATAT
787059 TATGTATATAT
1 TATGTATATAT
* *
787070 T-TTTA-ATAC
1 TATGTATATAT
787079 TATGTATATA
1 TATGTATATA
787089 CTTTTTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 4 0.16
10 6 0.24
11 15 0.60
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (11 bp):
TATGTATATAT
Found at i:787084 original size:20 final size:21
Alignment explanation
Indices: 787059--787102 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
787049 ATGTATATAT
787059 TATGTATATA-TTTTTAATAC
1 TATGTATATACTTTTTAATAC
787079 TATGTATATACTTTTTAATAC
1 TATGTATATACTTTTTAATAC
787100 TAT
1 TAT
787103 TATTATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (21 bp):
TATGTATATACTTTTTAATAC
Found at i:787110 original size:27 final size:24
Alignment explanation
Indices: 787059--787139 Score: 73
Period size: 24 Copynumber: 3.4 Consensus size: 24
787049 ATGTATATAT
787059 TATGTATATATTTT--TA-ATAC-
1 TATGTATATATTTTAATATATACG
*
787079 TATGTATATACTTTTTAATACTATTA-T
1 TATGTATATA--TTTTAATA-TA-TACG
*
787106 TATGTTTATATTTTAATATATACG
1 TATGTATATATTTTAATATATACG
787130 TATGTATATA
1 TATGTATATA
787140 GGTAACATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
20 10 0.20
22 4 0.08
23 2 0.04
24 13 0.27
25 8 0.16
26 1 0.02
27 11 0.22
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (24 bp):
TATGTATATATTTTAATATATACG
Found at i:787139 original size:24 final size:23
Alignment explanation
Indices: 786785--787139 Score: 93
Period size: 25 Copynumber: 15.3 Consensus size: 23
786775 ATTACGCATA
* *
786785 TATATATATTAATATTATATTATG
1 TATATATTTTAATA-TATACTATG
* *
786809 TATATTATTTT--TTTA-AATAT-
1 TATA-TATTTTAATATATACTATG
*
786829 TATAT-TTTT--TATATATTATG
1 TATATATTTTAATATATACTATG
* *
786849 TATATATTTTTAATATCATA-TTTT
1 TATATA-TTTTAATAT-ATACTATG
* *
786873 TCATATATTTT-AT-TATATTACG
1 T-ATATATTTTAATATATACTATG
*
786895 TATATATTTTTAATAACTATATTATG
1 TATATA-TTTTAAT-A-TATACTATG
* * * *
786921 TATGTATTTTTAACACTATATTACG
1 TATATA-TTTTAATA-TATACTATG
* *
786946 TACATACTTTTAATATCATTATTATG
1 TATATA-TTTTAATAT-A-TACTATG
*
786972 TATATATTTTTAATATATA-TGTG
1 TATATA-TTTTAATATATACTATG
* *
786995 TATAT-TTATGTAGTAT-TATTAATAG
1 TATATATT-T-TAATATATACT-AT-G
* *
787020 T-TGT-TTTTAATAT-TATTAT-
1 TATATATTTTAATATATACTATG
* * ** * *
787039 TATTTCTAATATGTATATATTATG
1 TATATATTTTA-ATATATACTATG
787063 TATATATTTT--TA-ATACTATG
1 TATATATTTTAATATATACTATG
*
787083 TATATACTTTTTAATACTATTATTATG
1 TATATA--TTTTAATA-TA-TACTATG
*
787110 TTTATATTTTAATATATACGTATG
1 TATATATTTTAATATATAC-TATG
787134 TATATA
1 TATATA
787140 GGTAACATTA
Statistics
Matches: 257, Mismatches: 39, Indels: 70
0.70 0.11 0.19
Matches are distributed among these distances:
18 7 0.03
19 6 0.02
20 24 0.09
21 21 0.08
22 32 0.12
23 28 0.11
24 41 0.16
25 46 0.18
26 41 0.16
27 11 0.04
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.56
Consensus pattern (23 bp):
TATATATTTTAATATATACTATG
Found at i:790143 original size:18 final size:20
Alignment explanation
Indices: 790106--790146 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
790096 ACATAATTTT
*
790106 AAAATATATATAAACAATCA
1 AAAATATATAAAAACAATCA
790126 AAAATAT-TAAAAAC-ATCA
1 AAAATATATAAAAACAATCA
790144 AAA
1 AAA
790147 TAAATATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 6 0.30
20 7 0.35
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATATATAAAAACAATCA
Found at i:790343 original size:11 final size:11
Alignment explanation
Indices: 790327--790355 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
790317 ACAGTAACAA
790327 CAAAATAGTAG
1 CAAAATAGTAG
790338 CAAAATAGTAG
1 CAAAATAGTAG
790349 CAAAATA
1 CAAAATA
790356 ATAAGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.59, C:0.10, G:0.14, T:0.17
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:794095 original size:21 final size:20
Alignment explanation
Indices: 794078--794118 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
794068 TCCTTTTTTG
*
794078 ATTTTTTTATATATTTTTTAA
1 ATTTTATTAT-TATTTTTTAA
794099 ATTTTATTATTATTTATTTA
1 ATTTTATTATTATTT-TTTA
794119 CTTAGGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTATTATTATTTTTTAA
Found at i:794446 original size:118 final size:118
Alignment explanation
Indices: 794222--794452 Score: 354
Period size: 118 Copynumber: 2.0 Consensus size: 118
794212 TATTTCCGGT
*
794222 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATAACAACCCAAGCAC
* **
794287 CCTACCCCGGTTACTCAGTCAGTCACAATTTGGGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACAATCTAAGCCATACTCATAACCTCGGC
****
794340 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATAACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATAACAACCCAAGCAC
* * **
794405 CCTACCTCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACAATCTAAGCCATACTCATAACC
794453 ATGGAAAACA
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
118 101 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATAACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACAATCTAAGCCATACTCATAACCTCGGC
Found at i:795263 original size:43 final size:42
Alignment explanation
Indices: 795216--795308 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
795206 TGAAAAGGGG
* * * *
795216 TGTTTGGCTGCAG-GTTTTGGGGATTCTAAGGCTGGAATAGGAC
1 TGTTTGGCTGCAGAGATAT-GGCATTCT-AGGCTGGAATAGAAC
*
795259 TGTTTGGCTGCAGAGATATGGCATTCTGGGCTGGAATAGAAC
1 TGTTTGGCTGCAGAGATATGGCATTCTAGGCTGGAATAGAAC
795301 TGTTTGGC
1 TGTTTGGC
795309 AGCATGGATA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
42 21 0.48
43 20 0.45
44 3 0.07
ACGTcount: A:0.19, C:0.13, G:0.35, T:0.32
Consensus pattern (42 bp):
TGTTTGGCTGCAGAGATATGGCATTCTAGGCTGGAATAGAAC
Found at i:795436 original size:6 final size:6
Alignment explanation
Indices: 795415--795490 Score: 104
Period size: 6 Copynumber: 12.7 Consensus size: 6
795405 ATATTTAACT
795415 AAAAT- AAAAT- AAAATA AAAAT- AAAATAA AATAATA AATAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAAT-A AA-AATA AA-AATA AAAATA
795463 AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAA
795491 GAAAGATTGG
Statistics
Matches: 67, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
5 15 0.22
6 37 0.55
7 12 0.18
8 3 0.04
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:804357 original size:57 final size:57
Alignment explanation
Indices: 804275--804409 Score: 218
Period size: 57 Copynumber: 2.4 Consensus size: 57
804265 ACAAGTGTGA
*
804275 AGTCAATAGACAATTGATAGTCTTAGTCTTAGTCTTTTTTTTGTCCAGTT-AAAGTGT
1 AGTCAATAGACAATTGATAGTCTTAGTCTTAGTC-TTTTTTTGTCCAGTTAAAAGTAT
* *
804332 AGTCAATAGACAATTGATAGTCTTAGTCTTTGTCTTTTTTTGTGCAGTTAAAAGTAT
1 AGTCAATAGACAATTGATAGTCTTAGTCTTAGTCTTTTTTTGTCCAGTTAAAAGTAT
*
804389 AGTGAATAGACAATTGATAGT
1 AGTCAATAGACAATTGATAGT
804410 TAAATTTGTA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 14 0.19
57 59 0.81
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (57 bp):
AGTCAATAGACAATTGATAGTCTTAGTCTTAGTCTTTTTTTGTCCAGTTAAAAGTAT
Found at i:806509 original size:72 final size:72
Alignment explanation
Indices: 806391--806682 Score: 394
Period size: 72 Copynumber: 4.1 Consensus size: 72
806381 TCAGGACCAG
* * * *
806391 TTCCAAGATCATTTGGAAACCTCTTGCAACTCACTCATTTATACTTGTTGTGGAACCAATTGAGT
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTTGTAGAACCAATTGAGT
806456 GGACAAA
66 GGACAAA
* * *
806463 TTCCAAGATCATTGGGGAACCTCTTGCGACTCACTCATTTAGACTTGTGGAAGAACCAATTGAGT
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTTGTAGAACCAATTGAGT
* *
806528 CGACGAA
66 GGACAAA
* *
806535 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTTATTTA-AGCTTGCATG-AGAACCAATTGA
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGA-CTTG-TTGTAGAACCAATTGA
806598 GTGGACAAA
64 GTGGACAAA
* * * *
806607 TTCCAAGATAATT-GGGAACCTCTTGTAACTCACTCATTTAGACTTGTCGCT-GAACCAATTGAC
1 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTTG-TAGAACCAATTGAG
806670 TGGACAAA
65 TGGACAAA
806678 TTCCA
1 TTCCA
806683 TTATCAATTC
Statistics
Matches: 194, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
70 1 0.01
71 54 0.28
72 138 0.71
73 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (72 bp):
TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTTGTAGAACCAATTGAGT
GGACAAA
Found at i:819782 original size:13 final size:13
Alignment explanation
Indices: 819766--819791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
819756 CTTTGCATAT
819766 TGTCTTCAACAGG
1 TGTCTTCAACAGG
819779 TGTCTTCAACAGG
1 TGTCTTCAACAGG
819792 CTCGCACTTT
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:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:820789 original size:13 final size:13
Alignment explanation
Indices: 820773--820798 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
820763 CTTTGCATAT
820773 TGTCTTCAACAGG
1 TGTCTTCAACAGG
820786 TGTCTTCAACAGG
1 TGTCTTCAACAGG
820799 CTCGCACTTT
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:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:821780 original size:57 final size:56
Alignment explanation
Indices: 821688--821806 Score: 220
Period size: 57 Copynumber: 2.1 Consensus size: 56
821678 CCAATAACAA
*
821688 TCTTAGTCTTAGTCTTTTTTTATTGAGTTAAAGTGTAGTCAATAGACAATTGATAG
1 TCTTAGTCTTAGTCTTTTTTTATCGAGTTAAAGTGTAGTCAATAGACAATTGATAG
821744 TCTTAGTCTTAGTCTTTTTTTTATCGAGTTAAAGTGTAGTCAATAGACAATTGATAG
1 TCTTAGTCTTAGTC-TTTTTTTATCGAGTTAAAGTGTAGTCAATAGACAATTGATAG
821801 TCTTAG
1 TCTTAG
821807 GTGTTATATG
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 14 0.23
57 47 0.77
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.45
Consensus pattern (56 bp):
TCTTAGTCTTAGTCTTTTTTTATCGAGTTAAAGTGTAGTCAATAGACAATTGATAG
Found at i:825846 original size:72 final size:72
Alignment explanation
Indices: 825766--825914 Score: 226
Period size: 72 Copynumber: 2.1 Consensus size: 72
825756 TTAGGGCCAG
* * ****
825766 TTCCAAGATCACTGGGAAACCTCTTGCAACTTACTGATTTAGACTTGTCGCGGAACCAATTGAGT
1 TTCCAAGATCACTGGGAAACCTCTTGCAACTCACTCATTTAGACTTGTCAAACAACCAATTGAGT
825831 GGACAAA
66 GGACAAA
* *
825838 TTCCAAGATCATTGGGGAACCTCTTGCAACTCACTCATTTAGACTTGTCAAACAACCAATTGAGT
1 TTCCAAGATCACTGGGAAACCTCTTGCAACTCACTCATTTAGACTTGTCAAACAACCAATTGAGT
825903 GGACAAA
66 GGACAAA
825910 TTCCA
1 TTCCA
825915 TTATCAATTC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (72 bp):
TTCCAAGATCACTGGGAAACCTCTTGCAACTCACTCATTTAGACTTGTCAAACAACCAATTGAGT
GGACAAA
Found at i:830449 original size:35 final size:35
Alignment explanation
Indices: 830403--830478 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
830393 TTGGCTTTAT
*
830403 TTATTCTTCAGGGTAAGACTTTGATTTAATTTTCA
1 TTATTCTTCAGGGTAAGACTTGGATTTAATTTTCA
830438 TTATTCTTCAGGGTAAGACTTGGATTTAATTTTCA
1 TTATTCTTCAGGGTAAGACTTGGATTTAATTTTCA
*
830473 TCATTC
1 TTATTC
830479 ATGGTGTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.25, C:0.13, G:0.14, T:0.47
Consensus pattern (35 bp):
TTATTCTTCAGGGTAAGACTTGGATTTAATTTTCA
Found at i:831324 original size:51 final size:51
Alignment explanation
Indices: 831249--831351 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
831239 TTATGAGTAA
831249 AATTAATTGGGGTTATGCAATTGTTGGAATTCATATGTGGTCTTCGTTTCT
1 AATTAATTGGGGTTATGCAATTGTTGGAATTCATATGTGGTCTTCGTTTCT
831300 AATTAATTGGGGTTATGCAATTGTTGGAATTCATATGTGGTCTTCGTTTCT
1 AATTAATTGGGGTTATGCAATTGTTGGAATTCATATGTGGTCTTCGTTTCT
831351 A
1 A
831352 TTGTTGTTCC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.22, C:0.10, G:0.23, T:0.45
Consensus pattern (51 bp):
AATTAATTGGGGTTATGCAATTGTTGGAATTCATATGTGGTCTTCGTTTCT
Found at i:837712 original size:28 final size:27
Alignment explanation
Indices: 837648--837714 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
837638 ACACAAATTG
* * *
837648 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTAATAATATTA
* *
837675 AAATTGAAAATAAAATGTAATAATGATTA
1 AAAAT-AAAATAAAAAGTAATAAT-ATTA
837704 AAAATAAAATA
1 AAAATAAAATA
837715 TATATATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 4 0.12
28 20 0.62
29 8 0.25
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAATAATATTA
Found at i:838665 original size:23 final size:23
Alignment explanation
Indices: 838639--838682 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
838629 AACATTTGAA
*
838639 AATTTTTGAGAGAAAAATAAAAG
1 AATTCTTGAGAGAAAAATAAAAG
**
838662 AATTCTTGAGAGTGAAATAAA
1 AATTCTTGAGAGAAAAATAAA
838683 TTCGTTGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.18, T:0.27
Consensus pattern (23 bp):
AATTCTTGAGAGAAAAATAAAAG
Found at i:842868 original size:22 final size:22
Alignment explanation
Indices: 842833--842879 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
842823 TTTAATATTT
*
842833 ATTTTTTATTTTTTAAAAA-CA
1 ATTTTTTATATTTTAAAAATCA
842854 ATTTTTATATATTTTAAAAATCA
1 ATTTTT-TATATTTTAAAAATCA
842877 ATT
1 ATT
842880 AATTGGTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.26
22 12 0.52
23 5 0.22
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTTTATATTTTAAAAATCA
Found at i:842873 original size:23 final size:21
Alignment explanation
Indices: 842833--842879 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
842823 TTTAATATTT
*
842833 ATTTTTTATTTTTTAAAAACA
1 ATTTTTTATTTTTAAAAAACA
*
842854 ATTTTTATATATTTTAAAAATCA
1 ATTTTT-TAT-TTTTAAAAAACA
842877 ATT
1 ATT
842880 AATTGGTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 3 0.14
23 13 0.59
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTTATTTTTAAAAAACA
Found at i:845461 original size:23 final size:25
Alignment explanation
Indices: 845410--845461 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
845400 AATGTACATG
* *
845410 TTACAAGCCCAATTACCTAGCCCAT
1 TTACAAGCCAAATTACCTAGCCCAA
*
845435 TTACAAG-CAAATTATC-AGCCCAA
1 TTACAAGCCAAATTACCTAGCCCAA
845458 TTAC
1 TTAC
845462 TAAATCTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.42
24 7 0.29
25 7 0.29
ACGTcount: A:0.37, C:0.31, G:0.08, T:0.25
Consensus pattern (25 bp):
TTACAAGCCAAATTACCTAGCCCAA
Found at i:853511 original size:37 final size:37
Alignment explanation
Indices: 853383--853509 Score: 227
Period size: 37 Copynumber: 3.4 Consensus size: 37
853373 CATTTATCCC
853383 TGATCAGATAAGTGTAACCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAACCACTTATCACTTTGTTTCT
853420 TGATCAGATAAGTGTAACCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAACCACTTATCACTTTGTTTCT
* **
853457 TGATCAGATAAGTGTAGCCACTTATCACTTTGTCACT
1 TGATCAGATAAGTGTAACCACTTATCACTTTGTTTCT
853494 TGATCAGATAAGTGTA
1 TGATCAGATAAGTGTA
853510 GCTAAAACTA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 87 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (37 bp):
TGATCAGATAAGTGTAACCACTTATCACTTTGTTTCT
Found at i:858239 original size:26 final size:26
Alignment explanation
Indices: 858199--858263 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
858189 AAGGCAGCCA
*
858199 AAAAGAAAAAC-AAAAGTACAAAAAAT
1 AAAA-AAAAACAAAAAGAACAAAAAAT
* *
858225 AAAAAAAAACAAAAAGAAGAATAAAT
1 AAAAAAAAACAAAAAGAACAAAAAAT
*
858251 AAATAAAAACAAA
1 AAAAAAAAACAAA
858264 GGTCATAGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 6 0.18
26 28 0.82
ACGTcount: A:0.80, C:0.06, G:0.06, T:0.08
Consensus pattern (26 bp):
AAAAAAAAACAAAAAGAACAAAAAAT
Found at i:858805 original size:24 final size:23
Alignment explanation
Indices: 858778--858863 Score: 66
Period size: 24 Copynumber: 3.5 Consensus size: 23
858768 GAGACATTAA
858778 AAAAATTAAAATAAAAATAAAAAT
1 AAAAATTAAAA-AAAAATAAAAAT
* **
858802 AAAAAATCAAAGGAAAATAAAAAT
1 -AAAAATTAAAAAAAAATAAAAAT
*
858826 CAAAGGATTAAAGAAAAAATAAAAGA-
1 -AAA-AATTAAA-AAAAAATAAAA-AT
*
858852 AAAAATCAAAAA
1 AAAAATTAAAAA
858864 GAAGAAAGAA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
23 2 0.04
24 19 0.40
25 17 0.35
26 9 0.19
27 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (23 bp):
AAAAATTAAAAAAAAATAAAAAT
Found at i:858823 original size:17 final size:18
Alignment explanation
Indices: 858797--858854 Score: 66
Period size: 17 Copynumber: 3.2 Consensus size: 18
858787 AATAAAAATA
858797 AAAATAAAAAATCAAAGG
1 AAAATAAAAAATCAAAGG
858815 AAAAT-AAAAATCAAAGG
1 AAAATAAAAAATCAAAGG
* *
858832 ATTAAAGAAAAAAT-AAAAG
1 A--AAATAAAAAATCAAAGG
858851 AAAA
1 AAAA
858855 AATCAAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 16 0.46
18 5 0.14
19 8 0.23
20 6 0.17
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.12
Consensus pattern (18 bp):
AAAATAAAAAATCAAAGG
Found at i:860633 original size:88 final size:88
Alignment explanation
Indices: 860189--860811 Score: 253
Period size: 89 Copynumber: 7.1 Consensus size: 88
860179 GATAGTAAGA
* * * ** **
860189 GAGCAGGTTGAAGTTTGAAGTCTTATCTTCCTGAGGCAGCAAGGAAGCAGACTAAAGAATGTAGA
1 GAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGGTTAAAGA
*
860254 TCTTATCTCCCTAGGCAGTAGTG
66 TCTTATCTCCCTAGGTAGTAGTG
* * * * * * * * * * ** ** *
860277 GAGTAGATCGAAGATGGCGAATCTTATCTTCCTGAGGTAGCAAGGGAGCAGATTGCA-GCCATCA
1 GAGCAGGTTGAAGTTTG-TAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGGTTA-AA
* ** * *
860341 G-CCTTATCTCTTTGAGGTAGCAAG-A
64 GATCTTATCTCCCT-AGGTAG-TAGTG
* * * * * * **
860366 GAGCAGGCTGAA--TTGAAGTTTTATCTTCCTAAGGTAGCAAGGAATTAGACTAAAGATTGTAGA
1 GAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGGTTAAAGA
* ** *
860429 TCTTATCTTCCTAAATAGTACTG
66 TCTTATCTCCCTAGGTAGTAGTG
** * * * * * * * * * * ** ** *
860452 GAGCAAATCGAAGATGGCGAATCTTATCTTCCTGAGGTATCAGGGGAGCAGATTTTA-GCCACCA
1 GAGCAGGTTGAAGTTTG-TAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGGTTA-AA
* * * * *
860516 G-CCTTATCTCTCTGAAGTAGCAAG-A
64 GATCTTATCTCCCT-AGGTAG-TAGTG
*
860541 GAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGTAAGTAGACTAAAGGTTAAAGA
1 GAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGGTTAAAGA
**
860606 TCTTATCTCCCTAAATAGTAGTG
66 TCTTATCTCCCTAGGTAGTAGTG
* * * * * * * * ** ** *
860629 GAGCAGATCGAAGATGGCGAGTCTTATCTTTCC-GAGGTAGCAGGGGAGTAGATTTTA-GCCACC
1 GAGCAGGTTGAAGTTTG-TAGTCTTATC-TTCCTGAGGTAGCAAGGAAGTAGACTAAAGGTTA-A
* * * *
860692 AG-CCTTATCTCTCTGAGGTAGCAAG-A
63 AGATCTTATCTCCCT-AGGTAG-TAGTG
* * **
860718 GAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGCAGCAAGGAAGTAGACTAAAGATTGTAGA
1 GAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGGTTAAAGA
* *
860783 TCCTATCTCCGTAGGTAGTAGTG
66 TCTTATCTCCCTAGGTAGTAGTG
860806 GAGCAG
1 GAGCAG
860812 ATCAAATATG
Statistics
Matches: 364, Mismatches: 146, Indels: 50
0.65 0.26 0.09
Matches are distributed among these distances:
85 1 0.00
86 43 0.12
87 18 0.05
88 134 0.37
89 159 0.44
90 9 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (88 bp):
GAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGGTTAAAGA
TCTTATCTCCCTAGGTAGTAGTG
Found at i:860648 original size:177 final size:177
Alignment explanation
Indices: 860073--861150 Score: 1440
Period size: 177 Copynumber: 6.1 Consensus size: 177
860063 GTGAATTCAC
* * * * *
860073 AGATCTTATCTCCCTGAGATAGTAGTGGAGTAGATCGAAGATAGCAAATCTTATCTTCCCAAGGT
1 AGATCTTATCTCCCT-AAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGT
* * *
860138 AGCAGGAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGATAGTAAGAGAGCAGGTTGAAGT
65 AGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGT
* * *
860203 TTGAAGTCTTATCTTCCTGAGGCAGCAAGGAAGCAGACTAAAGAATGT
130 TTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGATTGT
*** * *
860251 AGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTCCTGAGGTA
1 AGATCTTATCTCCCTAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTA
* ** * * *
860316 GCAAGGGAGCAGATTGCAGCCATCAGCCTTATCTCTTTGAGGTAGCAAGAGAGCAGGCTGAA--T
66 GCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGTT
* * *
860379 TGAAGTTTTATCTTCCTAAGGTAGCAAGGAATTAGACTAAAGATTGT
131 TGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGATTGT
* * * *
860426 AGATCTTATCTTCCTAAATAGTACTGGAGCAAATCGAAGATGGCGAATCTTATCTTCCTGAGGTA
1 AGATCTTATCTCCCTAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTA
* *
860491 TCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGAAGTT
66 GCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGTT
* * * **
860556 TGTAGTCTTATCTTCCTGAGGTAGCAAGTAAGTAGACTAAAGGTTAA
131 TGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGATTGT
* *
860603 AGATCTTATCTCCCTAAATAGTAGTGGAGCAGATCGAAGATGGCGAGTCTTATCTTTCCGAGGTA
1 AGATCTTATCTCCCTAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTA
*
860668 GCAGGGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGTT
66 GCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGTT
* *
860733 TGTAGTCTTATCTTCCTGAGGCAGCAAGGAAGTAGACTAAAGATTGT
131 TGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGATTGT
* * ** * * * *
860780 AGATCCTATCTCCGTAGGTAGTAGTGGAGCAGATCAAATATGGCAAATCTTATCTTCCCAAGGTA
1 AGATCTTATCTCCCTAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTA
* * *
860845 GCAGGGGAGCAGATTGTAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCATGTTGAAGTT
66 GCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGTT
* * *
860910 TGAAGTCTTATCTTTCTGAGGTAACAAGGAAGTAGACTGAAGATTGT
131 TGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGATTGT
* * * *
860957 AGATCTTATTTCCCTGAGATAGCAGTAGTGGAGCAGATCGAAGATGGAGAATCTTATCATCCCGA
1 AGATCTTATCTCCCT-A-A-A-TAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGA
* * * * * *
861022 TGTAGTAGAGGAGCAGATTTTAGCCACAAGCCTTATCTCTCTGAGGTAGTAAGAGAGCAGGTCGA
62 GGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGA
* * * * * * *
861087 AGATTGTAGTCTTATTTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTGA
127 AGTTTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGATTGT
*
861138 AGGTCTTATCTCC
1 AGATCTTATCTCC
861151 TTGAGTTTGC
Statistics
Matches: 786, Mismatches: 108, Indels: 9
0.87 0.12 0.01
Matches are distributed among these distances:
175 154 0.20
177 470 0.60
178 16 0.02
181 146 0.19
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (177 bp):
AGATCTTATCTCCCTAAATAGTAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGGTA
GCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGTT
TGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTAAAGATTGT
Found at i:861101 original size:44 final size:46
Alignment explanation
Indices: 861053--861149 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 46
861043 AGCCACAAGC
* * *
861053 CTTATCTCT-CTGAGGTAGTAA-GAGAGCAGGTCGAAGATTGTA-GT
1 CTTATCTCTCCTGAGGTAGCAAGGA-AGCAGATCGAAGATTGAAGGT
* *
861097 CTTAT-TTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTGAAGGT
1 CTTATCTCTCCTGAGGTAGCAAGGAAGCAGATCGAAGATTGAAGGT
861142 CTTATCTC
1 CTTATCTC
861150 CTTGAGTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.05
44 31 0.72
45 9 0.21
46 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (46 bp):
CTTATCTCTCCTGAGGTAGCAAGGAAGCAGATCGAAGATTGAAGGT
Found at i:861505 original size:11 final size:12
Alignment explanation
Indices: 861480--861508 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
861470 GGGACCATAC
861480 AAAAACAAATAA
1 AAAAACAAATAA
861492 AAAAACAAATAA
1 AAAAACAAATAA
861504 AAAAA
1 AAAAA
861509 GACCCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAACAAATAA
Found at i:862221 original size:20 final size:21
Alignment explanation
Indices: 862196--862242 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
862186 GCATAGGAGA
862196 GCTAAAGGAAC-GAG-AAATGG
1 GCTAAA-GAACGGAGAAAATGG
862216 GCTAAA-AACGGAGAAAATGG
1 GCTAAAGAACGGAGAAAATGG
*
862236 GCCAAAG
1 GCTAAAG
862243 TATGAAATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 3 0.13
19 3 0.13
20 17 0.74
ACGTcount: A:0.47, C:0.13, G:0.32, T:0.09
Consensus pattern (21 bp):
GCTAAAGAACGGAGAAAATGG
Found at i:864008 original size:43 final size:44
Alignment explanation
Indices: 863919--864144 Score: 228
Period size: 43 Copynumber: 5.2 Consensus size: 44
863909 AAAATGCTGT
* * *** *
863919 TAAAGGTCATGACCTTTAGCGGCG-TTTGTGGGAGAAACGCCGC
1 TAAAGGTCATGGCCTTTAGCGGCGCTTTCTCCCACAAACGCCGC
* * * *
863962 TAAAAGTCATGACCTTTAGCGGCGCTTTCT-CCACAAATGCCAC
1 TAAAGGTCATGGCCTTTAGCGGCGCTTTCTCCCACAAACGCCGC
* * *
864005 TAAAGTTCATGGCCTTTAGCGGCGC-TTCTCCCACAAAAGTCGC
1 TAAAGGTCATGGCCTTTAGCGGCGCTTTCTCCCACAAACGCCGC
*
864048 TAAAGGTCATGGCCTTTAACGGCG-TTTCTCCCACAAACGCCGC
1 TAAAGGTCATGGCCTTTAGCGGCGCTTTCTCCCACAAACGCCGC
* * * ** *
864091 CAAAGGTCATGGCCTTTAGCGGTGCTTTTTCAAATAAACGCCGC
1 TAAAGGTCATGGCCTTTAGCGGCGCTTTCTCCCACAAACGCCGC
*
864135 AAAAGG-CATG
1 TAAAGGTCATG
864145 AAATTTTTAA
Statistics
Matches: 154, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
42 4 0.03
43 126 0.82
44 24 0.16
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (44 bp):
TAAAGGTCATGGCCTTTAGCGGCGCTTTCTCCCACAAACGCCGC
Found at i:864325 original size:19 final size:19
Alignment explanation
Indices: 864280--864326 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
864270 ATCAAATTAA
*
864280 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
864299 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
864318 AATAAAAAT
1 AATAAAAAT
864327 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:876343 original size:44 final size:44
Alignment explanation
Indices: 876295--876393 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 44
876285 CCCGTCGAAT
* *
876295 TGCAAGCCAAAGTGGT-GGACAGTCTAAATGCAAACCT-AAATGGG
1 TGCAAGCCAAAGT-GTCGAACAGTCTAAATGC-AACCTCAAATAGG
* * * * *
876339 TGCAAACCGAAGTGTCGAACGGTCTAAATGCAACCTCGAGTAGG
1 TGCAAGCCAAAGTGTCGAACAGTCTAAATGCAACCTCAAATAGG
876383 TGCAAGCCAAA
1 TGCAAGCCAAA
876394 ATGACAGACT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
43 7 0.16
44 37 0.84
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.17
Consensus pattern (44 bp):
TGCAAGCCAAAGTGTCGAACAGTCTAAATGCAACCTCAAATAGG
Found at i:881950 original size:72 final size:71
Alignment explanation
Indices: 881857--882077 Score: 354
Period size: 72 Copynumber: 3.1 Consensus size: 71
881847 TCAGGATCGG
* *
881857 TTCCAAGATCATTGGGAAACCTCTTTCAACTCACTCATTTAGACTTTTCGATGAACCAATTGAGT
1 TTCCAAGATCATTGGGAAACCTCTTGCAACTCACTCATTTAGACTTGTC-ATGAACCAATTGAGT
881922 GGACAAA
65 GGACAAA
881929 TTCCAAGATCATTTGGG-AACCTCTTGCAACTCACTCATTTAGACTTGTCATGGAACCAATTGAG
1 TTCCAAGATCA-TTGGGAAACCTCTTGCAACTCACTCATTTAGACTTGTCAT-GAACCAATTGAG
881993 TGGACAAA
64 TGGACAAA
* * *
882001 TTCCAAGATCACTGGGAAACCTCTTGCAACTCACTCATTTAGACCTGTCAGGCAACCAATTGAGT
1 TTCCAAGATCATTGGGAAACCTCTTGCAACTCACTCATTTAGACTTGTCATG-AACCAATTGAGT
882066 GGACAAA
65 GGACAAA
882073 TTCCA
1 TTCCA
882078 TTGTCAATTC
Statistics
Matches: 140, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
71 7 0.05
72 128 0.91
73 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (71 bp):
TTCCAAGATCATTGGGAAACCTCTTGCAACTCACTCATTTAGACTTGTCATGAACCAATTGAGTG
GACAAA
Found at i:883211 original size:3 final size:3
Alignment explanation
Indices: 883203--883237 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
883193 ATCACATGTT
883203 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
883238 TGGATGTAAT
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:883355 original size:72 final size:72
Alignment explanation
Indices: 883238--883421 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
883228 TATTATTATT
883238 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
883303 TTTTAAG
66 TTTTAAG
883310 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
883375 TTTTAAG
66 TTTTAAG
*
883382 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
883422 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:887648 original size:3 final size:3
Alignment explanation
Indices: 887640--887701 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
887630 ATCACATGTT
887640 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
887688 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
887702 TGGATGTAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:887819 original size:72 final size:72
Alignment explanation
Indices: 887702--887885 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
887692 TATTATTATT
887702 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
887767 TTTTAAG
66 TTTTAAG
887774 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
887839 TTTTAAG
66 TTTTAAG
*
887846 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
887886 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:892815 original size:16 final size:16
Alignment explanation
Indices: 892782--892815 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
892772 ACATACTGTT
* *
892782 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
892798 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
892814 AA
1 AA
892816 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:901427 original size:19 final size:19
Alignment explanation
Indices: 901403--901440 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
901393 ATTTTAAATA
* *
901403 TTTTATATATATTATTTAT
1 TTTTATAAACATTATTTAT
901422 TTTTATAAACATTATTTAT
1 TTTTATAAACATTATTTAT
901441 ACATGTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATAAACATTATTTAT
Found at i:901505 original size:12 final size:12
Alignment explanation
Indices: 901490--901514 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
901480 AGGTTATTTG
901490 TATTTTATTATA
1 TATTTTATTATA
901502 TATTTTATTATA
1 TATTTTATTATA
901514 T
1 T
901515 TTTATATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTTATTATA
Found at i:901515 original size:17 final size:17
Alignment explanation
Indices: 901484--901535 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
901474 TTTATCAGGT
*
901484 TATTTGTATTTTATTATA
1 TATTT-TATTATATTATA
*
901502 TATTTTATTATATTTTA
1 TATTTTATTATATTATA
901519 TATTTTATTATA-TATA
1 TATTTTATTATATTATA
901535 T
1 T
901536 TATTCCCTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
16 4 0.13
17 22 0.71
18 5 0.16
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTTTATTATATTATA
Found at i:901539 original size:12 final size:11
Alignment explanation
Indices: 901490--901536 Score: 55
Period size: 10 Copynumber: 4.4 Consensus size: 11
901480 AGGTTATTTG
901490 TATTTTATTATA
1 TATTTTA-TATA
901502 TATTTTAT-TA
1 TATTTTATATA
901512 TATTTTATAT-
1 TATTTTATATA
901522 T-TTATTATATA
1 TATT-TTATATA
901533 TATT
1 TATT
901537 ATTCCCTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 2 0.06
10 17 0.55
11 3 0.10
12 9 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATTTTATATA
Found at i:901571 original size:7 final size:7
Alignment explanation
Indices: 901557--901592 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
901547 TTATCTTCAT
901557 TTTATTA
1 TTTATTA
*
901564 TATATTA
1 TTTATTA
901571 TTCTATTA
1 TT-TATTA
901579 TTTATTA
1 TTTATTA
901586 TTTATTA
1 TTTATTA
901593 GTACATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:901577 original size:31 final size:30
Alignment explanation
Indices: 901490--901592 Score: 97
Period size: 31 Copynumber: 3.3 Consensus size: 30
901480 AGGTTATTTG
*
901490 TATTTTATTATATATTTTATTATATTTTATAT
1 TATTTTATTATATA--TTATTCTATTTTATAT
*
901522 T-TTATTA-TATATATTATTCCCTATTTTATCT
1 TATT-TTATTATATATTATT--CTATTTTATAT
901553 TCATTTTATTATATATTATTCTATTATT-TAT
1 T-ATTTTATTATATATTATTCTATT-TTATAT
901584 TA-TTTATTA
1 TATTTTATTA
901593 GTACATATAA
Statistics
Matches: 61, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
29 12 0.20
30 1 0.02
31 26 0.43
32 9 0.15
33 13 0.21
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (30 bp):
TATTTTATTATATATTATTCTATTTTATAT
Found at i:901983 original size:26 final size:26
Alignment explanation
Indices: 901954--902061 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
901944 TGATACAAAT
901954 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
901980 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
902006 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
902032 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
902058 TGAT
1 TGAT
902062 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:907132 original size:26 final size:28
Alignment explanation
Indices: 907101--907166 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
907091 TTATTACATG
907101 TTATTTTAAATTATT-T-TATATATTAC
1 TTATTTTAAATTATTATGTATATATTAC
** * *
907127 TTATTTTATGTTTTTATGTATATATTAT
1 TTATTTTAAATTATTATGTATATATTAC
907155 TTATTTTAAATT
1 TTATTTTAAATT
907167 CTTACATATC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 12 0.38
27 1 0.03
28 19 0.59
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (28 bp):
TTATTTTAAATTATTATGTATATATTAC
Found at i:912132 original size:26 final size:26
Alignment explanation
Indices: 912101--912208 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
912091 TGAAATGCCC
* *
912101 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
912127 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
912153 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
912179 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
912205 ATCA
1 ATCA
912209 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:912158 original size:52 final size:52
Alignment explanation
Indices: 912101--912208 Score: 207
Period size: 52 Copynumber: 2.1 Consensus size: 52
912091 TGAAATGCCC
912101 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
*
912153 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
912205 ATCA
1 ATCA
912209 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:912514 original size:14 final size:15
Alignment explanation
Indices: 912495--912550 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
912485 TTACATATAT
912495 GATATG-CAATCTTA
1 GATATGACAATCTTA
912509 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
912526 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
912544 GATATGA
1 GATATGA
912551 TATACAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:912515 original size:19 final size:19
Alignment explanation
Indices: 912491--912564 Score: 118
Period size: 19 Copynumber: 4.1 Consensus size: 19
912481 AATCTTACAT
912491 ATATGATATGCAATCTTAG
1 ATATGATATGCAATCTTAG
912510 ATATGATA--CAATCTTAG
1 ATATGATATGCAATCTTAG
912527 ATATGAT-TGCAATCTTAG
1 ATATGATATGCAATCTTAG
*
912545 ATATGATATACAATCTTAG
1 ATATGATATGCAATCTTAG
912564 A
1 A
912565 AGATATGATT
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.31
18 16 0.31
19 19 0.37
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATATGATATGCAATCTTAG
Found at i:912542 original size:35 final size:37
Alignment explanation
Indices: 912491--912571 Score: 125
Period size: 35 Copynumber: 2.3 Consensus size: 37
912481 AATCTTACAT
912491 ATATGATATGCAATCTTAGATATG-ATACAATCTTAG
1 ATATGATATGCAATCTTAGATATGAATACAATCTTAG
912527 ATATGAT-TGCAATCTTAGATATGATATACAATCTTAG
1 ATATGATATGCAATCTTAGATATGA-ATACAATCTTAG
912564 A-A-GATATG
1 ATATGATATG
912572 ATTTTGTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
35 19 0.45
36 10 0.24
37 13 0.31
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.36
Consensus pattern (37 bp):
ATATGATATGCAATCTTAGATATGAATACAATCTTAG
Done.