Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 38 of 161
Found at i:11590010 original size:48 final size:49
Alignment explanation
Indices: 11589955--11590055 Score: 136
Period size: 48 Copynumber: 2.1 Consensus size: 49
11589945 TCAATTCAAG
* *
11589955 TTTTTATGATTTTTTTATAATTTGT-ATAA-GTTTATATCATTTTA-ATAA
1 TTTTTATGATTTTTATATAATTT-TAATAATGTTTATATAATTTTATAT-A
*
11590003 TTTTTATGATTTTTATATAATTTTAATAATTTTTATATAATTTTATATA
1 TTTTTATGATTTTTATATAATTTTAATAATGTTTATATAATTTTATATA
11590052 TTTT
1 TTTT
11590056 AATATGTGTC
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
47 1 0.02
48 26 0.55
49 18 0.38
50 2 0.04
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (49 bp):
TTTTTATGATTTTTATATAATTTTAATAATGTTTATATAATTTTATATA
Found at i:11590018 original size:29 final size:28
Alignment explanation
Indices: 11589956--11590059 Score: 113
Period size: 29 Copynumber: 3.6 Consensus size: 28
11589946 CAATTCAAGT
* * *
11589956 TTTTATGATTTTTTTATAATTTGTATA-A
1 TTTTAT-ATATTTTAATAATTTTTATATA
*
11589984 GTTTATATCATTTTAATAATTTTTATGAT-
1 TTTTATAT-ATTTTAATAATTTTTAT-ATA
11590013 TTTTATATAATTTTAATAATTTTTATATAA
1 TTTTATAT-ATTTTAATAATTTTTATAT-A
11590043 TTTTATATATTTTAATA
1 TTTTATATATTTTAATA
11590060 TGTGTCGAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
27 2 0.03
28 21 0.32
29 34 0.52
30 8 0.12
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTTATATATTTTAATAATTTTTATATA
Found at i:11590056 original size:9 final size:10
Alignment explanation
Indices: 11589965--11590056 Score: 86
Period size: 10 Copynumber: 9.5 Consensus size: 10
11589955 TTTTTATGAT
*
11589965 TTTTTTATAA
1 TTTTATATAA
*
11589975 -TTTGTATAA
1 TTTTATATAA
* *
11589984 GTTTATATCA
1 TTTTATATAA
11589994 TTTTA-ATAA
1 TTTTATATAA
*
11590003 TTTT-TATGAT
1 TTTTATAT-AA
11590013 TTTTATATAA
1 TTTTATATAA
11590023 TTTTA-ATAA
1 TTTTATATAA
11590032 TTTTTATATAA
1 -TTTTATATAA
11590043 TTTTATAT-A
1 TTTTATATAA
11590052 TTTTA
1 TTTTA
11590057 ATATGTGTCG
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
9 27 0.39
10 35 0.51
11 7 0.10
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTTATATAA
Found at i:11592454 original size:21 final size:20
Alignment explanation
Indices: 11592420--11592460 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11592410 TAAATTAGGC
11592420 TTTTTGGGTTTAATGTATTT
1 TTTTTGGGTTTAATGTATTT
* *
11592440 TTTTTGGTTTGTAATTTATTT
1 TTTTTGGGTT-TAATGTATTT
11592461 GTAAACTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.15, C:0.00, G:0.17, T:0.68
Consensus pattern (20 bp):
TTTTTGGGTTTAATGTATTT
Found at i:11592514 original size:9 final size:8
Alignment explanation
Indices: 11592500--11592610 Score: 82
Period size: 9 Copynumber: 12.6 Consensus size: 8
11592490 TTACAATATG
11592500 TTTTATTAA
1 TTTTA-TAA
11592509 TTTTATACA
1 TTTTATA-A
11592518 TTTTATAA
1 TTTTATAA
11592526 -TTTATAA
1 TTTTATAA
11592533 -TTTATAA
1 TTTTATAA
*
11592540 TTTTTATAT
1 -TTTTATAA
11592549 TTTTATAA
1 TTTTATAA
11592557 TATTTATAATA
1 T-TTTAT-A-A
11592568 TGTTTATAA
1 T-TTTATAA
11592577 TGTTTATATA
1 T-TTTATA-A
11592587 TTTATATCAA
1 TTT-TAT-AA
*
11592597 TTTTCATAT
1 TTTT-ATAA
11592606 TTTTA
1 TTTTA
11592611 AATATTAATA
Statistics
Matches: 88, Mismatches: 4, Indels: 21
0.78 0.04 0.19
Matches are distributed among these distances:
7 14 0.16
8 12 0.14
9 41 0.47
10 13 0.15
11 8 0.09
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (8 bp):
TTTTATAA
Found at i:11592528 original size:17 final size:16
Alignment explanation
Indices: 11592500--11592610 Score: 82
Period size: 20 Copynumber: 6.3 Consensus size: 16
11592490 TTACAATATG
11592500 TTTTATTAATTTTATACA
1 TTTTA-TAATTTTATA-A
11592518 TTTTATAA-TTTATAA
1 TTTTATAATTTTATAA
*
11592533 -TTTATAATTTTTATAT
1 TTTTATAA-TTTTATAA
11592549 TTTTATAATATTTATAATA
1 TTTTATAAT-TTTAT-A-A
11592568 TGTTTATAATGTTTATATA
1 T-TTTATAAT-TTTATA-A
*
11592587 TTTATATCAATTTTCATAT
1 TTT-TAT-AATTTT-ATAA
11592606 TTTTA
1 TTTTA
11592611 AATATTAATA
Statistics
Matches: 79, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
14 7 0.09
15 1 0.01
16 13 0.16
17 15 0.19
18 10 0.13
19 14 0.18
20 19 0.24
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTTATAATTTTATAA
Found at i:11592610 original size:28 final size:26
Alignment explanation
Indices: 11592495--11592621 Score: 86
Period size: 28 Copynumber: 4.8 Consensus size: 26
11592485 GGCCATTACA
11592495 ATATGTTTTAT-TAATTT-TATACATTTT
1 ATAT-TTTTATAT-ATTTATATA-ATTTT
* *
11592522 ATA-ATTTATA-ATTTATA-ATTTTT
1 ATATTTTTATATATTTATATAATTTT
11592545 ATATTTTTATAATATTTATA-ATATGTTT
1 ATATTTTTAT-ATATTTATATA-AT-TTT
*
11592573 ATAATGTTTATATATTTATATCAATTTT
1 AT-ATTTTTATATATTTATAT-AATTTT
* *
11592601 CATATTTTTAAATATTAATAT
1 -ATATTTTTATATATTTATAT
11592622 TTTTTTGATA
Statistics
Matches: 81, Mismatches: 8, Indels: 21
0.74 0.07 0.19
Matches are distributed among these distances:
23 7 0.09
24 10 0.12
25 8 0.10
26 8 0.10
27 4 0.05
28 32 0.40
29 11 0.14
30 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (26 bp):
ATATTTTTATATATTTATATAATTTT
Found at i:11603552 original size:17 final size:18
Alignment explanation
Indices: 11603538--11603572 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11603528 TCATAATTTC
11603538 TATTAAAT-TATAATTAT
1 TATTAAATGTATAATTAT
*
11603555 TTTTAAATGTATAATTAT
1 TATTAAATGTATAATTAT
11603573 CATAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TATTAAATGTATAATTAT
Found at i:11603552 original size:44 final size:44
Alignment explanation
Indices: 11603496--11603585 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
11603486 TAATTGTAAT
* * *
11603496 TTAAATTCTAATTGTTTTTAAATGTGTAACTATCATAATTTCTA
1 TTAAATTATAATTATTTTTAAATGTATAACTATCATAATTTCTA
* *
11603540 TTAAATTATAATTATTTTTAAATGTATAATTATCATAATTTTTA
1 TTAAATTATAATTATTTTTAAATGTATAACTATCATAATTTCTA
11603584 TT
1 TT
11603586 TTATTTCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTATAACTATCATAATTTCTA
Found at i:11603580 original size:24 final size:24
Alignment explanation
Indices: 11603510--11603583 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
11603500 ATTCTAATTG
* *
11603510 TTTTTAAATGTGTAACTATCATAA
1 TTTTTAAATGTATAATTATCATAA
* * *
11603534 TTTCT--AT-TA-AATTATAATTA
1 TTTTTAAATGTATAATTATCATAA
11603554 TTTTTAAATGTATAATTATCATAA
1 TTTTTAAATGTATAATTATCATAA
11603578 TTTTTA
1 TTTTTA
11603584 TTTTATTTCA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 12 0.32
21 1 0.03
22 4 0.11
23 2 0.05
24 19 0.50
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTTTAAATGTATAATTATCATAA
Found at i:11605391 original size:20 final size:20
Alignment explanation
Indices: 11605366--11605406 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11605356 TTTTTTATTT
*
11605366 ACAAAAATATACAAAAAAAA
1 ACAAAAACATACAAAAAAAA
* *
11605386 ACAAAAACCTGCAAAAAAAA
1 ACAAAAACATACAAAAAAAA
11605406 A
1 A
11605407 AAACCTGACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.76, C:0.15, G:0.02, T:0.07
Consensus pattern (20 bp):
ACAAAAACATACAAAAAAAA
Found at i:11605403 original size:17 final size:17
Alignment explanation
Indices: 11605380--11605413 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
11605370 AAATATACAA
11605380 AAAAAAACAAAAACCTGC
1 AAAAAAA-AAAAACCTGC
11605398 AAAAAAAAAAAACCTG
1 AAAAAAAAAAAACCTG
11605414 ACAACAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.18, G:0.06, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAAAACCTGC
Found at i:11605479 original size:27 final size:27
Alignment explanation
Indices: 11605443--11605499 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
11605433 AATCACATTG
*
11605443 GGCGGCACCAAAGGTGCCAAAGTGATT
1 GGCGGCACCAAAGGTGCCAAAGAGATT
11605470 GGCGGCACCAAAGGTGCCAAAGAGATT
1 GGCGGCACCAAAGGTGCCAAAGAGATT
11605497 GGC
1 GGC
11605500 CTGATTGGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.23, G:0.35, T:0.12
Consensus pattern (27 bp):
GGCGGCACCAAAGGTGCCAAAGAGATT
Found at i:11606199 original size:19 final size:19
Alignment explanation
Indices: 11606175--11606237 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
11606165 TCTAATTAAG
11606175 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
* * ** ***
11606194 TAATAAGTTTATTAAAAAG
1 TAATAACTCTATTTTACTT
11606213 TAATAACTCTATTTTACTT
1 TAATAACTCTATTTTACTT
11606232 TAATAA
1 TAATAA
11606238 ACTATTGCTT
Statistics
Matches: 30, Mismatches: 14, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATAACTCTATTTTACTT
Found at i:11606665 original size:27 final size:27
Alignment explanation
Indices: 11606627--11606686 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
11606617 GTCCGGTCAG
*
11606627 GCCAATCTCTTTGGCACCTTTGGTGCC
1 GCCAATCACTTTGGCACCTTTGGTGCC
11606654 GCCAATCACTTTGGCACCTTTGGTGCC
1 GCCAATCACTTTGGCACCTTTGGTGCC
11606681 GCCAAT
1 GCCAAT
11606687 GTGATTGCCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.15, C:0.33, G:0.22, T:0.30
Consensus pattern (27 bp):
GCCAATCACTTTGGCACCTTTGGTGCC
Found at i:11606732 original size:15 final size:16
Alignment explanation
Indices: 11606712--11606741 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11606702 AGGCTGTTGT
11606712 CAGGTTTTT-TTTTTA
1 CAGGTTTTTGTTTTTA
11606727 CAGGTTTTTGTTTTT
1 CAGGTTTTTGTTTTT
11606742 TGTTTTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.10, C:0.07, G:0.17, T:0.67
Consensus pattern (16 bp):
CAGGTTTTTGTTTTTA
Found at i:11607316 original size:21 final size:21
Alignment explanation
Indices: 11607264--11607316 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
11607254 AATTATCATT
*
11607264 TTTAGAATTAAATTTTTTTATAA
1 TTTA-AATT-AATTTTTTTAAAA
**
11607287 TTTTTATTAATTTTTTTAAAA
1 TTTAAATTAATTTTTTTAAAA
11607308 TTTAAATTA
1 TTTAAATTA
11607317 TTTACTAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 19 0.76
22 3 0.12
23 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTAAATTAATTTTTTTAAAA
Found at i:11614327 original size:23 final size:24
Alignment explanation
Indices: 11614299--11614353 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
11614289 GGAAGTTTTA
*
11614299 AAATTTTTTAAAAAAT-AATCAAT
1 AAATTTTTTAAAAAATAAATCAAC
* *
11614322 AAATTTATTCAAAAATAAATCAAC
1 AAATTTTTTAAAAAATAAATCAAC
*
11614346 ATATTTTT
1 AAATTTTT
11614354 AACTTACATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (24 bp):
AAATTTTTTAAAAAATAAATCAAC
Found at i:11614335 original size:24 final size:23
Alignment explanation
Indices: 11614303--11614353 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
11614293 GTTTTAAAAT
*
11614303 TTTTTAAAAAAT-AATCAATAAA
1 TTTTTCAAAAATAAATCAATAAA
* *
11614325 TTTATTCAAAAATAAATCAACATA
1 TTT-TTCAAAAATAAATCAATAAA
11614349 TTTTT
1 TTTTT
11614354 AACTTACATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 3 0.12
23 10 0.42
24 11 0.46
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTTTCAAAAATAAATCAATAAA
Found at i:11615434 original size:23 final size:23
Alignment explanation
Indices: 11615396--11615446 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
11615386 ACTTCGTATA
* *
11615396 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
11615419 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
11615442 AGTAA
1 TGTAA
11615447 AAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:11625372 original size:26 final size:26
Alignment explanation
Indices: 11625341--11625396 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
11625331 ATAATAGCCA
* *
11625341 TAATTAGGAAGTTCACAAAGAACTTT
1 TAATTAGGAAGCTCACAAAGAACCTT
* *
11625367 TAATTAGGAAGCTCACGAAGAGCCTT
1 TAATTAGGAAGCTCACAAAGAACCTT
11625393 TAAT
1 TAAT
11625397 CAAGAGCTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (26 bp):
TAATTAGGAAGCTCACAAAGAACCTT
Found at i:11629800 original size:2 final size:2
Alignment explanation
Indices: 11629793--11629825 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11629783 CATGACATGC
11629793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11629826 AAAGCCTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11634120 original size:22 final size:23
Alignment explanation
Indices: 11634094--11634150 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
11634084 ATACTCATTT
11634094 AATGGTATCAG-TAATTCTCATA
1 AATGGTATCAGATAATTCTCATA
* *
11634116 AATGGTAT-TGATCATTCTCATA
1 AATGGTATCAGATAATTCTCATA
*
11634138 GATGGTATC-GATA
1 AATGGTATCAGATA
11634151 CCGCTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (23 bp):
AATGGTATCAGATAATTCTCATA
Found at i:11640517 original size:23 final size:22
Alignment explanation
Indices: 11640473--11640515 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11640463 ACATATGCAC
11640473 ATACTTACATTTTTATTTTATA
1 ATACTTACATTTTTATTTTATA
*
11640495 ATACTTACAGTTTT-TTTTATA
1 ATACTTACATTTTTATTTTATA
11640516 TATGTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (22 bp):
ATACTTACATTTTTATTTTATA
Found at i:11643120 original size:43 final size:43
Alignment explanation
Indices: 11643054--11643182 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 43
11643044 ATAGGATTTC
* *
11643054 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGACGTTGGGAT
1 CGATATATGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * *
11643097 CGATGTATGTTTAGGTGTAAGACC-CTGTCTGAGACAG-TGGCAT
1 CGATATATGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* *
11643140 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATATGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
11643183 TGTACGAGTT
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
42 2 0.03
43 63 0.90
44 5 0.07
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.29
Consensus pattern (43 bp):
CGATATATGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:11648628 original size:75 final size:75
Alignment explanation
Indices: 11648529--11648684 Score: 258
Period size: 75 Copynumber: 2.1 Consensus size: 75
11648519 ATTAGGGGCC
* * * *
11648529 TCAAAACGACAACGTTTTAAAGAAAAGCAAATGTTTCAAACTACGCGTGTAAATGTACATGTCTG
1 TCAATACGACAACATTTCAAAGAAAAGCAAATGTTTCAAACCACGCGTGTAAATGTACATGTCTG
11648594 CAATAATAAA
66 CAATAATAAA
11648604 TCAATACGACAACATTTCAAAGAAAAGCAAATGTTTCAAACCACGCGTGTAAATGTACATGTCTG
1 TCAATACGACAACATTTCAAAGAAAAGCAAATGTTTCAAACCACGCGTGTAAATGTACATGTCTG
* *
11648669 CAATAGTTAA
66 CAATAATAAA
11648679 TCAATA
1 TCAATA
11648685 ATTTTCAATA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (75 bp):
TCAATACGACAACATTTCAAAGAAAAGCAAATGTTTCAAACCACGCGTGTAAATGTACATGTCTG
CAATAATAAA
Found at i:11648749 original size:30 final size:30
Alignment explanation
Indices: 11648715--11648776 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
11648705 TTTATTTGGC
*
11648715 ATATAA-GCTAGTTTTAATGTTTAATTTAGT
1 ATATAATGCTA-TTTTAATATTTAATTTAGT
**
11648745 ATATAATTTTATTTTAATATTTAATTTAGT
1 ATATAATGCTATTTTAATATTTAATTTAGT
11648775 AT
1 AT
11648777 TTGATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (30 bp):
ATATAATGCTATTTTAATATTTAATTTAGT
Found at i:11648755 original size:18 final size:18
Alignment explanation
Indices: 11648729--11648771 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11648719 AAGCTAGTTT
*
11648729 TAATGTTTAATTTAGTATA
1 TAAT-TTTAATTTAATATA
* *
11648748 TAATTTTATTTTAATATT
1 TAATTTTAATTTAATATA
11648766 TAATTT
1 TAATTT
11648772 AGTATTTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
TAATTTTAATTTAATATA
Found at i:11648784 original size:30 final size:28
Alignment explanation
Indices: 11648726--11648795 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 28
11648716 TATAAGCTAG
11648726 TTTTAATGTTTAATTTAGTATATAATTTT
1 TTTTAAT-TTTAATTTAGTATATAATTTT
* *
11648755 ATTTTAATATTTAATTTAGTATTTGATTTT
1 -TTTTAAT-TTTAATTTAGTATATAATTTT
11648785 TTTTAATTTTA
1 TTTTAATTTTA
11648796 TACTTGAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 4 0.11
29 7 0.19
30 26 0.70
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (28 bp):
TTTTAATTTTAATTTAGTATATAATTTT
Found at i:11651518 original size:10 final size:10
Alignment explanation
Indices: 11651468--11651535 Score: 61
Period size: 10 Copynumber: 7.0 Consensus size: 10
11651458 ATATATTTAG
11651468 AAAATTATA-
1 AAAATTATAT
* *
11651477 AAAATAATTT
1 AAAATTATAT
11651487 AAAATTATA-
1 AAAATTATAT
* *
11651496 AAAATAATTT
1 AAAATTATAT
11651506 AAAATTATAT
1 AAAATTATAT
*
11651516 AAAAGTAT-T
1 AAAATTATAT
11651525 AAAATTGATAT
1 AAAATT-ATAT
11651536 TTTAAATAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
9 20 0.44
10 24 0.53
11 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (10 bp):
AAAATTATAT
Found at i:11651530 original size:19 final size:19
Alignment explanation
Indices: 11651454--11651519 Score: 96
Period size: 19 Copynumber: 3.3 Consensus size: 19
11651444 CAAGATTTCA
11651454 AAAAATATATTTAGAAAATTAT
1 AAAAATA-ATTT--AAAATTAT
11651476 AAAAATAATTTAAAATTAT
1 AAAAATAATTTAAAATTAT
11651495 AAAAATAATTTAAAATTAT
1 AAAAATAATTTAAAATTAT
11651514 ATAAAA
1 A-AAAA
11651520 GTATTAAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 28 0.65
20 4 0.09
21 4 0.09
22 7 0.16
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATAATTTAAAATTAT
Found at i:11654295 original size:6 final size:6
Alignment explanation
Indices: 11654284--11654312 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
11654274 GCAGAGCAAT
11654284 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
11654313 TGCAATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:11654433 original size:151 final size:150
Alignment explanation
Indices: 11654160--11654433 Score: 458
Period size: 151 Copynumber: 1.8 Consensus size: 150
11654150 TGTTCCAAGG
* * *
11654160 AAATGCAATTCAAAATGCTATCAAATTCGTGTTCTACCTGTTCTAAATAAAAAACATGTAAGTAG
1 AAATGCAATTCAAAATGCTATCAAACTCGTGTTCTACCTGTTATAAATAAAAAACATGTAAGTAA
* * *
11654225 TAGCTCTAAATTACCTCCACACATTTCATGCCCTATATTTTGGCTAAAAGCAGAGCAATAAAAAG
66 TAGCTCTAAAATACCCCCACACATTTCATACCCTATATTTTGGCTAAAAGCAGAGCAATAAAAAG
11654290 AAAAAGAAAAAGAAAAAGAA
131 AAAAAGAAAAAGAAAAAGAA
*
11654310 AAATGCAATTCAAAATGCTATCAGACTCGTGTTCTACCTGTTATAAATAAAAAAACATGTAAGTA
1 AAATGCAATTCAAAATGCTATCAAACTCGTGTTCTACCTGTTATAAAT-AAAAAACATGTAAGTA
* *
11654375 ATAGTTCTAAAATACCCCCACACATTTCATATCCTATATTTTGGCTAAAAGCAGAGCAA
65 ATAGCTCTAAAATACCCCCACACATTTCATACCCTATATTTTGGCTAAAAGCAGAGCAA
11654434 AAACAAAAAT
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
150 45 0.39
151 69 0.61
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (150 bp):
AAATGCAATTCAAAATGCTATCAAACTCGTGTTCTACCTGTTATAAATAAAAAACATGTAAGTAA
TAGCTCTAAAATACCCCCACACATTTCATACCCTATATTTTGGCTAAAAGCAGAGCAATAAAAAG
AAAAAGAAAAAGAAAAAGAA
Found at i:11661467 original size:18 final size:19
Alignment explanation
Indices: 11661444--11661491 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
11661434 TTCTAACAGT
11661444 ATTTTATTTATATTTAA-A
1 ATTTTATTTATATTTAACA
*
11661462 ATTTTA-ATATATTTAATCA
1 ATTTTATTTATATTTAA-CA
*
11661481 TTTTTATTTAT
1 ATTTTATTTAT
11661492 GTAACAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 9 0.38
18 6 0.25
19 6 0.25
20 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTATTTATATTTAACA
Found at i:11666545 original size:21 final size:22
Alignment explanation
Indices: 11666520--11666561 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11666510 TGCTCTTTTC
*
11666520 TTTTCCTTT-TTTTGAGCATAT
1 TTTTCATTTATTTTGAGCATAT
11666541 TTTTCATTTATTTTGAGCATA
1 TTTTCATTTATTTTGAGCATA
11666562 AGTTTCTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.19, C:0.12, G:0.10, T:0.60
Consensus pattern (22 bp):
TTTTCATTTATTTTGAGCATAT
Found at i:11666567 original size:22 final size:21
Alignment explanation
Indices: 11666521--11666567 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
11666511 GCTCTTTTCT
* **
11666521 TTTCCTTTTTTTGAGCATATT
1 TTTCATTTTTTTGAGCATAAG
11666542 TTTCATTTATTTTGAGCATAAG
1 TTTCATTT-TTTTGAGCATAAG
11666564 TTTC
1 TTTC
11666568 TACAAGTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.19, C:0.13, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTCATTTTTTTGAGCATAAG
Found at i:11666879 original size:348 final size:349
Alignment explanation
Indices: 11666210--11666902 Score: 1239
Period size: 348 Copynumber: 2.0 Consensus size: 349
11666200 TTCATTTACA
*
11666210 ATAAGTTTCAACAAGTTTCAGTTTGTAAAAGGAGACACTAAAGTCACATAGGACTTAGTGGCTTG
1 ATAAGTTTCAACAAGTTTCAGTTTATAAAAGGAGACACTAAAGTCACATAGGACTTAGTGGCTTG
11666275 TAACGTTCTGAGGCTTAGGTTGGTACAGATTCAAAGAAATTTTATCTTAAAACTGTTCAAGCACT
66 TAACGTTCTGAGGCTTAGGTTGGTACAGATTCAAAGAAATTTTATCTTAAAACTGTTCAAGCACT
* *
11666340 ATGAACAACATAACTCACGACATTGTTCCCAATTCCCCCCCAATTGTGATCGTTTCATCTCACCG
131 ATCAACAACATAACTCACGAAATTGTTCCCAATTCCCCCCCAATTGTGATCGTTTCATCTCACCG
* *
11666405 CCTTATTTCTCCTTCTATCACCTTTCTTATCTCTCCAACAATGTGGAAGAGATGACTTGATATTA
196 CCTTATTTCTCCTTCTATCACATTTCTTATCTCTCCAACAATGTGGAAGAGATGACCTGATATTA
11666470 GCTTATTTTTGTGCACTATGATTTTGAGGCATTAATGTTATGCTCTTTTCTTTTCCTTTTTTTGA
261 GCTTATTTTTGTGCACTATGATTTTGAGGCATTAATGTTATGCTCTTTTCTTTTCCTTTTTTTGA
11666535 GCATATTTTTCATTTATTTTGAGC
326 GCATATTTTTCATTTATTTTGAGC
* * *
11666559 ATAAGTTTCTACAAGTTTC-GATTTATAAAAGGAGACACTAAGGTCACATAGGATTTAGTGGCTT
1 ATAAGTTTCAACAAGTTTCAG-TTTATAAAAGGAGACACTAAAGTCACATAGGACTTAGTGGCTT
11666623 GTAACGTTCTGAGGCTTAGGTTGGTACAGATTCAAAGAAATTTTATCTTAAAA-TGGTTCAAGCA
65 GTAACGTTCTGAGGCTTAGGTTGGTACAGATTCAAAGAAATTTTATCTTAAAACT-GTTCAAGCA
* *
11666687 CTATCAACAACATAACTCGCGAAATTGTTCCCAATT-TCCCCCAATTGTGATCGTTTCATCTCAC
129 CTATCAACAACATAACTCACGAAATTGTTCCCAATTCCCCCCCAATTGTGATCGTTTCATCTCAC
11666751 CGCCTTATTTCTCCTTCTATCACATTTCTTATCTCTCCAACAATGTGGAAGAGATGACCTGATAT
194 CGCCTTATTTCTCCTTCTATCACATTTCTTATCTCTCCAACAATGTGGAAGAGATGACCTGATAT
*
11666816 TAGCTTATTTTTGTGCACTATGATTTTGAGGCATTAATGTTATGCTCTTTTCTTTTTCTTTTTTT
259 TAGCTTATTTTTGTGCACTATGATTTTGAGGCATTAATGTTATGCTCTTTTCTTTTCCTTTTTTT
*
11666881 GAGCATATTTTTCATTTGTTTT
324 GAGCATATTTTTCATTTATTTT
11666903 TTCTTTTCTC
Statistics
Matches: 330, Mismatches: 12, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
348 177 0.54
349 153 0.46
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (349 bp):
ATAAGTTTCAACAAGTTTCAGTTTATAAAAGGAGACACTAAAGTCACATAGGACTTAGTGGCTTG
TAACGTTCTGAGGCTTAGGTTGGTACAGATTCAAAGAAATTTTATCTTAAAACTGTTCAAGCACT
ATCAACAACATAACTCACGAAATTGTTCCCAATTCCCCCCCAATTGTGATCGTTTCATCTCACCG
CCTTATTTCTCCTTCTATCACATTTCTTATCTCTCCAACAATGTGGAAGAGATGACCTGATATTA
GCTTATTTTTGTGCACTATGATTTTGAGGCATTAATGTTATGCTCTTTTCTTTTCCTTTTTTTGA
GCATATTTTTCATTTATTTTGAGC
Found at i:11674982 original size:23 final size:24
Alignment explanation
Indices: 11674935--11674984 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
11674925 TTTTAATTAC
*
11674935 CAAGTTTTTTATTAAGTTTTGCAT
1 CAAGTTCTTTATTAAGTTTTGCAT
11674959 CAAGTTCTTT-TTAAGCTTTT-CAT
1 CAAGTTCTTTATTAAG-TTTTGCAT
11674982 CAA
1 CAA
11674985 ATCTTTTCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (24 bp):
CAAGTTCTTTATTAAGTTTTGCAT
Found at i:11675010 original size:14 final size:13
Alignment explanation
Indices: 11674988--11675025 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
11674978 TCATCAAATC
*
11674988 TTTTCATCAAGTGT
1 TTTTAATCAAGT-T
11675002 TTTTAATCAA-TT
1 TTTTAATCAAGTT
11675014 TTTTAATCAAGT
1 TTTTAATCAAGT
11675026 CATAAATGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
13 2 0.09
14 9 0.41
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.53
Consensus pattern (13 bp):
TTTTAATCAAGTT
Found at i:11683372 original size:21 final size:22
Alignment explanation
Indices: 11683348--11683396 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
11683338 GATTTTAACA
11683348 AAAGATTTGT-TAA-TAATCATG
1 AAAGATTTGTCTAATTAAT-ATG
*
11683369 AAAGA-TTGTCTAATTAATTTG
1 AAAGATTTGTCTAATTAATATG
11683390 AAAGATT
1 AAAGATT
11683397 AATATCGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 15 0.62
22 5 0.21
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.39
Consensus pattern (22 bp):
AAAGATTTGTCTAATTAATATG
Found at i:11689986 original size:30 final size:31
Alignment explanation
Indices: 11689923--11689987 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
11689913 CAAAATAGTT
* * *
11689923 ACTGAATTATTTGAAAGTTTTCATTTTAGTC
1 ACTGAAATATTAGAAAGTTTTCATTTAAGTC
*
11689954 ACTGAAATATTAGAAAGTTTTTA-TTAAGTC
1 ACTGAAATATTAGAAAGTTTTCATTTAAGTC
11689984 ACTG
1 ACTG
11689988 GACTGTTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (31 bp):
ACTGAAATATTAGAAAGTTTTCATTTAAGTC
Found at i:11690976 original size:52 final size:54
Alignment explanation
Indices: 11690899--11691004 Score: 180
Period size: 52 Copynumber: 2.0 Consensus size: 54
11690889 AAAATTTAGA
11690899 TAATTTGCATACTAACCATGATTAAAATTGTTTCAATTTC-TTTACTT-TAAAT
1 TAATTTGCATACTAACCATGATTAAAATTGTTTCAATTTCTTTTACTTATAAAT
* *
11690951 TAATTTGCATTCTAACCATGCTTAAAATTGTTTCAATTTCTTTTACTTATAAAT
1 TAATTTGCATACTAACCATGATTAAAATTGTTTCAATTTCTTTTACTTATAAAT
11691005 ATTTAAAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
52 38 0.76
53 7 0.14
54 5 0.10
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (54 bp):
TAATTTGCATACTAACCATGATTAAAATTGTTTCAATTTCTTTTACTTATAAAT
Found at i:11693137 original size:14 final size:15
Alignment explanation
Indices: 11693111--11693139 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11693101 TTTGTTCATC
11693111 TTTAAATATTAAATA
1 TTTAAATATTAAATA
11693126 TTTAAA-ATTAAATA
1 TTTAAATATTAAATA
11693140 GTAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAAATATTAAATA
Found at i:11695318 original size:20 final size:20
Alignment explanation
Indices: 11695293--11695333 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
11695283 TAATAAACCG
11695293 ACAACAAATAGGTGAAGTAA
1 ACAACAAATAGGTGAAGTAA
11695313 ACAACAAATAGGTGAAGTAA
1 ACAACAAATAGGTGAAGTAA
11695333 A
1 A
11695334 TAAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.10, G:0.20, T:0.15
Consensus pattern (20 bp):
ACAACAAATAGGTGAAGTAA
Found at i:11696329 original size:16 final size:16
Alignment explanation
Indices: 11696308--11696343 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11696298 TTTGGTTCGC
11696308 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11696324 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11696340 TGTA
1 TGTA
11696344 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:11696600 original size:18 final size:17
Alignment explanation
Indices: 11696579--11696613 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11696569 TTATTATTAA
*
11696579 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11696597 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11696614 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:11696705 original size:120 final size:120
Alignment explanation
Indices: 11696559--11696974 Score: 753
Period size: 120 Copynumber: 3.5 Consensus size: 120
11696549 TTAATCATAT
11696559 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
11696624 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
11696679 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
11696744 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
* *
11696799 ATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
11696864 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAA
66 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
* *
11696919 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
11696975 TAAAATAATT
Statistics
Matches: 286, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
120 284 0.99
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
Found at i:11696720 original size:18 final size:17
Alignment explanation
Indices: 11696699--11696733 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11696689 TTATTATTAA
*
11696699 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11696717 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11696734 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:11696847 original size:14 final size:15
Alignment explanation
Indices: 11696798--11696849 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
11696788 GTAAAATATA
11696798 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
11696813 TATTAAATATATTAT
1 AATTAAATATATTAT
11696828 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
11696841 AATTTAATA
1 AATTAAATA
11696850 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:11697061 original size:24 final size:25
Alignment explanation
Indices: 11697015--11697062 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
11697005 TATGAATTTG
11697015 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
11697041 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
11697063 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:11697066 original size:92 final size:92
Alignment explanation
Indices: 11696970--11697198 Score: 236
Period size: 92 Copynumber: 2.5 Consensus size: 92
11696960 TGATTTAATA
* * *
11696970 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTGTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
11697032 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
11697062 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
11697127 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* * *
11697152 ATAATTTCATAAAATTCTTAATAATAAAATGT-TCTTATATGAATTTA
1 A-AATTTCAAAAAATTCATAATAAT-AAAT-TATATTATATGAATTTA
11697199 CTAAAATCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
90 2 0.02
91 27 0.23
92 81 0.68
93 9 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:11700132 original size:25 final size:25
Alignment explanation
Indices: 11700111--11700159 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
11700101 TTACACATTA
11700111 TCAAATAAAAATAAACAGCACAAAAT
1 TCAAATAAAAATAAACA-CACAAAAT
*
11700137 TTAAATAAAAATAAACACACAAA
1 TCAAATAAAAATAAACACACAAA
11700160 CCTTTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.67, C:0.14, G:0.02, T:0.16
Consensus pattern (25 bp):
TCAAATAAAAATAAACACACAAAAT
Found at i:11711180 original size:16 final size:17
Alignment explanation
Indices: 11711150--11711192 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
11711140 TTTCAATTCA
*
11711150 CTATATCAATTCCATTT
1 CTATATCAATGCCATTT
11711167 CTATA-CAATGCCATTT
1 CTATATCAATGCCATTT
*
11711183 CAATATCAAT
1 CTATATCAAT
11711193 TATAAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (17 bp):
CTATATCAATGCCATTT
Found at i:11711354 original size:41 final size:40
Alignment explanation
Indices: 11711293--11711372 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 40
11711283 GTGCCTTATC
* *
11711293 GAATAATTCGAAGTAGTAAATTGACAACCAGTGTCTCATT
1 GAATAATCCGAAGTAATAAATTGACAACCAGTGTCTCATT
* *
11711333 GAATAAATCCGAAGTAATAAATTGGCACCCAGTGTCTCAT
1 GAAT-AATCCGAAGTAATAAATTGACAACCAGTGTCTCAT
11711373 CGGTTAAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 4 0.11
41 31 0.89
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (40 bp):
GAATAATCCGAAGTAATAAATTGACAACCAGTGTCTCATT
Found at i:11715664 original size:27 final size:29
Alignment explanation
Indices: 11715599--11715666 Score: 99
Period size: 27 Copynumber: 2.5 Consensus size: 29
11715589 ATATATTAAA
11715599 TATATATTTTTAATCAAATATATATATAT
1 TATATATTTTTAATCAAATATATATATAT
11715628 T-T-TATTTTTAATCAAATATATAT-T-T
1 TATATATTTTTAATCAAATATATATATAT
*
11715653 TATATATATTTAAT
1 TATATATTTTTAAT
11715667 ATGGGCTGGG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
25 2 0.06
26 2 0.06
27 30 0.83
28 1 0.03
29 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (29 bp):
TATATATTTTTAATCAAATATATATATAT
Found at i:11726554 original size:25 final size:25
Alignment explanation
Indices: 11726526--11726574 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
11726516 TCTTTAACTT
11726526 AATGAAGAGGGAGGCATTTATTAAA
1 AATGAAGAGGGAGGCATTTATTAAA
11726551 AATGAAGAGGGAGGCATTTATTAA
1 AATGAAGAGGGAGGCATTTATTAA
11726575 TAGTTGAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.29, T:0.24
Consensus pattern (25 bp):
AATGAAGAGGGAGGCATTTATTAAA
Found at i:11736060 original size:37 final size:37
Alignment explanation
Indices: 11736012--11736092 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
11736002 GGAAACCAAC
*
11736012 ATGAAAG-AAAAATCATGAACTCATATGGCCATTTAG
1 ATGAAAGTAAAAATCATGAACGCATATGGCCATTTAG
11736048 ATGAAAGTAAAAATCATGAACGCATATGGCCATTTAG
1 ATGAAAGTAAAAATCATGAACGCATATGGCCATTTAG
*
11736085 ATTAAAGT
1 ATGAAAGT
11736093 TTTTTGAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
36 7 0.17
37 35 0.83
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.26
Consensus pattern (37 bp):
ATGAAAGTAAAAATCATGAACGCATATGGCCATTTAG
Found at i:11741718 original size:27 final size:26
Alignment explanation
Indices: 11741665--11741731 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
11741655 TTCTAATTAT
* *
11741665 CCACCTGTGTTTATTGTCTCAGTGGA
1 CCACCTGTGTTTAGTGTCTCAGCGGA
*
11741691 CTAGCCTGTGTTTAGTGTCTC-GACGGA
1 CCA-CCTGTGTTTAGTGTCTCAG-CGGA
11741718 CCACCTCGTGTTTA
1 CCACCT-GTGTTTA
11741732 CTCTGTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.36
Consensus pattern (26 bp):
CCACCTGTGTTTAGTGTCTCAGCGGA
Found at i:11756132 original size:24 final size:24
Alignment explanation
Indices: 11756104--11756178 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
11756094 TTTCGAGAAG
*
11756104 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11756128 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
* *
11756152 ATTTAGCATTT-TTAGAATAAAAT
1 ATTTAGCATTTATTAGCATAATAT
11756175 ATTT
1 ATTT
11756179 GTTATTTCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
23 14 0.29
24 34 0.71
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:11756135 original size:14 final size:14
Alignment explanation
Indices: 11756116--11756160 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
11756106 TTAGTATTTA
11756116 TTAGCATAATATAT
1 TTAGCATAATATAT
11756130 TTAGCAT--T-TA-
1 TTAGCATAATATAT
11756140 TTAGCATAATATAT
1 TTAGCATAATATAT
11756154 TTAGCAT
1 TTAGCAT
11756161 TTTTAGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.26
11 2 0.07
12 2 0.07
13 2 0.07
14 14 0.52
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (14 bp):
TTAGCATAATATAT
Found at i:11756554 original size:25 final size:25
Alignment explanation
Indices: 11756503--11756556 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
11756493 AAGAAATAAC
* **
11756503 AAATATATTTATACTAATAAATGCT
1 AAATATATTTATACAAATAAAAACT
11756528 AAATATA-TTATACAAATAAAAAACT
1 AAATATATTTATACAAAT-AAAAACT
11756553 AAAT
1 AAAT
11756557 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (25 bp):
AAATATATTTATACAAATAAAAACT
Found at i:11759743 original size:41 final size:40
Alignment explanation
Indices: 11759698--11759826 Score: 163
Period size: 41 Copynumber: 3.1 Consensus size: 40
11759688 ATATTGCCAA
11759698 TGAATCAATTCAGGCTTAAAGCCTAGCAGGCTAAGTGCCGG
1 TGAATCAA-TCAGGCTTAAAGCCTAGCAGGCTAAGTGCCGG
*
11759739 TGAATTGAATCAGGC-TATAAGCCTAGCAGGCTAAGTGCCGG
1 TGAA-TCAATCAGGCTTA-AAGCCTAGCAGGCTAAGTGCCGG
* * *
11759780 TG-ATCTGAATCAGGCTTTAAGCCTAGTAGGCTAAGTGCCAG
1 TGAATC--AATCAGGCTTAAAGCCTAGCAGGCTAAGTGCCGG
11759821 TGAATC
1 TGAATC
11759827 TGTTTTAATT
Statistics
Matches: 77, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
39 1 0.01
40 3 0.04
41 66 0.86
42 7 0.09
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
TGAATCAATCAGGCTTAAAGCCTAGCAGGCTAAGTGCCGG
Found at i:11760038 original size:38 final size:37
Alignment explanation
Indices: 11759996--11760103 Score: 103
Period size: 38 Copynumber: 2.9 Consensus size: 37
11759986 TTGTTGGATA
11759996 TATATATGTGTGTGCATTCGGCATATGTGAATT-ATAAG
1 TATATAT-TGTGTGCATTCGGCATATGTG-ATTGATAAG
* * * *
11760034 TATATATATATGTGCAGTCGGCACATGTGGTTGATAAG
1 TATATAT-TGTGTGCATTCGGCATATGTGATTGATAAG
* * * *
11760072 TATA-ATTGTTTGCTTTTGGCATATGTGTTTGA
1 TATATATTGTGTGCATTCGGCATATGTGATTGA
11760104 ATATAATATA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
36 19 0.33
37 4 0.07
38 34 0.60
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (37 bp):
TATATATTGTGTGCATTCGGCATATGTGATTGATAAG
Found at i:11766215 original size:39 final size:39
Alignment explanation
Indices: 11766161--11766238 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
11766151 CTCTCCCTAA
*
11766161 ATCCAAATTCGGCATATTGAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
*
11766200 ATCCAAGTTCGGCATATTCAACAACCCAAATGCTAACCT
1 ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
11766239 CAACGTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.23
Consensus pattern (39 bp):
ATCCAAATTCGGCATATTCAACAACCCAAATGCTAACCT
Found at i:11771855 original size:27 final size:27
Alignment explanation
Indices: 11771825--11772253 Score: 436
Period size: 27 Copynumber: 15.9 Consensus size: 27
11771815 AAATAATCGT
* * *
11771825 AATACCCTTGAAGGGTAAAATAATCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
*
11771852 AATACCCTCGAAGGGTAAAATGATCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* * **
11771879 AATAATCC-CGAAGGTTAAAATGACTAA
1 AAT-ACCCTCGAAGGGTAAAATGACCGA
* * * *
11771906 AATAACCTCAAAGGGTAAAATAACTGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* *
11771933 AACACCCTCGAAGGGTAAAATGACCAA
1 AATACCCTCGAAGGGTAAAATGACCGA
*
11771960 AATACCCTCGAAGGGTAAAATGACTGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* **
11771987 AATAACCTCGAAGGGTAAAATGATAGA
1 AATACCCTCGAAGGGTAAAATGACCGA
** * *
11772014 AATATACTCGAA-GGTGAAATTGATCGA
1 AATACCCTCGAAGGGT-AAAATGACCGA
** *
11772041 AATACCC-CTGAAGGGTAATGTGACTGA
1 AATACCCTC-GAAGGGTAAAATGACCGA
* *
11772068 AATACCCTCGAAAGGTAAAATGA-CTA
1 AATACCCTCGAAGGGTAAAATGACCGA
*
11772094 TAATACCCTCGAAGGGTAAAATGACCAA
1 -AATACCCTCGAAGGGTAAAATGACCGA
*
11772122 AATACCCCCGAAGGGTAAAATGACCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* *
11772149 AATACCCTCGAATGGTAAAATAACCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* *
11772176 AGTACCCTCAAAGGGTAAAATGACCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* * * *
11772203 AATACCCCCAAAGGGTAAAATAACCAA
1 AATACCCTCGAAGGGTAAAATGACCGA
*
11772230 AATACCC-CCATAGGGTAAAATGAC
1 AATACCCTCGA-AGGGTAAAATGAC
11772254 TGTTATACTC
Statistics
Matches: 337, Mismatches: 56, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
26 10 0.03
27 318 0.94
28 9 0.03
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (27 bp):
AATACCCTCGAAGGGTAAAATGACCGA
Found at i:11772504 original size:26 final size:26
Alignment explanation
Indices: 11772429--11772504 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
11772419 TCCCACATAT
* * *
11772429 ACTATTACTGGCAGCCTTGCTGCGTT
1 ACTATTACTGGCAGCTTTGCTGTGTC
* *
11772455 ACTGTTACTGGCAGCTTTGTTGTGTC
1 ACTATTACTGGCAGCTTTGCTGTGTC
*
11772481 ATTATTACTGGCAGCTTTGCTGTG
1 ACTATTACTGGCAGCTTTGCTGTG
11772505 ATATTGGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.39
Consensus pattern (26 bp):
ACTATTACTGGCAGCTTTGCTGTGTC
Found at i:11773470 original size:94 final size:94
Alignment explanation
Indices: 11773305--11773496 Score: 341
Period size: 94 Copynumber: 2.1 Consensus size: 94
11773295 GGGTTTGAAA
11773305 ATAT-CCGAAATTTTTTGAAAAGCTATTTTGAATTATTTTTGAAGGTTACAAGTGTGGCACACCG
1 ATATACCGAAATTTTTTGAAAAGCTATTTTGAATTATTTTTGAAGGTTACAAGTGTGGCACACCG
*
11773369 AGTCTCCAGCGCTGAATCTATAAGTTTCT
66 AGTCTCCAGCGCCGAATCTATAAGTTTCT
* * *
11773398 ATATACCGAAATTTTTTGGAAAGTTATTTTGAATTATTTTTGAAGGTTACATGTGTGGCACACCG
1 ATATACCGAAATTTTTTGAAAAGCTATTTTGAATTATTTTTGAAGGTTACAAGTGTGGCACACCG
11773463 AGTCTCCAGCGCCGAATCTATAAGTTTCT
66 AGTCTCCAGCGCCGAATCTATAAGTTTCT
11773492 ATATA
1 ATATA
11773497 TTGTAGACTG
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 4 0.04
94 90 0.96
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (94 bp):
ATATACCGAAATTTTTTGAAAAGCTATTTTGAATTATTTTTGAAGGTTACAAGTGTGGCACACCG
AGTCTCCAGCGCCGAATCTATAAGTTTCT
Found at i:11779822 original size:27 final size:27
Alignment explanation
Indices: 11779792--11780138 Score: 439
Period size: 27 Copynumber: 12.9 Consensus size: 27
11779782 AAATAATCGT
11779792 AATACCCTCGAAGGGTAAAATGACCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* * *
11779819 AATACCCTCAAAAGGTAAAATGACTGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* * * *
11779846 AATACCCCCAAAAGGTAAAATGACTGA
1 AATACCCTCGAAGGGTAAAATGACCGA
*
11779873 AATACTCCT-GAAGGGTAAAATGATCGA
1 AATAC-CCTCGAAGGGTAAAATGACCGA
* * *
11779900 AACACCTTCGAAGGGTAAAATGACTGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* * *
11779927 AATACCCCCAAAGGGTAAAATGATCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
11779954 AATACCCTCGAAGGGTAAAATGACCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
*
11779981 AATACCCT-GAAGGGTAAAATGACCAA
1 AATACCCTCGAAGGGTAAAATGACCGA
* * *
11780007 AATACCCCCAAAGGGTAAAATGATCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
*
11780034 AATACCCTCGAATGGTAAAATGACCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* *
11780061 AGTACCCTCAAAGGGTAAAATGACCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* *
11780088 AATACCCCCGAAGGGTAAAATGACCAA
1 AATACCCTCGAAGGGTAAAATGACCGA
*
11780115 AATACCC-CCATAGGGTAAAATGAC
1 AATACCCTCGA-AGGGTAAAATGAC
11780139 TTTTATACTC
Statistics
Matches: 277, Mismatches: 39, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
26 28 0.10
27 247 0.89
28 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.16
Consensus pattern (27 bp):
AATACCCTCGAAGGGTAAAATGACCGA
Found at i:11779917 original size:81 final size:81
Alignment explanation
Indices: 11779781--11780138 Score: 499
Period size: 81 Copynumber: 4.4 Consensus size: 81
11779771 ATTCGTGGGC
* * * *
11779781 AAAATAATCGTAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCAAAAGGTAAAATGACTGA
1 AAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCGA
*
11779846 AATACCCCCAAAAGGT
66 AATACCCCCAAAGGGT
* * * * *
11779862 AAAATGA-CTGAAATACTCCT-GAAGGGTAAAATGATCGAAACACCTTCGAAGGGTAAAATGACT
1 AAAATGATC-GAAATAC-CCTCGAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACC
11779925 GAAATACCCCCAAAGGGT
64 GAAATACCCCCAAAGGGT
* *
11779943 AAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCT-GAAGGGTAAAATGACCAA
1 AAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCGA
11780007 AATACCCCCAAAGGGT
66 AATACCCCCAAAGGGT
* *
11780023 AAAATGATCGAAATACCCTCGAATGGTAAAATGACCGAAGTACCCTCAAAGGGTAAAATGACCGA
1 AAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCGA
*
11780088 AATACCCCCGAAGGGT
66 AATACCCCCAAAGGGT
* * *
11780104 AAAATGACCAAAATACCC-CCATAGGGTAAAATGAC
1 AAAATGATCGAAATACCCTCGA-AGGGTAAAATGAC
11780139 TTTTATACTC
Statistics
Matches: 249, Mismatches: 22, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
80 82 0.33
81 163 0.65
82 4 0.02
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (81 bp):
AAAATGATCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCGA
AATACCCCCAAAGGGT
Found at i:11780326 original size:26 final size:25
Alignment explanation
Indices: 11780282--11780356 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 25
11780272 TTAGGGGAAG
* *
11780282 TATACTG-TATTAGTGGCTTTGCTCA
1 TATACTGTTATTGGTAGCTTTGCT-A
*
11780307 TATACTGTTATTGGTAGCTTTGCTG
1 TATACTGTTATTGGTAGCTTTGCTA
* * *
11780332 TGTTACTGTTACTGGCAGCTTTGCT
1 T-ATACTGTTATTGGTAGCTTTGCT
11780357 GCGTCATTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 8 0.19
26 34 0.81
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.45
Consensus pattern (25 bp):
TATACTGTTATTGGTAGCTTTGCTA
Found at i:11780357 original size:26 final size:26
Alignment explanation
Indices: 11780309--11780385 Score: 91
Period size: 26 Copynumber: 3.0 Consensus size: 26
11780299 TTTGCTCATA
* * *
11780309 TACTGTTATTGGTAGCTTTGCTGTGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
11780335 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* * * *
11780361 CATTATTACTGACAGCTTTGCTGCG
1 TACTGTTACTGGCAGCTTTGCTGCG
11780386 ATATTGGTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.14, C:0.19, G:0.25, T:0.42
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCGT
Found at i:11782808 original size:40 final size:39
Alignment explanation
Indices: 11782745--11782875 Score: 115
Period size: 37 Copynumber: 3.3 Consensus size: 39
11782735 GTTTGGCACC
* * *
11782745 CAGTGCCTCATTGGATAATTCGAAGTAATAAATTGACACT
1 CAGTGTCTCATCGGATAAATCGAAGT-ATAAATTGACACT
* * *
11782785 CAGTGTCTCATCGGCTAAATCGAAG--TAAATTGGCACC
1 CAGTGTCTCATCGGATAAATCGAAGTATAAATTGACACT
* * * *
11782822 CATTGTTTCATCGAATTAATCTGAAGTAGTAAATTGACA-T
1 CAGTGTCTCATCGGATAAATC-GAAGTA-TAAATTGACACT
11782862 CTAGTGTCTCATCG
1 C-AGTGTCTCATCG
11782876 ACTCGAAGTC
Statistics
Matches: 71, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
37 26 0.37
38 4 0.06
40 22 0.31
41 19 0.27
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (39 bp):
CAGTGTCTCATCGGATAAATCGAAGTATAAATTGACACT
Found at i:11783831 original size:8 final size:8
Alignment explanation
Indices: 11783776--11783929 Score: 226
Period size: 8 Copynumber: 19.4 Consensus size: 8
11783766 TATATTTACT
11783776 TATTATAA
1 TATTATAA
11783784 TA-TATAA
1 TATTATAA
*
11783791 TATAAT-A
1 TATTATAA
11783798 TATATACTTAA
1 TAT-TA--TAA
*
11783809 TAAT-TAA
1 TATTATAA
*
11783816 GA-TATAA
1 TATTATAA
11783823 TATTATAA
1 TATTATAA
11783831 TATTATAA
1 TATTATAA
11783839 TATTATAA
1 TATTATAA
11783847 TATTATAA
1 TATTATAA
11783855 TATTATAA
1 TATTATAA
11783863 TATTATAA
1 TATTATAA
11783871 TATTATAA
1 TATTATAA
11783879 TATTATAA
1 TATTATAA
11783887 TATTATAA
1 TATTATAA
11783895 TATTATAA
1 TATTATAA
11783903 TATTATAA
1 TATTATAA
11783911 TATTATAA
1 TATTATAA
11783919 TATTATAA
1 TATTATAA
11783927 TAT
1 TAT
11783930 ATATTTTAAC
Statistics
Matches: 134, Mismatches: 5, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
6 1 0.01
7 19 0.14
8 109 0.81
10 2 0.01
11 3 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.48
Consensus pattern (8 bp):
TATTATAA
Found at i:11784257 original size:18 final size:18
Alignment explanation
Indices: 11784234--11784269 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11784224 GACACACGCT
*
11784234 GTGTCTTAGGCCGTGTGG
1 GTGTCTCAGGCCGTGTGG
11784252 GTGTCTCAGGCCGTGTGG
1 GTGTCTCAGGCCGTGTGG
11784270 ACCTAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.19, G:0.44, T:0.31
Consensus pattern (18 bp):
GTGTCTCAGGCCGTGTGG
Found at i:11789376 original size:25 final size:23
Alignment explanation
Indices: 11789327--11789376 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
11789317 AATAACAAAG
** *
11789327 ATATTTATACTAATAAATGCTAA
1 ATATTTATACTAATAAAAACCAA
11789350 ATATATTATACTAATAAAAAACCAA
1 ATAT-TTATACTAAT-AAAAACCAA
11789375 AT
1 AT
11789377 CTTCTAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 4 0.18
24 10 0.45
25 8 0.36
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (23 bp):
ATATTTATACTAATAAAAACCAA
Found at i:11789434 original size:17 final size:16
Alignment explanation
Indices: 11789412--11789444 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
11789402 TTAACTTGTC
11789412 TTGCAAGTAAACCTCAT
1 TTGCAAGTAAA-CTCAT
11789429 TTGCAAGTAAACTCAT
1 TTGCAAGTAAACTCAT
11789445 CAAATCCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.30
Consensus pattern (16 bp):
TTGCAAGTAAACTCAT
Found at i:11794876 original size:47 final size:47
Alignment explanation
Indices: 11794813--11801581 Score: 13457
Period size: 47 Copynumber: 144.0 Consensus size: 47
11794803 ATGATAGTAT
11794813 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11794860 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11794907 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11794954 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795001 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795048 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795095 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795142 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795189 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795236 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795283 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795330 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795377 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795424 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795471 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795518 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795565 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795612 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795659 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795706 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795753 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795800 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795847 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795894 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795941 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11795988 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796035 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796082 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796129 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796176 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796223 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796270 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796317 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796364 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796411 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796458 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796505 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796552 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796599 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796646 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796693 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796740 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796787 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796834 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796881 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796928 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11796975 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797022 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797069 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797116 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797163 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797210 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797257 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797304 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797351 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797398 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797445 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797492 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797539 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797586 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797633 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797680 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797727 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797774 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797821 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797868 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797915 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11797962 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798009 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798056 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798103 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798150 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798197 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798244 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798291 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798338 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798385 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798432 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798479 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798526 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798573 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798620 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798667 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798714 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798761 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798808 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
11798855 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798902 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798949 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11798996 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799043 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799090 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799137 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799184 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799231 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799278 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799325 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799372 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799419 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799466 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799513 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799560 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799607 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799654 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799701 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799748 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799795 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799842 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799889 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799936 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11799983 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800030 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800077 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800124 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800171 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800218 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800265 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800312 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800359 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800406 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800453 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800500 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800547 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800594 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800641 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800688 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800735 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800782 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800829 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800876 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800923 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11800970 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11801017 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11801064 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11801111 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11801158 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11801205 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11801252 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11801299 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11801346 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11801393 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11801440 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
11801487 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * *
11801534 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
11801581 G
1 G
11801582 TCCCGAAGGG
Statistics
Matches: 6710, Mismatches: 12, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 6710 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:11801756 original size:37 final size:37
Alignment explanation
Indices: 11801700--11801778 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
11801690 CCGAGCTCTA
* * *
11801700 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
11801737 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
11801774 AAGAC
1 AAGAC
11801779 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:11811573 original size:34 final size:34
Alignment explanation
Indices: 11811530--11811601 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
11811520 AACTGCATGA
11811530 ATTTGAGTTAAAAAGGGCATGAAAAAGTGTGTAT
1 ATTTGAGTTAAAAAGGGCATGAAAAAGTGTGTAT
*
11811564 ATTTGAGTTAAAAAGGGTATGAAAAAGTGTGTAT
1 ATTTGAGTTAAAAAGGGCATGAAAAAGTGTGTAT
11811598 ATTT
1 ATTT
11811602 TCATGTTTCC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.40, C:0.01, G:0.25, T:0.33
Consensus pattern (34 bp):
ATTTGAGTTAAAAAGGGCATGAAAAAGTGTGTAT
Found at i:11821561 original size:48 final size:48
Alignment explanation
Indices: 11821505--11821600 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
11821495 TCACTGATTG
*
11821505 AAGGTGTTCTCATAGGGCCACAAACATCAGAGTGTACCAATTCGAGCT
1 AAGGTGTTCTCATAGGGCCACAAACATCAGAGTGCACCAATTCGAGCT
11821553 AAGGTGTTCTCATAGGGCCACAAACATCAGAGTGCACCAATTCGAGCT
1 AAGGTGTTCTCATAGGGCCACAAACATCAGAGTGCACCAATTCGAGCT
11821601 TGTTTTGAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (48 bp):
AAGGTGTTCTCATAGGGCCACAAACATCAGAGTGCACCAATTCGAGCT
Found at i:11834624 original size:29 final size:29
Alignment explanation
Indices: 11834563--11834624 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
11834553 GGCCAGCCCG
* * *
11834563 TGTGGCCCACACGGTTTCACACATGCCCG
1 TGTGGCCCACACGGTTTCACACACGACCA
*
11834592 TGTGGCTCACACGGTTT-AGCACACGACCA
1 TGTGGCCCACACGGTTTCA-CACACGACCA
11834621 TGTG
1 TGTG
11834625 CTGTCGACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.19, C:0.32, G:0.26, T:0.23
Consensus pattern (29 bp):
TGTGGCCCACACGGTTTCACACACGACCA
Found at i:11836307 original size:29 final size:29
Alignment explanation
Indices: 11836275--11836332 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
11836265 TATCTACAAG
*
11836275 ATAATTAGTAAATTAAATTTAATATTAAA
1 ATAAGTAGTAAATTAAATTTAATATTAAA
*
11836304 ATAAGTATTAAATTAAATTTAATATTAAA
1 ATAAGTAGTAAATTAAATTTAATATTAAA
11836333 TCTATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (29 bp):
ATAAGTAGTAAATTAAATTTAATATTAAA
Found at i:11837950 original size:15 final size:15
Alignment explanation
Indices: 11837930--11837959 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11837920 CTATGCATGC
*
11837930 AAAATATGAAAGACA
1 AAAATATAAAAGACA
11837945 AAAATATAAAAGACA
1 AAAATATAAAAGACA
11837960 TAATCGGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAATATAAAAGACA
Found at i:11841104 original size:19 final size:20
Alignment explanation
Indices: 11841080--11841122 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
11841070 TAAAAATGAA
*
11841080 AATAAAATAA-AATAGTAAC
1 AATAAAATAATAATAATAAC
*
11841099 AAT-AAATAATAATAATAAT
1 AATAAAATAATAATAATAAC
11841118 AATAA
1 AATAA
11841123 TAGGAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 6 0.30
19 13 0.65
20 1 0.05
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AATAAAATAATAATAATAAC
Found at i:11852988 original size:13 final size:13
Alignment explanation
Indices: 11852970--11852998 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11852960 AGCCAAAACT
11852970 CAATTACCCAACC
1 CAATTACCCAACC
11852983 CAATTACCCAACC
1 CAATTACCCAACC
11852996 CAA
1 CAA
11852999 AAAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.45, G:0.00, T:0.14
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:11853152 original size:9 final size:9
Alignment explanation
Indices: 11853140--11853205 Score: 89
Period size: 9 Copynumber: 7.2 Consensus size: 9
11853130 ATAAAAAAAT
11853140 TTCGGGTAA
1 TTCGGGTAA
*
11853149 TTCGGGTATTT
1 TTCGGGTA--A
11853160 TTC-GGTAA
1 TTCGGGTAA
*
11853168 TTCGGTTAA
1 TTCGGGTAA
11853177 TTCGGGTAA
1 TTCGGGTAA
11853186 TTCGGGTAA
1 TTCGGGTAA
11853195 TTCGGGTAA
1 TTCGGGTAA
11853204 TT
1 TT
11853206 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
8 3 0.06
9 40 0.80
10 4 0.08
11 3 0.06
ACGTcount: A:0.20, C:0.11, G:0.29, T:0.41
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:11855048 original size:17 final size:18
Alignment explanation
Indices: 11855026--11855059 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11855016 TTTGGGCCGA
11855026 GTGGG-CCACACGGGCAT
1 GTGGGCCCACACGGGCAT
11855043 GTGGGCCCACACGGGCA
1 GTGGGCCCACACGGGCA
11855060 GGCCACATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.18, C:0.32, G:0.41, T:0.09
Consensus pattern (18 bp):
GTGGGCCCACACGGGCAT
Found at i:11858175 original size:30 final size:28
Alignment explanation
Indices: 11858133--11858209 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 28
11858123 ATGGTTATTG
11858133 GTGACTAGTTTGTTATTTTTCTAAAGTTTA
1 GTGACTA-TTTGTTATTTTTC-AAAGTTTA
* *
11858163 GTGACTGATTTGTAACTTTTCAAAGTTTA
1 GTGACT-ATTTGTTATTTTTCAAAGTTTA
*
11858192 GTGACTATTTTTTATTTT
1 GTGACTATTTGTTATTTT
11858210 AATCAAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 9 0.22
29 14 0.34
30 17 0.41
31 1 0.02
ACGTcount: A:0.23, C:0.08, G:0.16, T:0.53
Consensus pattern (28 bp):
GTGACTATTTGTTATTTTTCAAAGTTTA
Found at i:11859173 original size:3 final size:3
Alignment explanation
Indices: 11859165--11859198 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
11859155 GTGCATCCAT
11859165 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
11859199 CTGTCGTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:11859486 original size:31 final size:29
Alignment explanation
Indices: 11859422--11859487 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
11859412 ACGATAATGT
* *
11859422 AAGTGACTAAAATATAACATTTCAAACAT
1 AAGTGACTAAAATATAACATGTCAAACAA
11859451 AAGTGACTAAAATATAACCCGA-GTCAAACAA
1 AAGTGACTAAAATATAA--C-ATGTCAAACAA
11859482 AAGTGA
1 AAGTGA
11859488 GTATTTTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 17 0.53
31 14 0.44
32 1 0.03
ACGTcount: A:0.52, C:0.15, G:0.12, T:0.21
Consensus pattern (29 bp):
AAGTGACTAAAATATAACATGTCAAACAA
Found at i:11859533 original size:5 final size:5
Alignment explanation
Indices: 11859525--11859559 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
11859515 AAAATAACTA
*
11859525 AATTG AATTAA AATTG AATTG AATTG AATTG AATT
1 AATTG AATT-G AATTG AATTG AATTG AATTG AATT
11859560 AAAAAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (5 bp):
AATTG
Found at i:11867877 original size:29 final size:29
Alignment explanation
Indices: 11867844--11867911 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
11867834 GGGCTTCCGT
*
11867844 ATATAACATATTCAGCCACAAAGG-CTCAC
1 ATATAACAGATTCAGCCAC-AAGGACTCAC
* *
11867873 ATATAACAGATTCTGCCACTAGGACTCAC
1 ATATAACAGATTCAGCCACAAGGACTCAC
11867902 ATATAACAGA
1 ATATAACAGA
11867912 GAATAGCCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (29 bp):
ATATAACAGATTCAGCCACAAGGACTCAC
Found at i:11868022 original size:67 final size:67
Alignment explanation
Indices: 11867950--11868080 Score: 174
Period size: 67 Copynumber: 2.0 Consensus size: 67
11867940 AAGAACATTT
* ***
11867950 ACAAAGGCTTTCACATTTCGATAAATGAAGTTTTCGTTGAT-AGGTATTTGCCTAAACTCAACAT
1 ACAAAGGCTTTCACATTTCGATAAATCAAGTTTTCGAAAATAAGG-ATTTGCCTAAACTCAACAT
11868014 CCC
65 CCC
* * * *
11868017 ACAAAGGCTTTCACATTTTGGTAAATCATGTTTTTGAAAATAAGGATTTGCCTAAACTCAACAT
1 ACAAAGGCTTTCACATTTCGATAAATCAAGTTTTCGAAAATAAGGATTTGCCTAAACTCAACAT
11868081 ATTAAGGTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
67 52 0.95
68 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (67 bp):
ACAAAGGCTTTCACATTTCGATAAATCAAGTTTTCGAAAATAAGGATTTGCCTAAACTCAACATC
CC
Found at i:11886216 original size:25 final size:25
Alignment explanation
Indices: 11886100--11886216 Score: 109
Period size: 25 Copynumber: 4.7 Consensus size: 25
11886090 CATGTATGGC
* *
11886100 CATACGAGCT-ATGAATCAGTATGCT
1 CATACGAGCTGA-GAATCGGTAAGCT
11886125 C-TCACGAGCTGTA-AATCGGTAAGCT
1 CAT-ACGAGCTG-AGAATCGGTAAGCT
* * *
11886150 CAT-CGAGCTAAGAATTGGTAAGCC
1 CATACGAGCTGAGAATCGGTAAGCT
*
11886174 CTTACGAGCTGA-ATATCGGTAAGCT
1 CATACGAGCTGAGA-ATCGGTAAGCT
11886199 CATACGAGCTGAGAATCG
1 CATACGAGCTGAGAATCG
11886217 ATAATCCCTA
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
23 1 0.01
24 20 0.27
25 50 0.68
26 2 0.03
27 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (25 bp):
CATACGAGCTGAGAATCGGTAAGCT
Found at i:11893501 original size:23 final size:23
Alignment explanation
Indices: 11893458--11893502 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11893448 TGAATTAAAT
* * *
11893458 TAAAATTTTATTATTTTTAAAAG
1 TAAAATTTTATAAATTATAAAAG
11893481 TAAAATTTTATAAATTATAAAA
1 TAAAATTTTATAAATTATAAAA
11893503 AATTAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TAAAATTTTATAAATTATAAAAG
Found at i:11894940 original size:26 final size:26
Alignment explanation
Indices: 11894895--11894946 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
11894885 GTTATTGGGC
* *
11894895 TCGCTTCAATAGATATCTTAAGAAAT
1 TCGCTTCAATAAATACCTTAAGAAAT
*
11894921 TCGCTTCAGTAAATACCTTAAGAAAT
1 TCGCTTCAATAAATACCTTAAGAAAT
11894947 CAAAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (26 bp):
TCGCTTCAATAAATACCTTAAGAAAT
Found at i:11902688 original size:21 final size:19
Alignment explanation
Indices: 11902663--11902706 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 19
11902653 AAATTGTAGC
11902663 AAAATAGTGAAAAACAATAAG
1 AAAATAGT-AAAAA-AATAAG
*
11902684 AAAATAGTAAAAAAATAAT
1 AAAATAGTAAAAAAATAAG
11902703 AAAA
1 AAAA
11902707 ACAAGAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 5 0.23
21 8 0.36
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (19 bp):
AAAATAGTAAAAAAATAAG
Found at i:11903413 original size:18 final size:18
Alignment explanation
Indices: 11903392--11903434 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
11903382 AAATACAATG
* *
11903392 TAATTTATATTTTTTATA
1 TAATTTAAATTTATTATA
*
11903410 TAATGTAAATTTATTATA
1 TAATTTAAATTTATTATA
11903428 TATATTT
1 TA-ATTT
11903435 TATAATTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TAATTTAAATTTATTATA
Found at i:11903443 original size:20 final size:20
Alignment explanation
Indices: 11903423--11903481 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
11903413 TGTAAATTTA
11903423 TTATATATATTTTATAATTAT
1 TTATATAT-TTTTATAATTAT
* *
11903444 TTATGTATTTTTATAATTTT
1 TTATATATTTTTATAATTAT
* *
11903464 TTTTAT-TTTTTAGAATTA
1 TTATATATTTTTATAATTA
11903482 GGATCAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 10 0.31
20 15 0.47
21 7 0.22
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TTATATATTTTTATAATTAT
Found at i:11903882 original size:21 final size:21
Alignment explanation
Indices: 11903842--11903880 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
11903832 TTTTACGACA
11903842 ATCATAATATTTTAATTTTAG
1 ATCATAATATTTTAATTTTAG
*
11903863 ATCAT-ATATTTTATTTTT
1 ATCATAATATTTTAATTTT
11903881 TAAAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (21 bp):
ATCATAATATTTTAATTTTAG
Found at i:11906174 original size:6 final size:6
Alignment explanation
Indices: 11906156--11906186 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
11906146 AATTAATTTT
*
11906156 ATATTG ATGTTG ATATTG ATATTG ATATTG A
1 ATATTG ATATTG ATATTG ATATTG ATATTG A
11906187 GATAGTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (6 bp):
ATATTG
Found at i:11907315 original size:9 final size:9
Alignment explanation
Indices: 11907301--11907327 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
11907291 TATAAGCATG
11907301 ATGTATGAT
1 ATGTATGAT
11907310 ATGTATGAT
1 ATGTATGAT
11907319 ATGTATGAT
1 ATGTATGAT
11907328 GGTAATGTCA
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:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (9 bp):
ATGTATGAT
Found at i:11908042 original size:11 final size:12
Alignment explanation
Indices: 11908021--11908053 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
11908011 ATCATTAATA
11908021 AATAAACGAGTC
1 AATAAACGAGTC
*
11908033 -ATAAAGGAGTC
1 AATAAACGAGTC
11908044 AATAAACGAG
1 AATAAACGAG
11908054 CTTTTAAACG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.52, C:0.12, G:0.21, T:0.15
Consensus pattern (12 bp):
AATAAACGAGTC
Found at i:11908717 original size:18 final size:19
Alignment explanation
Indices: 11908681--11908717 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11908671 AAATAAACAT
11908681 TAAAAAATCATTTTAAAAA
1 TAAAAAATCATTTTAAAAA
*
11908700 TAAAAAATTATTTTAAAA
1 TAAAAAATCATTTTAAAA
11908718 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAAAATCATTTTAAAAA
Found at i:11908747 original size:30 final size:30
Alignment explanation
Indices: 11908690--11908747 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
11908680 TTAAAAAATC
* ***
11908690 ATTTTAAAAATAAAAAATTATTTTAAAAGT
1 ATTTTAAAAATAAAAAATAAAAATAAAAGT
*
11908720 ATTTTAAAATTAAAAAATAAAAATAAAA
1 ATTTTAAAAATAAAAAATAAAAATAAAA
11908748 AATATATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (30 bp):
ATTTTAAAAATAAAAAATAAAAATAAAAGT
Found at i:11911371 original size:26 final size:26
Alignment explanation
Indices: 11911335--11911400 Score: 132
Period size: 26 Copynumber: 2.5 Consensus size: 26
11911325 CCCGATCCAA
11911335 CCAACTGGCAAAAGATAGGTAATGGG
1 CCAACTGGCAAAAGATAGGTAATGGG
11911361 CCAACTGGCAAAAGATAGGTAATGGG
1 CCAACTGGCAAAAGATAGGTAATGGG
11911387 CCAACTGGCAAAAG
1 CCAACTGGCAAAAG
11911401 CCAATGGTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.14
Consensus pattern (26 bp):
CCAACTGGCAAAAGATAGGTAATGGG
Found at i:11928605 original size:20 final size:19
Alignment explanation
Indices: 11928577--11928615 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
11928567 ATCCTCTCCA
11928577 CCGCACTTCGAACACAGTC
1 CCGCACTTCGAACACAGTC
*
11928596 NCCGCTCTTCGAACACAGTC
1 -CCGCACTTCGAACACAGTC
11928616 TGTGATGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.41, G:0.15, T:0.18
Consensus pattern (19 bp):
CCGCACTTCGAACACAGTC
Found at i:11933974 original size:29 final size:30
Alignment explanation
Indices: 11933915--11933972 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11933905 TTCGAGCCTT
* *
11933915 GGGGTAAAAATGTAATTATGTAAAAGTTTA
1 GGGGTAAAAATATAATTATGAAAAAGTTTA
* *
11933945 GGGGTAAAATTATAATTTTGAAAAAGTT
1 GGGGTAAAAATATAATTATGAAAAAGTT
11933973 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.34
Consensus pattern (30 bp):
GGGGTAAAAATATAATTATGAAAAAGTTTA
Found at i:11934166 original size:13 final size:13
Alignment explanation
Indices: 11934148--11934179 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11934138 TTTCCAGCAA
11934148 TTATGAATTTATT
1 TTATGAATTTATT
11934161 TTATGAATTTATT
1 TTATGAATTTATT
*
11934174 TGATGA
1 TTATGA
11934180 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:11936343 original size:66 final size:66
Alignment explanation
Indices: 11936261--11936429 Score: 338
Period size: 66 Copynumber: 2.6 Consensus size: 66
11936251 ATGGTTAAAG
11936261 TCTCGAACCCCCTGGGCCAGTTTGTGATAGTGGATAAAGTTATTTGTTTCCCGGTTGACTGATGT
1 TCTCGAACCCCCTGGGCCAGTTTGTGATAGTGGATAAAGTTATTTGTTTCCCGGTTGACTGATGT
11936326 T
66 T
11936327 TCTCGAACCCCCTGGGCCAGTTTGTGATAGTGGATAAAGTTATTTGTTTCCCGGTTGACTGATGT
1 TCTCGAACCCCCTGGGCCAGTTTGTGATAGTGGATAAAGTTATTTGTTTCCCGGTTGACTGATGT
11936392 T
66 T
11936393 TCTCGAACCCCCTGGGCCAGTTTGTGATAGTGGATAA
1 TCTCGAACCCCCTGGGCCAGTTTGTGATAGTGGATAA
11936430 CTCAGCATGA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 103 1.00
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (66 bp):
TCTCGAACCCCCTGGGCCAGTTTGTGATAGTGGATAAAGTTATTTGTTTCCCGGTTGACTGATGT
T
Found at i:11940442 original size:29 final size:30
Alignment explanation
Indices: 11940383--11940440 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11940373 TCCGAGCCTT
**
11940383 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATAAAAAAGTTTA
* *
11940413 GGGGCAAAATTGTAATTTTAAAAAAGTT
1 GGGGCAAAAATGTAATTATAAAAAAGTT
11940441 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.03, G:0.22, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATAAAAAAGTTTA
Found at i:11940670 original size:13 final size:13
Alignment explanation
Indices: 11940652--11940683 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11940642 ATTCCAGCAA
11940652 TTATGAATTTATT
1 TTATGAATTTATT
11940665 TTATGAATTTATT
1 TTATGAATTTATT
*
11940678 TGATGA
1 TTATGA
11940684 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:11940891 original size:50 final size:50
Alignment explanation
Indices: 11940778--11941059 Score: 323
Period size: 50 Copynumber: 5.5 Consensus size: 50
11940768 ATTTGGGTAA
* * *
11940778 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-C--G
* *
11940834 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
11940884 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* * * * *
11940934 AGAGGTCCCCTATAAGACCATGTCTGGGACATAGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-GACG
** * *
11940984 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
* *
11941035 AGAGGTCCCCTATAAGACCATGTCT
1 AGAGGTCCCATGTAAGACCATGTCT
11941060 NNNNNNNNNN
Statistics
Matches: 194, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 109 0.56
51 39 0.20
52 2 0.01
53 3 0.02
55 2 0.01
56 38 0.20
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACG
Found at i:11941040 original size:101 final size:100
Alignment explanation
Indices: 11940782--11941059 Score: 405
Period size: 101 Copynumber: 2.7 Consensus size: 100
11940772 GGGTAAAGAG
* * * *
11940782 ATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCCTGT
1 ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC----GA-GATGAGAGGTCCCCTAT
* * *
11940847 AAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAGAG
60 AAGACCATGTCTGGGACATAGCATGGGCACCGACACGAGAC
*
11940888 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAAGACC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAAGACC
11940953 ATGTCTGGGACATAGCATGGGCACC-ATCACGAGAAC
66 ATGTCTGGGACATAGCATGGGCACCGA-CACGAG-AC
11940989 ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAAGACC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAAGACC
11941054 ATGTCT
66 ATGTCT
11941060 NNNNNNNNNN
Statistics
Matches: 161, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
99 1 0.01
100 50 0.31
101 73 0.45
105 2 0.01
106 35 0.22
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.21
Consensus pattern (100 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCTATAAGACC
ATGTCTGGGACATAGCATGGGCACCGACACGAGAC
Found at i:11941876 original size:21 final size:21
Alignment explanation
Indices: 11941850--11941920 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
11941840 CTACAACTTA
* *
11941850 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
11941871 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* **
11941892 AAGCGGAGGCTGCAGCGAAAG
1 AAGCAGAGGCTGCAGCGAGGG
11941913 AAGCAGAG
1 AAGCAGAG
11941921 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:11942344 original size:42 final size:42
Alignment explanation
Indices: 11942239--11942485 Score: 291
Period size: 42 Copynumber: 5.8 Consensus size: 42
11942229 GTTTTTGTAT
* * *
11942239 AAAAGCGCTGCTAAAGAACATGTTCTTTAGCAGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
11942281 AAAAGATGCCGCTAAAGACCATGTTCTTTAGCGGCGCCTAGAA
1 AAAA-ACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
11942324 AAAAACGCCGCTAAA-AACCATGTTCTTTAGCGGCGCATAGAAA
1 AAAAACGCCGCTAAAGAA-CATGTTCTTTAGCGGCGCTTAG-AA
* * *
11942367 AAAAATGCCGCTAAAGAACATGCTCTTTAGAGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* **
11942409 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCACA-AA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * * *
11942450 CAAAAATGCCGTTAAAGAATATGGTCTTTAGCGGCG
1 -AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG
11942486 TTTTTGTTTG
Statistics
Matches: 178, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.02
42 102 0.57
43 71 0.40
44 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:11942394 original size:85 final size:85
Alignment explanation
Indices: 11942239--11942485 Score: 336
Period size: 85 Copynumber: 2.9 Consensus size: 85
11942229 GTTTTTGTAT
* * * * * *
11942239 AAAAGCGCTGCTAAAGAACATGTTCTTTAGCAGCGCTTAGAAAAAAGATGCCGCTAAAGACCATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCATAGAAAAAAAATGCCGCTAAAGAACATG
*
11942304 TTCTTTAGCGGCGCCTAGAA
66 CTCTTTAGCGGCGCCTAGAA
11942324 AAAAACGCCGCTAAA-AACCATGTTCTTTAGCGGCGCATAGAAAAAAAATGCCGCTAAAGAACAT
1 AAAAACGCCGCTAAAGAA-CATGTTCTTTAGCGGCGCATAGAAAAAAAATGCCGCTAAAGAACAT
* *
11942388 GCTCTTTAGAGGCGCTTAGAA
65 GCTCTTTAGCGGCGCCTAGAA
* * * * *
11942409 AAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGCACA-AACAAAAATGCCGTTAAAGAATATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCATAGAAAAAAAATGCCGCTAAAGAACATG
*
11942473 GTCTTTAGCGGCG
66 CTCTTTAGCGGCG
11942486 TTTTTGTTTG
Statistics
Matches: 144, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
84 35 0.24
85 107 0.74
86 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (85 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCATAGAAAAAAAATGCCGCTAAAGAACATG
CTCTTTAGCGGCGCCTAGAA
Found at i:11943777 original size:42 final size:42
Alignment explanation
Indices: 11943730--11943813 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
11943720 GAGACTTGAA
11943730 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
* *
11943772 TATGAAGAGTGAAGAGACTTGAATATGAAAAGTTATACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
11943814 GCATGGATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.24
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:11943800 original size:23 final size:23
Alignment explanation
Indices: 11943711--11943800 Score: 89
Period size: 23 Copynumber: 4.1 Consensus size: 23
11943701 GAAAAGTTAA
*
11943711 AAGAATGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
*
11943734 AAGAGTGAAGAGACTTGAAGATG
1 AAGAGTGAAGAGACTTGAATATG
* * * * *
11943757 AAAAGT-TACACAC---ATTATG
1 AAGAGTGAAGAGACTTGAATATG
11943776 AAGAGTGAAGAGACTTGAATATG
1 AAGAGTGAAGAGACTTGAATATG
11943799 AA
1 AA
11943801 AAGTTATACA
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 33 0.66
ACGTcount: A:0.47, C:0.07, G:0.26, T:0.21
Consensus pattern (23 bp):
AAGAGTGAAGAGACTTGAATATG
Found at i:11963809 original size:14 final size:14
Alignment explanation
Indices: 11963770--11963812 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
11963760 AATACATAAT
11963770 TATTCATTTAATATTA
1 TATT-ATTTAA-ATTA
*
11963786 TAACTATTTAAATTA
1 T-ATTATTTAAATTA
11963801 TATTATTTAAAT
1 TATTATTTAAAT
11963813 AGTTATAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 10 0.42
15 5 0.21
16 7 0.29
17 2 0.08
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATTTAAATTA
Done.