Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 52 of 333
Found at i:15057437 original size:40 final size:40
Alignment explanation
Indices: 15057366--15057511 Score: 188
Period size: 40 Copynumber: 3.7 Consensus size: 40
15057356 TACCAGCTCG
* * *
15057366 TAGCCTGCGGGTCTCT-AGCCCGGATAGCATTCTAGCACA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCATA
* * * *
15057405 AAGCCTGCAGGTCTTTAAGCCCAGATAACATTCCAGCATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCATA
*
15057445 TAGCCTGCGTGTCTTTAAGCCCGGATAACATT-TCAGCATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCT-AGCATA
*
15057485 TAGCCTACGGGTCTTTAAGCCCGGATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATA
15057512 CAATTCCTCA
Statistics
Matches: 91, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 13 0.14
40 78 0.86
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCATA
Found at i:15063411 original size:22 final size:21
Alignment explanation
Indices: 15063381--15063427 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
15063371 TACAAATTAA
15063381 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
15063403 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
15063424 ATCT
1 ATCT
15063428 ACGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:15063435 original size:19 final size:19
Alignment explanation
Indices: 15063398--15063495 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
15063388 AGATTACAAG
15063398 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
15063419 ATCATATCTACGATTGCAT
1 ATCATATCTAAGATTGCAT
15063438 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
15063455 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
15063474 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
15063493 ATC
1 ATC
15063496 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 47 0.64
20 1 0.01
21 8 0.11
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:15063462 original size:36 final size:37
Alignment explanation
Indices: 15063398--15063495 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
15063388 AGATTACAAG
*
15063398 ATCATATCTTCAAGATTGCATATCATATCTACGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
15063438 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
15063474 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
15063496 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:15066393 original size:26 final size:26
Alignment explanation
Indices: 15066359--15066471 Score: 127
Period size: 26 Copynumber: 4.3 Consensus size: 26
15066349 ACTGGGGCAC
**
15066359 AGCCCTTTTCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
*
15066385 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
* *** * *
15066411 AGCCTTTTTTGGTATACTGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
*
15066437 AGCCCTTTTCAATAAACTAAGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
*
15066463 AGCCTTTTT
1 AGCCCTTTT
15066472 TCACTTCCTC
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTAGGGCATA
Found at i:15066445 original size:52 final size:52
Alignment explanation
Indices: 15066340--15066472 Score: 182
Period size: 52 Copynumber: 2.6 Consensus size: 52
15066330 GGCCTATCCT
* * *
15066340 CTTTT-AAT-AACTGGGGCA-CAGCCCTTTTCGGTAAACTAGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCCTTTTTTGGTAAACTAGGGCATAAGCC
* *
15066389 CTTTTCAATAAACTGGGGCATAAGCCTTTTTTGGTATACTGGGGCATAAGCC
1 CTTTTCAATAAACTGGGGCATAAGCCTTTTTTGGTAAACTAGGGCATAAGCC
**
15066441 CTTTTCAATAAACTAAGGCATAAGCCTTTTTT
1 CTTTTCAATAAACTGGGGCATAAGCCTTTTTT
15066473 CACTTCCTCC
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
49 5 0.07
50 3 0.04
51 10 0.14
52 56 0.76
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (52 bp):
CTTTTCAATAAACTGGGGCATAAGCCTTTTTTGGTAAACTAGGGCATAAGCC
Found at i:15066545 original size:20 final size:20
Alignment explanation
Indices: 15066520--15066595 Score: 104
Period size: 20 Copynumber: 3.9 Consensus size: 20
15066510 TTTATGAATT
*
15066520 TATCATGTGCATTTCATACA
1 TATCATGTGCATATCATACA
*
15066540 TATCATGTGCATGTCATACA
1 TATCATGTGCATATCATACA
15066560 TATCATGTGCATATCATATCA
1 TATCATGTGCATATCATA-CA
15066581 T-TCATGT--ATATCATA
1 TATCATGTGCATATCATA
15066596 TCCACGTATC
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
18 8 0.15
20 42 0.79
21 3 0.06
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:15066572 original size:11 final size:11
Alignment explanation
Indices: 15066520--15066576 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
15066510 TTTATGAATT
15066520 TATCATGTGCA
1 TATCATGTGCA
* *
15066531 TTTCA--TACA
1 TATCATGTGCA
15066540 TATCATGTGCA
1 TATCATGTGCA
* *
15066551 TGTCA--TACA
1 TATCATGTGCA
15066560 TATCATGTGCA
1 TATCATGTGCA
15066571 TATCAT
1 TATCAT
15066577 ATCATTCATG
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
9 14 0.41
11 20 0.59
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:15071065 original size:7 final size:7
Alignment explanation
Indices: 15071053--15071100 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
15071043 TCAAGTAGTT
*
15071053 CATTGAA
1 CATTTAA
*
15071060 CATTGAA
1 CATTTAA
15071067 CATTTAA
1 CATTTAA
15071074 CATTTAA
1 CATTTAA
15071081 CATTTAA
1 CATTTAA
15071088 CATTTAA
1 CATTTAA
15071095 CATTTA
1 CATTTA
15071101 CTACAACCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (7 bp):
CATTTAA
Found at i:15072464 original size:57 final size:57
Alignment explanation
Indices: 15072376--15072489 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
15072366 TCTTTAACAG
* *
15072376 TTTCAAAAACGGAGATACGGGTTAGCTAGACCTAATTGTAGCGATCTCAAAAATATA
1 TTTCAAAAACAGAGATACGGGTTAGCTAGACCTAATTGTAACGATCTCAAAAATATA
15072433 TTTCAAAAACAGAGATACGGGTTAGCTAGACCTAATTGTAACGATCTCAAAAATATA
1 TTTCAAAAACAGAGATACGGGTTAGCTAGACCTAATTGTAACGATCTCAAAAATATA
15072490 AAAATTACAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (57 bp):
TTTCAAAAACAGAGATACGGGTTAGCTAGACCTAATTGTAACGATCTCAAAAATATA
Found at i:15075487 original size:19 final size:15
Alignment explanation
Indices: 15075446--15075475 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15075436 AAAAAACAAG
15075446 TGACACATTCAATCA
1 TGACACATTCAATCA
15075461 TGACACATTCAATCA
1 TGACACATTCAATCA
15075476 ATACGAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (15 bp):
TGACACATTCAATCA
Found at i:15076235 original size:17 final size:17
Alignment explanation
Indices: 15076215--15076248 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15076205 TAAAATTTGT
15076215 TATTTTATAAATTTTTA
1 TATTTTATAAATTTTTA
* *
15076232 TATTTTTTTAATTTTTA
1 TATTTTATAAATTTTTA
15076249 ATATACATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTTATAAATTTTTA
Found at i:15077563 original size:18 final size:17
Alignment explanation
Indices: 15077526--15077575 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
15077516 AAACGTTATT
*
15077526 AAAATTATAAAAATATTAA
1 AAAATTATTAAAA-ATT-A
15077545 ATAAATT-TTAAAAATTA
1 A-AAATTATTAAAAATTA
15077562 AAAATTATTAAAAA
1 AAAATTATTAAAAA
15077576 CCATTTAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 5 0.18
17 9 0.32
18 3 0.11
19 6 0.21
20 5 0.18
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATTAAAAATTA
Found at i:15079866 original size:18 final size:18
Alignment explanation
Indices: 15079840--15079878 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
15079830 AGTGACAATA
*
15079840 AAGAAGCAGATGAGGAAG
1 AAGAAGCAGAGGAGGAAG
* *
15079858 AAGATGCAGAGGATGAAG
1 AAGAAGCAGAGGAGGAAG
15079876 AAG
1 AAG
15079879 GGGCAAGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.38, T:0.08
Consensus pattern (18 bp):
AAGAAGCAGAGGAGGAAG
Found at i:15083721 original size:18 final size:18
Alignment explanation
Indices: 15083700--15083745 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
15083690 AGGTGACAAT
*
15083700 GAAGGTGTAGGTGAGGAA
1 GAAGGTGTAGATGAGGAA
*
15083718 GAAGGTGCAGATGAGGAA
1 GAAGGTGTAGATGAGGAA
*
15083736 GAAGGCGTAG
1 GAAGGTGTAG
15083746 TGGAGGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.35, C:0.04, G:0.48, T:0.13
Consensus pattern (18 bp):
GAAGGTGTAGATGAGGAA
Found at i:15086906 original size:15 final size:15
Alignment explanation
Indices: 15086886--15086938 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
15086876 TATCATGATC
15086886 AATTATTTTAATAAG
1 AATTATTTTAATAAG
*
15086901 AATTATTTTAAATATGAT
1 AATTATTTT-AATA--AG
*
15086919 AATAATTTTAATAAG
1 AATTATTTTAATAAG
15086934 AATTA
1 AATTA
15086939 AGTCAAACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 14 0.45
16 4 0.13
17 4 0.13
18 9 0.29
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (15 bp):
AATTATTTTAATAAG
Found at i:15087916 original size:11 final size:11
Alignment explanation
Indices: 15087900--15087928 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
15087890 CAAATAATCC
15087900 ATATTTTCTAA
1 ATATTTTCTAA
15087911 ATATTTTCTAA
1 ATATTTTCTAA
15087922 ATATTTT
1 ATATTTT
15087929 AATTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTTTCTAA
Found at i:15088306 original size:17 final size:16
Alignment explanation
Indices: 15088273--15088317 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
15088263 ACTGTTATTG
15088273 ATATATTTTAATAAAAA
1 ATAT-TTTTAATAAAAA
*
15088290 ATATTTTTAACTTAAAA
1 ATATTTTTAA-TAAAAA
*
15088307 ATAGTTTTAAT
1 ATATTTTTAAT
15088318 GTTTTGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
ATATTTTTAATAAAAA
Found at i:15093408 original size:9 final size:10
Alignment explanation
Indices: 15093387--15093427 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
15093377 ACCCAAAATA
15093387 AAAAAT-AA-
1 AAAAATGAAG
15093395 AAAAATGAAG
1 AAAAATGAAG
15093405 AAAAATGAAG
1 AAAAATGAAG
15093415 AAAAA-GAA-
1 AAAAATGAAG
15093423 AAAAA
1 AAAAA
15093428 CCTAATCTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 11 0.35
9 5 0.16
10 15 0.48
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (10 bp):
AAAAATGAAG
Found at i:15094616 original size:19 final size:19
Alignment explanation
Indices: 15094592--15094629 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15094582 TTGAGATTGC
*
15094592 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCCGAAAT
15094611 CAACCTATTTGCCCGAAAT
1 CAACCTATTTGCCCGAAAT
15094630 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.29
Consensus pattern (19 bp):
CAACCTATTTGCCCGAAAT
Found at i:15096757 original size:24 final size:24
Alignment explanation
Indices: 15096730--15096783 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
15096720 TTTCTTTCCT
*
15096730 TTGCATT-CATCCCATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
**
15096754 TTGCATTGCATCATGTGCATTGCA
1 TTGCATTGCATCACATGCATTGCA
15096778 TTGCAT
1 TTGCAT
15096784 CATTTGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:15096772 original size:19 final size:19
Alignment explanation
Indices: 15096750--15096793 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
15096740 CCCATGCATT
15096750 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
*
15096769 TGCATTGCATTGCATCATT
1 TGCATTGCATTGCATCATG
15096788 TGCATT
1 TGCATT
15096794 AGATCTTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:15100612 original size:61 final size:64
Alignment explanation
Indices: 15100541--15100665 Score: 177
Period size: 61 Copynumber: 2.0 Consensus size: 64
15100531 CATATAATAA
* *
15100541 CACATCTAGTTAGGAGCATTTGATTCATTTC-A-TA-A-CATTCTAATTATTTGACATAAAGCAT
1 CACATCTAGTTAGGAACATTTGATTCATTTCAATTATAGCATCCTAATTATTTGACAT-AAGCAT
* *
15100602 CACATTTAGTTAGGAACATTTGATTCATTTCAATTATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAACATTTGATTCATTTCAATTATAGCATCCTAATTATTTGACATAAGCAT
15100666 GGATACATGA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
61 29 0.52
62 1 0.02
63 2 0.04
64 7 0.12
65 17 0.30
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAACATTTGATTCATTTCAATTATAGCATCCTAATTATTTGACATAAGCAT
Found at i:15100910 original size:88 final size:88
Alignment explanation
Indices: 15100761--15100962 Score: 332
Period size: 88 Copynumber: 2.3 Consensus size: 88
15100751 AGCTGAAGAT
** * *
15100761 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGTAGATCGAAGACATAGCTAATTTGTCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAAGGAGTAGATCGAAAACATAGCTAATTTGGCT
*
15100826 TTCACGTGTTTACGTTAAAGCAG
66 TTCACGTGTTTACGTTAAAGCAA
*
15100849 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAAGGAGTAGATCGAAAACATAGCTGATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAAGGAGTAGATCGAAAACATAGCTAATTTGGCT
*
15100914 TTCACGTGTTTACGTTGAAGCAA
66 TTCACGTGTTTACGTTAAAGCAA
*
15100937 ATCCAAGATGATTTGGCATATCTGTA
1 ATCCAAGATGATTTGGCATCTCTGTA
15100963 GCAGCGGAGA
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 106 1.00
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (88 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCAAGGAGTAGATCGAAAACATAGCTAATTTGGCT
TTCACGTGTTTACGTTAAAGCAA
Found at i:15101005 original size:44 final size:44
Alignment explanation
Indices: 15100946--15101266 Score: 497
Period size: 44 Copynumber: 7.4 Consensus size: 44
15100936 AATCCAAGAT
* * *
15100946 GATTTGGCATATCTGTAGCAGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
15100990 GATTTGGCGTCTCTGTAGCGGCGAAGAGCAGATCGAATATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
15101034 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
15101078 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
15101118 GATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
15101162 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
15101206 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
15101250 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
15101267 TTAGACGGGG
Statistics
Matches: 254, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
40 38 0.15
44 216 0.85
ACGTcount: A:0.27, C:0.17, G:0.33, T:0.23
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:15101135 original size:172 final size:172
Alignment explanation
Indices: 15100932--15101266 Score: 553
Period size: 172 Copynumber: 1.9 Consensus size: 172
15100922 TTTACGTTGA
15100932 AGCAAATCCAAGATGATTTGGCATATCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTGG
1 AGCAAATCCAAGATGATTTGGCATATCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTGG
* * *
15100997 CGTCTCTGTAGCGGCGAAGAGCAGATCGAATATAGCAGATTTGGCGTCTCTGTAGCGGCAGAGAG
66 CGTCTCTGTAGCGGCGAAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAG
*
15101062 CAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAG
131 CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
* * * **
15101104 AGCAGATCGAAGATGATTTGGCATCTCTGTAGTGGCGGAGAGCAGATCGAAGATAACAGATTTGG
1 AGCAAATCCAAGATGATTTGGCATATCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTGG
* * *
15101169 CGTCTCTGTAGCGGTGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAGAG
66 CGTCTCTGTAGCGGCGAAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAG
*
15101234 CAGATCGAAGATAACGGATTTGGCGTCTCTGTA
131 CAGATCGAAGATAACAGATTTGGCGTCTCTGTA
15101267 TTAGACGGGG
Statistics
Matches: 150, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
172 150 1.00
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.22
Consensus pattern (172 bp):
AGCAAATCCAAGATGATTTGGCATATCTGTAGCAGCGGAGAGCAGATCGAAGATAACAGATTTGG
CGTCTCTGTAGCGGCGAAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGGCAGAGAG
CAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGGCGGAG
Found at i:15102873 original size:6 final size:7
Alignment explanation
Indices: 15102855--15102880 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15102845 CACTCCCTTT
15102855 TAAAAAA
1 TAAAAAA
15102862 TAAAAAA
1 TAAAAAA
15102869 TAAAAAA
1 TAAAAAA
15102876 TAAAA
1 TAAAA
15102881 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:15111648 original size:43 final size:43
Alignment explanation
Indices: 15111580--15111713 Score: 196
Period size: 43 Copynumber: 3.1 Consensus size: 43
15111570 AGTTTAAAAC
* * *
15111580 TTTTAGCGGCGCTTTTCACGAAAACGACGCTAAAGATCATGAA
1 TTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGATCATGAA
* * *
15111623 TTTTAGCGGCGTTTTTCCCTCAAACGCCGCTAAAGATCATGAC
1 TTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGATCATGAA
* *
15111666 CTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAAATCATGAA
1 TTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGATCATGAA
15111709 TTTTA
1 TTTTA
15111714 AAATTTATTT
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
TTTTAGCGGCGCTTTTCCCGCAAACGCCGCTAAAGATCATGAA
Found at i:15111760 original size:22 final size:23
Alignment explanation
Indices: 15111732--15111774 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
15111722 TTTATTTTAA
*
15111732 TTAAATAATAT-TTATTTTTATG
1 TTAAATAATATATTATGTTTATG
*
15111754 TTAAATATTATATTATGTTTA
1 TTAAATAATATATTATGTTTA
15111775 ATTTTTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTAAATAATATATTATGTTTATG
Found at i:15115001 original size:10 final size:10
Alignment explanation
Indices: 15114988--15115021 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
15114978 AATTTTAATT
15114988 TTTTTTTATA
1 TTTTTTTATA
15114998 TTTTTTTATA
1 TTTTTTTATA
15115008 TTTTTTTAT-
1 TTTTTTTATA
15115017 TTTTT
1 TTTTT
15115022 CTTTCAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.21
10 19 0.79
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTATA
Found at i:15115118 original size:7 final size:7
Alignment explanation
Indices: 15115106--15115133 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
15115096 ATATGGATTA
15115106 AAATATT
1 AAATATT
15115113 AAATATT
1 AAATATT
15115120 AAATATT
1 AAATATT
15115127 AAATATT
1 AAATATT
15115134 TAAGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Found at i:15115148 original size:7 final size:7
Alignment explanation
Indices: 15115138--15115192 Score: 110
Period size: 7 Copynumber: 7.9 Consensus size: 7
15115128 AATATTTAAG
15115138 TTTTTTA
1 TTTTTTA
15115145 TTTTTTA
1 TTTTTTA
15115152 TTTTTTA
1 TTTTTTA
15115159 TTTTTTA
1 TTTTTTA
15115166 TTTTTTA
1 TTTTTTA
15115173 TTTTTTA
1 TTTTTTA
15115180 TTTTTTA
1 TTTTTTA
15115187 TTTTTT
1 TTTTTT
15115193 TTAAATTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTTA
Found at i:15115208 original size:14 final size:14
Alignment explanation
Indices: 15115144--15115216 Score: 64
Period size: 14 Copynumber: 5.4 Consensus size: 14
15115134 TAAGTTTTTT
**
15115144 ATTTTTTATTTTTT
1 ATTTTTTATTTTAA
**
15115158 ATTTTTTATTTTTT
1 ATTTTTTATTTTAA
15115172 ATTTTTTATTTT--
1 ATTTTTTATTTTAA
15115184 -TTATTTT-TTTTAA
1 ATT-TTTTATTTTAA
15115197 ATTTTTTATTTTTAA
1 ATTTTTTA-TTTTAA
15115212 ATTTT
1 ATTTT
15115217 AAAATTTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.11
12 4 0.08
13 4 0.08
14 28 0.53
15 11 0.21
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
ATTTTTTATTTTAA
Found at i:15115209 original size:1 final size:1
Alignment explanation
Indices: 15115138--15115194 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
15115128 AATATTTAAG
* * * * * * *
15115138 TTTTTTATTTTTTATTTTTTATTTTTTATTTTTTATTTTTTATTTTTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15115195 AAATTTTTTA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:15116372 original size:41 final size:41
Alignment explanation
Indices: 15116326--15116462 Score: 170
Period size: 41 Copynumber: 3.4 Consensus size: 41
15116316 GTTATATAAC
* *
15116326 TTTTAGTGGCGTTTTACTAAAAGCGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTAGT
* *
15116367 CTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTAGT
** * * *
15116407 TTTTAGTAGTGTTTTAACAAAAAACGCCGCTATTGCTC-AGT
1 TTTTAGCGGCGTTTT-ACAAAAAGCGCCGCTAATGCTCTAGT
15116448 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
15116463 TGTTAAAACG
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 13 0.16
41 68 0.84
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACAAAAAGCGCCGCTAATGCTCTAGT
Found at i:15116484 original size:81 final size:82
Alignment explanation
Indices: 15116326--15116493 Score: 198
Period size: 81 Copynumber: 2.1 Consensus size: 82
15116316 GTTATATAAC
* * *
15116326 TTTTAGTGGCGTTTTACTAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGTAGCGTTTTACAAAAAACGCCGCTAATGCTCTAGTCTTTAGCGGCGTTTTACCAAAAGC
*
15116391 GCCGCTAATGCTCTGT-
66 GCCACTAATGCTCTGTG
* * * ***
15116407 TTTTAGTAGTGTTTTAACAAAAAACGCCGCTATTGCTC-AGTTTTTAGCGGCGTTTTTGTTAAAA
1 TTTTAGTAGCGTTTT-ACAAAAAACGCCGCTAATGCTCTAGTCTTTAGCGGCG-TTTTACCAAAA
*
15116471 -CGCCACTATTGCTCTGTG
64 GCGCCACTAATGCTCTGTG
15116489 TTTTA
1 TTTTA
15116494 CAATTTTTAA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 41 0.56
82 32 0.44
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (82 bp):
TTTTAGTAGCGTTTTACAAAAAACGCCGCTAATGCTCTAGTCTTTAGCGGCGTTTTACCAAAAGC
GCCACTAATGCTCTGTG
Found at i:15119163 original size:16 final size:16
Alignment explanation
Indices: 15119142--15119172 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15119132 GTCTACTGGG
*
15119142 TTTAATTAATATTTTA
1 TTTAATTAAAATTTTA
15119158 TTTAATTAAAATTTT
1 TTTAATTAAAATTTT
15119173 GTTTTTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATTAAAATTTTA
Found at i:15120575 original size:5 final size:5
Alignment explanation
Indices: 15120556--15120590 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
15120546 CTGTGTGTTC
15120556 TTTATT TTTATT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTT
15120591 CATAAATTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 19 0.66
6 10 0.34
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:15125008 original size:18 final size:18
Alignment explanation
Indices: 15124981--15125017 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
15124971 AGAGTGAAAG
15124981 AAACGAG-AAATGGGCCA
1 AAACGAGAAAATGGGCCA
15124998 AAACGGAGAAAATGGGCCA
1 AAAC-GAGAAAATGGGCCA
15125017 A
1 A
15125018 CGTACGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 3 0.17
19 11 0.61
ACGTcount: A:0.49, C:0.16, G:0.30, T:0.05
Consensus pattern (18 bp):
AAACGAGAAAATGGGCCA
Found at i:15126380 original size:5 final size:5
Alignment explanation
Indices: 15126361--15126395 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
15126351 CTGAGTGTTC
15126361 TTTATT TTTATT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT TTT
15126396 CACACTAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 19 0.66
6 10 0.34
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:15127457 original size:46 final size:46
Alignment explanation
Indices: 15127364--15127482 Score: 148
Period size: 46 Copynumber: 2.6 Consensus size: 46
15127354 TTTATGCCTA
*
15127364 AAAATGAGTAAGACCATAGCTGAAAGATGTTATAGCATCATAATAG
1 AAAATGAGTAAGACCATAGCTGAAAGATGCTATAGCATCATAATAG
* * ** **
15127410 AAAATGAGTGAGACCATAGCTGAAAGATGCTATGGCATTTTGGTAG
1 AAAATGAGTAAGACCATAGCTGAAAGATGCTATAGCATCATAATAG
* * *
15127456 AAGATGAATAAGACCATAGTTGAAAGA
1 AAAATGAGTAAGACCATAGCTGAAAGA
15127483 CGTCATGGTA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.43, C:0.10, G:0.24, T:0.24
Consensus pattern (46 bp):
AAAATGAGTAAGACCATAGCTGAAAGATGCTATAGCATCATAATAG
Found at i:15129396 original size:35 final size:35
Alignment explanation
Indices: 15129357--15129452 Score: 140
Period size: 35 Copynumber: 2.7 Consensus size: 35
15129347 AAAAGTTATA
* *
15129357 ACACGTAGGTATGGTATTATCCATACTGAGCTATG
1 ACACGTAGGTATGGTATTATCCATACTAACCTATG
*
15129392 ACACGTAAGTATGGTATTATCCATACTAACCTATG
1 ACACGTAGGTATGGTATTATCCATACTAACCTATG
*
15129427 ATACGTAGGTATGGTATT-TCCCATAC
1 ACACGTAGGTATGGTATTAT-CCATAC
15129453 CGAGTTGTGA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
34 1 0.02
35 54 0.98
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (35 bp):
ACACGTAGGTATGGTATTATCCATACTAACCTATG
Found at i:15129468 original size:35 final size:35
Alignment explanation
Indices: 15129359--15129469 Score: 134
Period size: 35 Copynumber: 3.2 Consensus size: 35
15129349 AAGTTATAAC
*
15129359 ACGTAGGTATGGTATTATCCATACTGAGCTATGAC
1 ACGTAGGTATGGTATTATCCATACTGAGCTATGAA
* * * *
15129394 ACGTAAGTATGGTATTATCCATACTAACCTATGAT
1 ACGTAGGTATGGTATTATCCATACTGAGCTATGAA
* * *
15129429 ACGTAGGTATGGTATT-TCCCATACCGAGTTGTGAA
1 ACGTAGGTATGGTATTAT-CCATACTGAGCTATGAA
15129464 ACGTAG
1 ACGTAG
15129470 CCATATTGAG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 1 0.02
35 63 0.98
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (35 bp):
ACGTAGGTATGGTATTATCCATACTGAGCTATGAA
Found at i:15136267 original size:35 final size:35
Alignment explanation
Indices: 15136228--15136389 Score: 211
Period size: 35 Copynumber: 4.7 Consensus size: 35
15136218 GTTATGACAT
*
15136228 GTAGGTATGGTATTATCCATACTGAGCCATGATAC
1 GTAGGTATGGTATTATCCATACTGAGCTATGATAC
* * *
15136263 GTAGGTATGGTATTATCTATACTAATCTATGATAC
1 GTAGGTATGGTATTATCCATACTGAGCTATGATAC
*
15136298 GTAGGTATGGTATT-TCCATACTGAGCTATAATAC
1 GTAGGTATGGTATTATCCATACTGAGCTATGATAC
* * * *
15136332 GTAGGTATGATATT-TCCCATACTGAGTTGTGAAAC
1 GTAGGTATGGTATTAT-CCATACTGAGCTATGATAC
*
15136367 GTAGGTATGGTATTAACCATACT
1 GTAGGTATGGTATTATCCATACT
15136390 TATAGTGTTG
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
34 30 0.27
35 80 0.73
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (35 bp):
GTAGGTATGGTATTATCCATACTGAGCTATGATAC
Found at i:15136339 original size:69 final size:70
Alignment explanation
Indices: 15136219--15136389 Score: 213
Period size: 69 Copynumber: 2.5 Consensus size: 70
15136209 CATGGCAAAG
* * * * *
15136219 TTATGACATGTAGGTATGGTATTATCCATACTGAGCCATGATACGTAGGTATGGTATTAT-CTAT
1 TTATGAAACGTAGGTATGGTATTATCCATACTGAGCCATAATACGTAGGTATGATATT-TCCCAT
15136283 ACT-AA
65 ACTGAA
* *
15136288 TCTATGATACGTAGGTATGGTATT-TCCATACTGAGCTATAATACGTAGGTATGATATTTCCCAT
1 T-TATGAAACGTAGGTATGGTATTATCCATACTGAGCCATAATACGTAGGTATGATATTTCCCAT
*
15136352 ACTGAG
65 ACTGAA
* *
15136358 TTGTGAAACGTAGGTATGGTATTAACCATACT
1 TTATGAAACGTAGGTATGGTATTATCCATACT
15136390 TATAGTGTTG
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
68 1 0.01
69 58 0.66
70 29 0.33
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (70 bp):
TTATGAAACGTAGGTATGGTATTATCCATACTGAGCCATAATACGTAGGTATGATATTTCCCATA
CTGAA
Found at i:15147414 original size:22 final size:22
Alignment explanation
Indices: 15147389--15147460 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
15147379 CATAATAATA
15147389 GAAAATGAGTAAAACCATAGTT
1 GAAAATGAGTAAAACCATAGTT
*** * *
15147411 GAAAGATGCTA-TGGCATCATAGTA
1 GAAA-ATG--AGTAAAACCATAGTT
*
15147435 GAAAATGAGTAAGACCATAGTT
1 GAAAATGAGTAAAACCATAGTT
15147457 GAAA
1 GAAA
15147461 TGTGCTATGG
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
21 1 0.03
22 16 0.44
23 6 0.17
24 12 0.33
25 1 0.03
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (22 bp):
GAAAATGAGTAAAACCATAGTT
Found at i:15147431 original size:24 final size:24
Alignment explanation
Indices: 15147404--15147476 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
15147394 TGAGTAAAAC
15147404 CATAGTTGAAAGATGCTATGGCAT
1 CATAGTTGAAAGATGCTATGGCAT
* * * *
15147428 CATAGTAGAAA-ATGAGTA-AG-AC
1 CATAGTTGAAAGATG-CTATGGCAT
15147450 CATAGTTGAAATG-TGCTATGGCAT
1 CATAGTTGAAA-GATGCTATGGCAT
15147474 CAT
1 CAT
15147477 GTGAAATCAC
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
22 13 0.36
23 7 0.19
24 16 0.44
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.27
Consensus pattern (24 bp):
CATAGTTGAAAGATGCTATGGCAT
Found at i:15147474 original size:46 final size:46
Alignment explanation
Indices: 15147342--15147476 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
15147332 GCTATACACC
* * *
15147342 TAGAAAA-GAGTAAGACCATAGCTGAAAGATTCTATGGCATAATAA
1 TAGAAAATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAA
* *
15147387 TAGAAAATGAGTAAAACCATAGTTGAAAGATGCTATGGCATCATAG
1 TAGAAAATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAA
15147433 TAGAAAATGAGTAAGACCATAGTTGAAATG-TGCTATGGCATCAT
1 TAGAAAATGAGTAAGACCATAGTTGAAA-GATGCTATGGCATCAT
15147477 GTGAAATCAC
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
45 7 0.09
46 74 0.90
47 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.24
Consensus pattern (46 bp):
TAGAAAATGAGTAAGACCATAGTTGAAAGATGCTATGGCATCATAA
Found at i:15158411 original size:45 final size:46
Alignment explanation
Indices: 15158159--15158473 Score: 177
Period size: 49 Copynumber: 6.7 Consensus size: 46
15158149 AGGGTATAAT
* *
15158159 GCCGATGCCATGTCCCAGACATGGTTTTACACTGGC-T-CATCCATCAA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCTTACAT-C-TCAA
* * * * * *
15158206 GTCGATGCCATGTCCCAAACATGGTTTTACACT-GACTATCGAAATC-GAG
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAG-CT-T--ACATCTCAA
* * * * **
15158255 GCCGATGTCATGTCCCAAACATAGTCTTACACTAGATCT-CAATATCTGT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCT-TAC-ATCTC-AA
* *
15158304 GCCGATACCATGTCCTAGACATGGTCTTACACT-GAC--ACATCTCATA
1 GCCGAT-GCATGTCCCAGACATGGTCTTACACTAG-CTTACATCTCA-A
* *
15158350 GCCAATGCATGGCCCAGACAT-GTCTTACACTAGCTTACATCTCAA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAA
* * *
15158395 GGCCGATGCA-GTCCCAGACAT-GTCTTATACTAGCTCT-CATTTCTAT
1 -GCCGATGCATGTCCCAGACATGGTCTTACACTAGCT-TACATCTC-AA
*
15158441 GCCGATGCCATATCCCAGACATGGTCTTACACT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACT
15158474 GGCTCTCATA
Statistics
Matches: 210, Mismatches: 35, Indels: 45
0.72 0.12 0.16
Matches are distributed among these distances:
44 11 0.05
45 49 0.23
46 30 0.14
47 45 0.21
48 10 0.05
49 61 0.29
50 1 0.00
51 1 0.00
52 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCAA
Found at i:15160885 original size:29 final size:27
Alignment explanation
Indices: 15160816--15160885 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
15160806 ACACGCCAAA
* *
15160816 AAAAGAAAGCCTTTGTAGCGGTCTATG
1 AAAAGGAAGCCTTTGTAGCGATCTATG
* *
15160843 AAAAGGAAGCCTTTGTGGTGATCTATG
1 AAAAGGAAGCCTTTGTAGCGATCTATG
15160870 AAAGAGGGAAGCCTTT
1 AAA-A-GGAAGCCTTT
15160886 TTGGCATACC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 26 0.70
28 1 0.03
29 10 0.27
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.26
Consensus pattern (27 bp):
AAAAGGAAGCCTTTGTAGCGATCTATG
Found at i:15164232 original size:74 final size:73
Alignment explanation
Indices: 15164104--15164244 Score: 169
Period size: 74 Copynumber: 1.9 Consensus size: 73
15164094 AATTAACTTA
* * *
15164104 ATTATTTAATTTTGTCACAATTGATTATGATTTTAATATCGAAAATTTAGTCATAAACAAATTGA
1 ATTATTTAATTTTGTCACAATTGATTATGAATTTAATATAGAAAATTTAGTCATAAA-AAATTAA
15164169 ATAATTACC
65 ATAATTACC
* * * * *
15164178 ATTATTTGATTTTGTCACAATT-ACTTAT-AATTTAGTGTTAGAAATTTTATTCATAAAAAATTA
1 ATTATTTAATTTTGTCACAATTGA-TTATGAATTTAAT-ATAGAAAATTTAGTCATAAAAAATTA
15164241 AATA
64 AATA
15164245 CTTTTACCCA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
73 16 0.28
74 41 0.72
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (73 bp):
ATTATTTAATTTTGTCACAATTGATTATGAATTTAATATAGAAAATTTAGTCATAAAAAATTAAA
TAATTACC
Found at i:15164421 original size:71 final size:73
Alignment explanation
Indices: 15164335--15164476 Score: 180
Period size: 73 Copynumber: 2.0 Consensus size: 73
15164325 TTTTTTTCCT
* ** * *
15164335 CAATTTCTTACAATTTCAGTGTTTAAAATTTGG-C-TAAAAAATTGAATACTTATGATCATTTAT
1 CAATTGCTTACAATTTCAGTGTCGAAAATTTGGTCACAAAAAATTAAATACTTATGATCATTTAT
15164398 TTTTGTTG
66 TTTTGTTG
* * * * *
15164406 CAATTGCTTATAATTTTAGTGTCGATAATTTGGTCACAAAAAATTAAATATTTGTGATCATTTAT
1 CAATTGCTTACAATTTCAGTGTCGAAAATTTGGTCACAAAAAATTAAATACTTATGATCATTTAT
15164471 TTTTGT
66 TTTTGT
15164477 CACAAATGTT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 27 0.46
72 1 0.02
73 31 0.53
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (73 bp):
CAATTGCTTACAATTTCAGTGTCGAAAATTTGGTCACAAAAAATTAAATACTTATGATCATTTAT
TTTTGTTG
Found at i:15170993 original size:18 final size:16
Alignment explanation
Indices: 15170970--15171004 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
15170960 AATTTAACTT
15170970 TAATTAAATTATTTAAAA
1 TAATT-AATT-TTTAAAA
15170988 TAATTAATTTTTAAAA
1 TAATTAATTTTTAAAA
15171004 T
1 T
15171005 TGTAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATTAATTTTTAAAA
Found at i:15173560 original size:3 final size:3
Alignment explanation
Indices: 15173546--15173624 Score: 149
Period size: 3 Copynumber: 26.3 Consensus size: 3
15173536 GAAGAAAGCC
*
15173546 AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
15173594 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
15173625 GAAAAGACAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:15173707 original size:3 final size:3
Alignment explanation
Indices: 15173701--15173727 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15173691 TTTTACAATC
15173701 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
15173728 CTGTTAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:15175694 original size:25 final size:24
Alignment explanation
Indices: 15175659--15175799 Score: 97
Period size: 25 Copynumber: 5.7 Consensus size: 24
15175649 ACACACCACA
* *
15175659 GCTCTCTTGAGCTTCCTGATACTTG
1 GCTCTCATGAGCTTCCCGATA-TTG
*
15175684 GCTCTCATGAGCTTCCCGATATTT
1 GCTCTCATGAGCTTCCCGATATTG
15175708 G-TCTCATAAGAGCTTCCCGATATTTG
1 GCTCTCAT--GAGCTTCCCGATA-TTG
* * * **
15175734 GCTCACAAGAGCTTCTCGATATACA
1 GCTCTCATGAGCTTCCCGATAT-TG
* * *
15175759 GCTCGT-ATGAGCTTTCCGTTACTTA
1 GCTC-TCATGAGCTTCCCGATA-TTG
*
15175784 GCTCACATGAGCTTCC
1 GCTCTCATGAGCTTCC
15175800 AGTTATATGG
Statistics
Matches: 91, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
23 6 0.07
24 4 0.04
25 73 0.80
26 4 0.04
27 4 0.04
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (24 bp):
GCTCTCATGAGCTTCCCGATATTG
Found at i:15175813 original size:50 final size:49
Alignment explanation
Indices: 15175667--15175824 Score: 145
Period size: 50 Copynumber: 3.2 Consensus size: 49
15175657 CAGCTCTCTT
* * * * *
15175667 GAGCTTCCTGATACTTGGCTCTCATGAGCTTCCCGATATTTGTCTCATAA
1 GAGCTTCCCGATACTTGGCTCACATGAGCTT-CCGATATATGGCTCGTAA
* * ** *
15175717 GAGCTTCCCGATATTTGGCTCACAAGAGCTTCTCGATATACAGCTCGTAT
1 GAGCTTCCCGATACTTGGCTCACATGAGCTTC-CGATATATGGCTCGTAA
* * * * *
15175767 GAGCTTTCCGTTACTTAGCTCACATGAGCTTCCAGTTATATGGCTCGGAA
1 GAGCTTCCCGATACTTGGCTCACATGAGCTTCC-GATATATGGCTCGTAA
*
15175817 GATCTTCC
1 GAGCTTCC
15175825 TGTTTACATG
Statistics
Matches: 84, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
49 2 0.02
50 82 0.98
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (49 bp):
GAGCTTCCCGATACTTGGCTCACATGAGCTTCCGATATATGGCTCGTAA
Found at i:15176275 original size:54 final size:54
Alignment explanation
Indices: 15176214--15176322 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
15176204 AATTTCCTTG
*
15176214 TTATACGAACTTACTAAGCTTAAATGCTTACTCTATGTTATTTTTCATGTTTTA
1 TTATACGAACTTACTAAGCTTAAATGCTTACTCAATGTTATTTTTCATGTTTTA
15176268 TTATACGAACTTACTAAGCTTAAATGCTTACTCAATGTTATTTTTCATGTTTTA
1 TTATACGAACTTACTAAGCTTAAATGCTTACTCAATGTTATTTTTCATGTTTTA
15176322 T
1 T
15176323 AGTAATTCAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.48
Consensus pattern (54 bp):
TTATACGAACTTACTAAGCTTAAATGCTTACTCAATGTTATTTTTCATGTTTTA
Found at i:15182903 original size:27 final size:27
Alignment explanation
Indices: 15182873--15183010 Score: 167
Period size: 27 Copynumber: 5.1 Consensus size: 27
15182863 GTGATGAAGT
15182873 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
15182900 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* * *
15182927 CACTAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
15182954 CACCAGA-ACATATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
15182981 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
15183008 CAC
1 CAC
15183011 TAGGACGTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
26 10 0.11
27 81 0.85
28 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:15182957 original size:54 final size:54
Alignment explanation
Indices: 15182873--15183010 Score: 224
Period size: 54 Copynumber: 2.6 Consensus size: 54
15182863 GTGATGAAGT
*
15182873 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
15182927 CACTAGATCAGATAATCGTGGCATAGCCACCAGAACATATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
15182981 CACCAGATCAGATAATTGTGGCATAGCCAC
1 CACCAGATCAGATAATTGTGGCATAGCCAC
15183011 TAGGACGTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 72 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:15184632 original size:26 final size:26
Alignment explanation
Indices: 15184601--15184708 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
15184591 TGAAATGCCC
*
15184601 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
15184627 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
15184653 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
15184679 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15184705 ATCA
1 ATCA
15184709 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15184827 original size:30 final size:30
Alignment explanation
Indices: 15184791--15184850 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
15184781 AAAATGGGAG
15184791 GTTTGTCATGCAAATCCTCCTATTTTGCAC
1 GTTTGTCATGCAAATCCTCCTATTTTGCAC
15184821 GTTTGTCATGCAAATCCTCCTATTTTGCAC
1 GTTTGTCATGCAAATCCTCCTATTTTGCAC
15184851 TCCTATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (30 bp):
GTTTGTCATGCAAATCCTCCTATTTTGCAC
Found at i:15188960 original size:25 final size:25
Alignment explanation
Indices: 15188923--15188986 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
15188913 ACAGCTCTCT
* *
15188923 TGAGCTTCACGATACTTGGCTTTA-A
1 TGAGCTTCCCGATACTTGGC-TCACA
*
15188948 TGAGCTTCCCGATATTTGGCTCACA
1 TGAGCTTCCCGATACTTGGCTCACA
*
15188973 AGAGCTTCCCGATA
1 TGAGCTTCCCGATA
15188987 TATAGCTCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 2 0.06
25 32 0.94
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (25 bp):
TGAGCTTCCCGATACTTGGCTCACA
Found at i:15188987 original size:25 final size:25
Alignment explanation
Indices: 15188949--15189030 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
15188939 TGGCTTTAAT
*
15188949 GAGCTTCCCGATATTTGGCTCACAA
1 GAGCTTCCCGATATATGGCTCACAA
* ** *
15188974 GAGCTTCCCGATATATAGCTCGTAT
1 GAGCTTCCCGATATATGGCTCACAA
*
15188999 GAGCTTCCC-ATTATATGGCTCAGAA
1 GAGCTTCCCGA-TATATGGCTCACAA
15189024 GAGCTTC
1 GAGCTTC
15189031 TTGTTTACAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
24 1 0.02
25 46 0.98
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCTCACAA
Found at i:15193464 original size:28 final size:28
Alignment explanation
Indices: 15193432--15193503 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
15193422 ATATTCAATA
15193432 CATGTTATTTTAATTGTGTTACTACCTC
1 CATGTTATTTTAATTGTGTTACTACCTC
**
15193460 CATGTTATTTTAATCATGTTACTACCTC
1 CATGTTATTTTAATTGTGTTACTACCTC
15193488 CATGTTA--TTAATTGTG
1 CATGTTATTTTAATTGTG
15193504 CATTTCATCT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 7 0.17
28 33 0.82
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.49
Consensus pattern (28 bp):
CATGTTATTTTAATTGTGTTACTACCTC
Found at i:15195092 original size:17 final size:17
Alignment explanation
Indices: 15195070--15195104 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15195060 CCAACAATCA
15195070 AAGAAAAATG-AAAAGAG
1 AAGAAAAA-GAAAAAGAG
15195087 AAGAAAAAGAAAAAGAG
1 AAGAAAAAGAAAAAGAG
15195104 A
1 A
15195105 TGATCAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (17 bp):
AAGAAAAAGAAAAAGAG
Found at i:15196152 original size:20 final size:20
Alignment explanation
Indices: 15196129--15196167 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15196119 TATCGATACT
*
15196129 TTTCTTAAAGTATCAATATA
1 TTTCCTAAAGTATCAATATA
*
15196149 TTTCCTAAGGTATCAATAT
1 TTTCCTAAAGTATCAATAT
15196168 TTCTACTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (20 bp):
TTTCCTAAAGTATCAATATA
Found at i:15198356 original size:10 final size:11
Alignment explanation
Indices: 15198317--15198358 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
15198307 TATTTACGAA
*
15198317 GTTAATTGAGTG
1 GTTAATT-AGAG
15198329 GTTAATTAGAG
1 GTTAATTAGAG
*
15198340 TTTAATTA-AG
1 GTTAATTAGAG
15198350 GTTAATTAG
1 GTTAATTAG
15198359 GTATAAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.43
Consensus pattern (11 bp):
GTTAATTAGAG
Found at i:15201629 original size:76 final size:76
Alignment explanation
Indices: 15201503--15201651 Score: 271
Period size: 76 Copynumber: 2.0 Consensus size: 76
15201493 AACTCATAAG
* *
15201503 GTGATGTTGGGATTACCAGTCCAGGCTAAATCCCTTATAGCAACAAACACCCTTAATGAGATCGG
1 GTGATGTCGAGATTACCAGTCCAGGCTAAATCCCTTATAGCAACAAACACCCTTAATGAGATCGG
15201568 ATCTGAATGAC
66 ATCTGAATGAC
*
15201579 GTGATGTCGAGATTACCAGTCCAGGCTAAATCCCTTATAGCAACAAACACCCTTAATGAGCTCGG
1 GTGATGTCGAGATTACCAGTCCAGGCTAAATCCCTTATAGCAACAAACACCCTTAATGAGATCGG
15201644 ATCTGAAT
66 ATCTGAAT
15201652 TACCAATCCA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (76 bp):
GTGATGTCGAGATTACCAGTCCAGGCTAAATCCCTTATAGCAACAAACACCCTTAATGAGATCGG
ATCTGAATGAC
Found at i:15213776 original size:25 final size:25
Alignment explanation
Indices: 15213748--15213796 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15213738 AATGAGTTTG
* *
15213748 CCACAAGGGTTTTCTAGAGAATTCA
1 CCACAAAGGCTTTCTAGAGAATTCA
*
15213773 CCACAAAGGCTTTCTAGATAATTC
1 CCACAAAGGCTTTCTAGAGAATTC
15213797 GTGTTTACTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (25 bp):
CCACAAAGGCTTTCTAGAGAATTCA
Found at i:15214562 original size:21 final size:20
Alignment explanation
Indices: 15214520--15214563 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
15214510 GAAGAAGAAG
* * *
15214520 AAAAAGAGAACGTTGACGTT
1 AAAAAGAGAACCTGGACATT
15214540 AAAAAGAAGAACCTGGACATT
1 AAAAAG-AGAACCTGGACATT
15214561 AAA
1 AAA
15214564 TAGATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.52, C:0.11, G:0.20, T:0.16
Consensus pattern (20 bp):
AAAAAGAGAACCTGGACATT
Found at i:15219989 original size:12 final size:12
Alignment explanation
Indices: 15219967--15220066 Score: 50
Period size: 12 Copynumber: 8.4 Consensus size: 12
15219957 ATTAATTATT
15219967 AACATTGTTCATG
1 AACA-TGTTCATG
15219980 AACATGTTCAAT-
1 AACATGTTC-ATG
* *
15219992 TATATGTTCATG
1 AACATGTTCATG
*
15220004 AACATGTT-AGTT
1 AACATGTTCA-TG
* *
15220016 TA-ATGTTCGTG
1 AACATGTTCATG
15220027 AACATGTTCGAT-
1 AACATGTTC-ATG
* *
15220039 TA-A-GTTAAATG
1 AACATGTT-CATG
15220050 AACATGTTCATG
1 AACATGTTCATG
15220062 AACAT
1 AACAT
15220067 TAAACAAACG
Statistics
Matches: 63, Mismatches: 14, Indels: 21
0.64 0.14 0.21
Matches are distributed among these distances:
10 5 0.08
11 12 0.19
12 36 0.57
13 10 0.16
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (12 bp):
AACATGTTCATG
Found at i:15220028 original size:23 final size:24
Alignment explanation
Indices: 15219972--15220059 Score: 94
Period size: 23 Copynumber: 3.8 Consensus size: 24
15219962 TTATTAACAT
15219972 TGTTCATGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCAATTATA
*
15219996 TGTTCATGAACATGTT-AGTT-TAA
1 TGTTCATGAACATGTTCAATTAT-A
* *
15220019 TGTTCGTGAACATGTTCGATTA-A
1 TGTTCATGAACATGTTCAATTATA
*
15220042 -GTTAAATGAACATGTTCA
1 TGTT-CATGAACATGTTCA
15220060 TGAACATTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
22 4 0.08
23 31 0.58
24 18 0.34
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (24 bp):
TGTTCATGAACATGTTCAATTATA
Found at i:15220069 original size:23 final size:23
Alignment explanation
Indices: 15220025--15220070 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
15220015 TTAATGTTCG
* *
15220025 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
15220048 TGAACATGTTC-ATGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
15220071 CAAACGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:15221879 original size:13 final size:13
Alignment explanation
Indices: 15221861--15221885 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15221851 TTTTAAAAAG
15221861 CAACATGTAAATA
1 CAACATGTAAATA
15221874 CAACATGTAAAT
1 CAACATGTAAAT
15221886 GCAATTTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (13 bp):
CAACATGTAAATA
Found at i:15223018 original size:54 final size:54
Alignment explanation
Indices: 15222936--15223044 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
15222926 CTAATTCTAC
15222936 AGACACAAGGTGGAAATGGTTCAAGGTGTTGGAGTAGGTATATATATTATTTAG
1 AGACACAAGGTGGAAATGGTTCAAGGTGTTGGAGTAGGTATATATATTATTTAG
15222990 AGACACAAGGTGGAAATGGTTCAAGGTGTTGGAGTAGGTATATATATTATTTAG
1 AGACACAAGGTGGAAATGGTTCAAGGTGTTGGAGTAGGTATATATATTATTTAG
15223044 A
1 A
15223045 AATAACTCAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (54 bp):
AGACACAAGGTGGAAATGGTTCAAGGTGTTGGAGTAGGTATATATATTATTTAG
Found at i:15223928 original size:22 final size:22
Alignment explanation
Indices: 15223886--15223928 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
15223876 TTTATGTTCC
*
15223886 TTTATTTATCTTTGATTTTGTG
1 TTTATTTATCTTTGATATTGTG
*
15223908 TTTATCTTATTTTTG-TATTGT
1 TTTAT-TTATCTTTGATATTGT
15223929 ACTAAACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.14, C:0.05, G:0.12, T:0.70
Consensus pattern (22 bp):
TTTATTTATCTTTGATATTGTG
Found at i:15224998 original size:26 final size:26
Alignment explanation
Indices: 15224962--15225015 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
15224952 TTCTATATGT
15224962 AATTGCAGGATGATATAATGACATGG
1 AATTGCAGGATGATATAATGACATGG
15224988 AATTGCAGGATGATATAATGACATGG
1 AATTGCAGGATGATATAATGACATGG
15225014 AA
1 AA
15225016 GTATGTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.26
Consensus pattern (26 bp):
AATTGCAGGATGATATAATGACATGG
Found at i:15225519 original size:10 final size:10
Alignment explanation
Indices: 15225497--15225528 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
15225487 TAAAAATAAA
15225497 ATATTTTAA-
1 ATATTTTAAT
15225506 ATATTTTAAT
1 ATATTTTAAT
15225516 ATATTTTAAT
1 ATATTTTAAT
15225526 ATA
1 ATA
15225529 AAATATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATATTTTAAT
Found at i:15225527 original size:8 final size:9
Alignment explanation
Indices: 15225495--15225549 Score: 53
Period size: 9 Copynumber: 6.1 Consensus size: 9
15225485 TATAAAAATA
15225495 AAATATTTT
1 AAATATTTT
15225504 AAATATTTT
1 AAATATTTT
15225513 AATATATTTT
1 AA-ATATTTT
*
15225523 -AATA--TA
1 AAATATTTT
15225529 AAATATTATTT
1 AAATA-T-TTT
15225540 AAATATTTT
1 AAATATTTT
15225549 A
1 A
15225550 TATTAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
6 1 0.03
7 4 0.11
8 3 0.08
9 16 0.42
10 8 0.21
11 6 0.16
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AAATATTTT
Found at i:15225547 original size:36 final size:36
Alignment explanation
Indices: 15225449--15225549 Score: 109
Period size: 36 Copynumber: 2.9 Consensus size: 36
15225439 AAAAAAATTC
** *
15225449 TTTTAATATAAAATATTATTTCCACATTTTAGAAAA
1 TTTTAATATAAAATATTATTTAAATATTTTAGAAAA
* * * *
15225485 TATAAAAATAAAATA-T-TTTAAATATTTTA-ATATA
1 TTTTAATATAAAATATTATTTAAATATTTTAGA-AAA
15225519 TTTTAATATAAAATATTATTTAAATATTTTA
1 TTTTAATATAAAATATTATTTAAATATTTTA
15225550 TATTAAATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
33 1 0.02
34 24 0.46
35 2 0.04
36 25 0.48
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.48
Consensus pattern (36 bp):
TTTTAATATAAAATATTATTTAAATATTTTAGAAAA
Found at i:15225556 original size:26 final size:27
Alignment explanation
Indices: 15225510--15225564 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
15225500 TTTTAAATAT
15225510 TTTAATATATTTTAATATAAAATATTA
1 TTTAATATATTTTAATATAAAATATTA
*
15225537 TTTAA-ATATTTT-ATATTAAATTATTA
1 TTTAATATATTTTAATA-TAAAATATTA
15225563 TT
1 TT
15225565 CTTTTGATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 3 0.12
26 18 0.69
27 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTAATATATTTTAATATAAAATATTA
Found at i:15226092 original size:18 final size:18
Alignment explanation
Indices: 15226069--15226110 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
15226059 TAAATTCTAT
15226069 TGAGTGATTTGTGAGATA
1 TGAGTGATTTGTGAGATA
15226087 TGAGTGATTTGTGAGATA
1 TGAGTGATTTGTGAGATA
15226105 TGAGTG
1 TGAGTG
15226111 TTTCGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (18 bp):
TGAGTGATTTGTGAGATA
Found at i:15227365 original size:11 final size:12
Alignment explanation
Indices: 15227338--15227378 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
15227328 GATTAAAATT
* *
15227338 GAAATTAAAGAA
1 GAAATTGAATAA
15227350 GAAATTGAAT-A
1 GAAATTGAATAA
15227361 GAAATTGAATAA
1 GAAATTGAATAA
15227373 GAAATT
1 GAAATT
15227379 TAAATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.59, C:0.00, G:0.17, T:0.24
Consensus pattern (12 bp):
GAAATTGAATAA
Found at i:15234024 original size:19 final size:21
Alignment explanation
Indices: 15234000--15234044 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
15233990 CGTGACAGTA
15234000 CATGT-CCT-GACCACACGGG
1 CATGTCCCTAGACCACACGGG
15234019 CATGTCCCTAGACCACACGGG
1 CATGTCCCTAGACCACACGGG
15234040 CATGT
1 CATGT
15234045 GAGCCCTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.21
20 3 0.12
21 16 0.67
ACGTcount: A:0.22, C:0.36, G:0.24, T:0.18
Consensus pattern (21 bp):
CATGTCCCTAGACCACACGGG
Found at i:15242212 original size:50 final size:50
Alignment explanation
Indices: 15242158--15242344 Score: 179
Period size: 50 Copynumber: 3.8 Consensus size: 50
15242148 GTATGTGGAG
*
15242158 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTCCATCTGT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCGTCCATCTGT
* * * *
15242208 GCTGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-T-CA--T-A
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCGTCCATCTGT
* * * * *
15242254 GCCGATGCCATGTCCCAAACATTGTCTTACATTGGCTCTCATCTATCTGT
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCGTCCATCTGT
* * * * *
15242304 -ATCGATGTCATATCTCAAACATGGTCTTACACTAGCTCTCG
1 GCT-GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCG
15242345 AATAACTCCA
Statistics
Matches: 110, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
45 2 0.02
46 33 0.30
47 2 0.02
49 3 0.03
50 68 0.62
51 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (50 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCGTCCATCTGT
Found at i:15242302 original size:96 final size:96
Alignment explanation
Indices: 15242161--15242336 Score: 246
Period size: 96 Copynumber: 1.8 Consensus size: 96
15242151 TGTGGAGGCT
* * * *
15242161 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTCCATCTGT-GCTGATGCCATGTCCCA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCCATCTGTATC-GATGCCATATCCCA
*
15242225 GACATGGTCTTACACTGACACATCTCATAGCC
65 AACATGGTCTTACACTGACACATCTCATAGCC
* * * * *
15242257 GATGCCATGTCCCAAACATTGTCTTACATTGGCTCTCATCTATCTGTATCGATGTCATATCTCAA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCCATCTGTATCGATGCCATATCCCAA
15242322 ACATGGTCTTACACT
66 ACATGGTCTTACACT
15242337 AGCTCTCGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 68 0.99
97 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.31
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCCATCTGTATCGATGCCATATCCCAA
ACATGGTCTTACACTGACACATCTCATAGCC
Found at i:15242732 original size:29 final size:29
Alignment explanation
Indices: 15242670--15242732 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
15242660 TCACATTTTT
**
15242670 GACAAAATGACCATTTTTCCCTAGACTTTC
1 GACAAAATGACCATTTACCCCTAGAC-TTC
*
15242700 -ACAAAATGACCATTTCACCCCTAGGC-TC
1 GACAAAATGACCATTT-ACCCCTAGACTTC
15242728 GACAA
1 GACAA
15242733 TCGATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 2 0.07
29 19 0.68
30 7 0.25
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.25
Consensus pattern (29 bp):
GACAAAATGACCATTTACCCCTAGACTTC
Found at i:15247852 original size:40 final size:39
Alignment explanation
Indices: 15247815--15248075 Score: 292
Period size: 40 Copynumber: 6.5 Consensus size: 39
15247805 GCTACTCGTT
*
15247815 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
15247855 CAAATACCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
*
15247895 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
* **
15247935 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCATA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * *
15247975 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
15248014 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
15248055 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTC-GGACTTAGCC
15248076 TGGACATCAT
Statistics
Matches: 190, Mismatches: 26, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
39 36 0.19
40 141 0.74
41 13 0.07
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:15248027 original size:79 final size:80
Alignment explanation
Indices: 15247815--15248075 Score: 341
Period size: 80 Copynumber: 3.3 Consensus size: 80
15247805 GCTACTCGTT
* * * **
15247815 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCACAAATACCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
*
15247878 GGATTTAGTAACTTGCA
64 GGATTTAGTAACTTACA
*
15247895 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
* *
15247960 ATTTAGTAACTCATA
66 ATTTAGTAACTTACA
* *
15247975 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
* * *
15248039 ATATGGTCACTTAGCA
66 ATTTAGTAACTTA-CA
15248055 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
15248076 TGGACATCAT
Statistics
Matches: 160, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
79 68 0.43
80 90 0.56
81 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
ATTTAGTAACTTACA
Found at i:15263138 original size:27 final size:27
Alignment explanation
Indices: 15263107--15263284 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
15263097 TAAATTGTAC
15263107 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
15263134 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
15263160 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
15263188 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
15263216 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
15263243 ACCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
15263270 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
15263285 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:15263249 original size:82 final size:81
Alignment explanation
Indices: 15263108--15263263 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
15263098 AAATTGTACA
* * *
15263108 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATCCACTAAGTGT
15263173 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*** *
15263189 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TACCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-CCACTAAGT
*
15263253 GTGCGAGTTGA
64 GTGCGAATTGA
15263264 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 49 0.75
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATCCACTAAGTGT
GCGAATTGACCATGCG
Found at i:15263275 original size:82 final size:81
Alignment explanation
Indices: 15263104--15263284 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
15263094 GATTAAATTG
* * *
15263104 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATCCACTAA
15263169 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *** *
15263185 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TACCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-CCACT
* **
15263249 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
15263267 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
15263285 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATCCACTAA
GTGTGCGAATTGACCA
Found at i:15267216 original size:25 final size:25
Alignment explanation
Indices: 15267134--15267219 Score: 93
Period size: 25 Copynumber: 3.5 Consensus size: 25
15267124 CGAGCTCTGA
* * *
15267134 ATTGGTATGCTCTTACAAGCTGTA-
1 ATTGGTAAGCTCATACAAGCTGAAT
* * * *
15267158 ATCGGTAAACTCATACGAGCTGAGT
1 ATTGGTAAGCTCATACAAGCTGAAT
*
15267183 AATGGTAAGCTCATACAAGCTGAAT
1 ATTGGTAAGCTCATACAAGCTGAAT
15267208 ATTGGTAAGCTC
1 ATTGGTAAGCTC
15267220 TCTCGAGTTG
Statistics
Matches: 48, Mismatches: 13, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
24 17 0.35
25 31 0.65
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (25 bp):
ATTGGTAAGCTCATACAAGCTGAAT
Found at i:15271562 original size:41 final size:41
Alignment explanation
Indices: 15271524--15271622 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
15271514 TAAGGGCATA
* * *
15271524 TATGTGCAATTCAGGGGTACTGAAGTACAAACACGGGCACG
1 TATGTGCAATTCAAGGATACTAAAGTACAAACACGGGCACG
* * *
15271565 TATGTGCTATTCAATGATACTAAAGTACAAACAGGGGCACG
1 TATGTGCAATTCAAGGATACTAAAGTACAAACACGGGCACG
*
15271606 TATATGCAATTCAAGGA
1 TATGTGCAATTCAAGGA
15271623 AAAACTAACT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (41 bp):
TATGTGCAATTCAAGGATACTAAAGTACAAACACGGGCACG
Found at i:15275442 original size:40 final size:40
Alignment explanation
Indices: 15275398--15275541 Score: 168
Period size: 40 Copynumber: 3.6 Consensus size: 40
15275388 AATTCGGATA
15275398 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGAC
1 TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGAC
** *
15275438 TATATATGGCACTTAGTGTGAAATTCG-GAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGATTCGAG-ATAGCTTCGAC
* *
15275478 TATATATGGCACTTAGCGTGCAAGACT-GAGATAGCTTC-ACC
1 TATATATGGCACTTAGTGTGC--GATTCGAGATAGCTTCGA-C
* *
15275519 TATGTAAGGCACTTAGTGTGCGA
1 TATATATGGCACTTAGTGTGCGA
15275542 GATATCGAGT
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
39 3 0.03
40 54 0.61
41 28 0.32
42 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (40 bp):
TATATATGGCACTTAGTGTGCGATTCGAGATAGCTTCGAC
Found at i:15281784 original size:20 final size:20
Alignment explanation
Indices: 15281759--15281798 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15281749 AAGAATGTAC
*
15281759 AAAGAATAATAATACTAATA
1 AAAGAATAATAATAATAATA
15281779 AAAGAATAATAATAATAATA
1 AAAGAATAATAATAATAATA
15281799 GAAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAGAATAATAATAATAATA
Found at i:15281788 original size:17 final size:17
Alignment explanation
Indices: 15281766--15281806 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
15281756 TACAAAGAAT
*
15281766 AATAATACTAATAAAAG
1 AATAATAATAATAAAAG
*
15281783 AATAATAATAATAATAG
1 AATAATAATAATAAAAG
15281800 AA-AATAA
1 AATAATAA
15281807 AATTCTAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (17 bp):
AATAATAATAATAAAAG
Found at i:15282169 original size:7 final size:7
Alignment explanation
Indices: 15282147--15282215 Score: 63
Period size: 7 Copynumber: 9.9 Consensus size: 7
15282137 AACAAAAAAG
15282147 AAATAAT
1 AAATAAT
15282154 -AATAAT
1 AAATAAT
*
15282160 AAATAGT
1 AAATAAT
*
15282167 AAATAAG
1 AAATAAT
*
15282174 AACTAA-
1 AAATAAT
15282180 AAATTAAT
1 AAA-TAAT
15282188 AAA-ATAT
1 AAATA-AT
15282195 AATATAAT
1 AA-ATAAT
15282203 AAATAAT
1 AAATAAT
15282210 AAATAA
1 AAATAA
15282216 AAAAAAGACA
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
6 9 0.18
7 33 0.65
8 8 0.16
9 1 0.02
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:15287813 original size:41 final size:41
Alignment explanation
Indices: 15287721--15287831 Score: 150
Period size: 41 Copynumber: 2.7 Consensus size: 41
15287711 ACCGGAGTGT
*
15287721 AAATAGGGGCACGTGTGTGCAATTCAGGGGTACCGAAGTAC
1 AAATAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTAC
* * *
15287762 AAACAAGGGCACGTATGTGCAATTCAGGGGTACTGAAGTAC
1 AAATAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTAC
* * * *
15287803 AAATGGGGGCATGTATGTTCAATTTAGGG
1 AAATAGGGGCACGTATGTGCAATTCAGGG
15287832 AATAATTAAC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (41 bp):
AAATAGGGGCACGTATGTGCAATTCAGGGGTACCGAAGTAC
Found at i:15289877 original size:16 final size:16
Alignment explanation
Indices: 15289856--15289887 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15289846 TAATGACTCG
15289856 AAAAGACTTCAATTTA
1 AAAAGACTTCAATTTA
15289872 AAAAGACTTCAATTTA
1 AAAAGACTTCAATTTA
15289888 CAGTAATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (16 bp):
AAAAGACTTCAATTTA
Found at i:15290706 original size:12 final size:12
Alignment explanation
Indices: 15290689--15290714 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15290679 AATTATAAAA
15290689 AAGAGTTAAACC
1 AAGAGTTAAACC
15290701 AAGAGTTAAACC
1 AAGAGTTAAACC
15290713 AA
1 AA
15290715 TCTATATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.15, G:0.15, T:0.15
Consensus pattern (12 bp):
AAGAGTTAAACC
Found at i:15293421 original size:40 final size:40
Alignment explanation
Indices: 15293357--15293621 Score: 324
Period size: 40 Copynumber: 6.7 Consensus size: 40
15293347 GCTACTCGTT
* **
15293357 CAAATGCCTTCTGGACAAAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
15293397 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
15293437 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
15293477 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
15293517 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
15293556 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
15293597 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
15293622 CATCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 35 0.18
40 145 0.74
41 15 0.08
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:15301428 original size:40 final size:40
Alignment explanation
Indices: 15301384--15301643 Score: 325
Period size: 40 Copynumber: 6.5 Consensus size: 40
15301374 GCTACTTGTT
*
15301384 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
15301424 CAAATACCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
15301463 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
15301503 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* *
15301543 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
15301582 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
15301623 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
15301644 TGGACATCAT
Statistics
Matches: 193, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 68 0.35
40 110 0.57
41 13 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:15301487 original size:79 final size:80
Alignment explanation
Indices: 15301384--15301643 Score: 350
Period size: 79 Copynumber: 3.3 Consensus size: 80
15301374 GCTACTTGTT
* * **
15301384 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATACCTTCGGA-CTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
15301448 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
*
15301463 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
*
15301527 GATTTAGTAACTCGTA
65 GATTTAGTAACTCGCA
* *
15301543 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
* * * *
15301606 GATATGGTCACTTAGCA
65 GATTTAGTAAC-TCGCA
15301623 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
15301644 TGGACATCAT
Statistics
Matches: 161, Mismatches: 14, Indels: 11
0.87 0.08 0.06
Matches are distributed among these distances:
79 109 0.68
80 52 0.32
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
ATTTAGTAACTCGCA
Found at i:15301607 original size:119 final size:119
Alignment explanation
Indices: 15301351--15301643 Score: 312
Period size: 119 Copynumber: 2.5 Consensus size: 119
15301341 AAATCACGTA
* * **
15301351 CCTTCGGAATTTAA-CCGGATATAGCT-ACTT-GTTCAAATGCCTTCGGGACATAGCCCGGTTAT
1 CCTTCGGGACTTAACCCGGATATAG-TAACTTAGCACAAATGCCTTC-GGACATAGCCCGGTTAT
*
15301413 AGTAACTCGCACAAATACCTTCGGACTTAACCCGGATTTAGTAACTCGCACAAATG
64 AGTAACTCGCACAAATACCTTCGGACTTAACCCGGAATTAGTAACTCGCACAAATG
* * * *
15301469 CCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGATCTTAGTCCGGATT-T
1 CCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGA-CATAGCCCGG-TTAT
* * * * *
15301532 AGTAACTCGTACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATG
64 AGTAACTCGCACAAATACCTTCGGACTTAACCCGGAATTAGTAACTCGCACAAATG
** * * *
15301588 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CCTTCGGGA-CTTAACCCGGATATAGTAACTTAGCACAAATGCCTTC-GGACATAGCC
15301644 TGGACATCAT
Statistics
Matches: 147, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
118 20 0.14
119 114 0.78
120 13 0.09
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (119 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTTAGCACAAATGCCTTCGGACATAGCCCGGTTATAG
TAACTCGCACAAATACCTTCGGACTTAACCCGGAATTAGTAACTCGCACAAATG
Found at i:15306752 original size:50 final size:50
Alignment explanation
Indices: 15306648--15307018 Score: 266
Period size: 50 Copynumber: 7.5 Consensus size: 50
15306638 TGAAGTCGAT
* *
15306648 GCCATGTCCCAGACATGGTCTTACACT-AGC--TCATGTATCAAAG-TCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTATCATGTATCAAGGCT-GAA
* * * *
15306696 GTCATGTCACAAAAATGGTCTTACACTGACTATCATGTATCAAGGCTGAA
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCAAGGCTGAA
* * * * * * * *
15306746 GCCATGTCACAGACATGGTCTTACACTAGA-TCTCGTATGTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-GACTATCATGTATCAAGGCTGAA
* * *
15306796 GCCATGTCCCAAACATGGTCTTACACTGAC-A-CA--TCTCATA-GCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCA-AGGCTGAA
* * * * ** *
15306842 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCGATAC-CAA
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCAAGGCTGAA
* * * * * *
15306891 TGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATCTATC--GGTTCCAA
1 -GCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCAAGGCT-GAA
* * * *
15306941 TGCCATGTCCCAAACATGGTCTTACACTGACTATCATGTACCGAGGCCGACA
1 -GCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCAAGGCTGA-A
15306993 -CCATGTCCCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
15307019 AGCTCTCGAA
Statistics
Matches: 260, Mismatches: 45, Indels: 34
0.77 0.13 0.10
Matches are distributed among these distances:
46 36 0.14
47 1 0.00
48 27 0.10
49 5 0.02
50 184 0.71
51 4 0.02
52 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCATGTATCAAGGCTGAA
Found at i:15306910 original size:146 final size:146
Alignment explanation
Indices: 15306644--15307025 Score: 367
Period size: 146 Copynumber: 2.6 Consensus size: 146
15306634 GGTATGAAGT
* * * *
15306644 CGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCATGTATCAAAG-TCGATGTCATGTCACA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGA-CACA--TATCAAAGCT-GATGCCATGTCCCA
* * * * * * *
15306707 AAAATGGTCTTACACTGACTATCATGTATCAAGGCTGAAGCCATGTCACAGACATGGTCTTACAC
62 GACATGGTCTTACACTGGCTCTCATCTATCAAGACTCAAGCCATGTCACAGACATGGTCTTACAC
* *
15306772 TAGATCTCGTATGTCGAG-GC
127 TAGATCTCATATATCG-GTGC
* *
15306792 CGATGCCATGTCCCAAACATGGTCTTACACTGACACATCTCATAGCTGATGCCATGTCCCAGACA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACACATATCAAAGCTGATGCCATGTCCCAGACA
* * * * *
15306857 TGGTCTTACACTGGCTCTCATCTATCGATAC-CAATGCCATGTCCCAGACATGGTCTTACATTGG
66 TGGTCTTACACTGGCTCTCATCTATCAAGACTCAA-GCCATGTCACAGACATGGTCTTACACTAG
* * *
15306921 CTCTCATCTATCGGTTC
130 ATCTCATATATCGGTGC
* * * * * **
15306938 CAATGCCATGTCCCAAACATGGTCTTACACTGACTATCATGTACCGAGGCCGACACCATGTCCCA
1 CGATGCCATGTCCCAAACATGGTCTTACACTGAC-A-CA--TATCAAAGCTGATGCCATGTCCCA
*
15307003 GACATGGTCTTACACTAGCTCTC
62 GACATGGTCTTACACTGGCTCTC
15307026 GAATAACCCA
Statistics
Matches: 193, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
145 3 0.02
146 114 0.59
147 2 0.01
148 35 0.18
149 1 0.01
150 38 0.20
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (146 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACACATATCAAAGCTGATGCCATGTCCCAGACA
TGGTCTTACACTGGCTCTCATCTATCAAGACTCAAGCCATGTCACAGACATGGTCTTACACTAGA
TCTCATATATCGGTGC
Found at i:15308834 original size:2 final size:2
Alignment explanation
Indices: 15308829--15308871 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
15308819 TCCTATTTTT
15308829 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
15308871 T
1 T
15308872 ATTTTGACGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:15309554 original size:23 final size:23
Alignment explanation
Indices: 15309528--15309582 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
15309518 ATTTATGACC
15309528 TGTCTCGAGTCATGGAGACCCTT
1 TGTCTCGAGTCATGGAGACCCTT
15309551 TGTCTCGAGTCATGGAGACCCTT
1 TGTCTCGAGTCATGGAGACCCTT
15309574 TGTCTCGAG
1 TGTCTCGAG
15309583 ATATAAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.31
Consensus pattern (23 bp):
TGTCTCGAGTCATGGAGACCCTT
Found at i:15318353 original size:29 final size:32
Alignment explanation
Indices: 15318313--15318379 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
15318303 ATGTTTGTTT
*
15318313 TTTAATTTTAT-ATA-CTCATATATA-TTAAA
1 TTTATTTTTATAATATCTCATATATATTTAAA
**
15318342 TTTATTTTTATAATATCTTTTATATATTTAAA
1 TTTATTTTTATAATATCTCATATATATTTAAA
15318374 -TTATTT
1 TTTATTT
15318380 GTTGATGTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 10 0.31
30 3 0.09
31 14 0.44
32 5 0.16
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (32 bp):
TTTATTTTTATAATATCTCATATATATTTAAA
Found at i:15318749 original size:24 final size:22
Alignment explanation
Indices: 15318708--15318754 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
15318698 AGATAAAATA
*
15318708 TAAATTTTTTTATAAAATTTAT
1 TAAATTTTTTTATAAAATATAT
*
15318730 TAAATTTTTATTTATGAAATATAT
1 TAAA-TTTT-TTTATAAAATATAT
15318754 T
1 T
15318755 TATTATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 4 0.19
24 13 0.62
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TAAATTTTTTTATAAAATATAT
Found at i:15324625 original size:14 final size:14
Alignment explanation
Indices: 15324607--15324640 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
15324597 AAAAATCTAA
15324607 AAAAATGAA-TATT
1 AAAAATGAATTATT
15324620 ATAAAATGAATTATT
1 A-AAAATGAATTATT
15324635 AAAAAT
1 AAAAAT
15324641 AGTAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 13 0.68
15 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (14 bp):
AAAAATGAATTATT
Found at i:15324667 original size:20 final size:22
Alignment explanation
Indices: 15324621--15324667 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 22
15324611 ATGAATATTA
15324621 TAAAATGAATTATTAAAAATAG
1 TAAAATGAATTATTAAAAATAG
*
15324643 T-AAAT-AATTA-TAAAAATAT
1 TAAAATGAATTATTAAAAATAG
15324662 TAAAAT
1 TAAAAT
15324668 TTATAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 9 0.39
21 4 0.17
22 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (22 bp):
TAAAATGAATTATTAAAAATAG
Found at i:15325390 original size:18 final size:17
Alignment explanation
Indices: 15325349--15325393 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
15325339 TGTAAAAACA
*
15325349 TTAATCTTTATAACTTT
1 TTAATTTTTATAACTTT
*
15325366 TAGAATTTTTATAAACTTT
1 T-TAATTTTTAT-AACTTT
15325385 TTAATTTTT
1 TTAATTTTT
15325394 TTATTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 15 0.65
19 7 0.30
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (17 bp):
TTAATTTTTATAACTTT
Found at i:15327715 original size:14 final size:13
Alignment explanation
Indices: 15327696--15327733 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
15327686 TTAAATTGAT
15327696 TAAAATATTTATAA
1 TAAAATATTTAT-A
15327710 TAAAATATTT-TA
1 TAAAATATTTATA
*
15327722 TTAAATATTTAT
1 TAAAATATTTAT
15327734 TATTTTACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 10 0.45
13 2 0.09
14 10 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAAATATTTATA
Found at i:15328028 original size:21 final size:21
Alignment explanation
Indices: 15328002--15328055 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
15327992 CACCATTGTT
*
15328002 TCTAATCTCACTGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
15328023 TCTAATTTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
15328044 ACTAATCTCACC
1 TCTAATCTCACC
15328056 ACCACCGGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.31
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:15328698 original size:19 final size:19
Alignment explanation
Indices: 15328650--15328692 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
15328640 ATTATTTGTA
15328650 AAATTTAATTTGAATATAT
1 AAATTTAATTTGAATATAT
15328669 AAATTTAATTTGAATATAT
1 AAATTTAATTTGAATATAT
15328688 AAATT
1 AAATT
15328693 ATATTTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
AAATTTAATTTGAATATAT
Found at i:15328709 original size:19 final size:20
Alignment explanation
Indices: 15328650--15328715 Score: 75
Period size: 19 Copynumber: 3.5 Consensus size: 20
15328640 ATTATTTGTA
*
15328650 AAATT-TAATTTGAATATAT
1 AAATTATAATTTCAATATAT
*
15328669 AAATT-TAATTTGAATATAT
1 AAATTATAATTTCAATATAT
*
15328688 AAATTATATTTTCAATAT-T
1 AAATTATAATTTCAATATAT
*
15328707 AAAATATAA
1 AAATTATAA
15328716 CAAATACAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 32 0.76
20 10 0.24
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (20 bp):
AAATTATAATTTCAATATAT
Found at i:15338598 original size:59 final size:59
Alignment explanation
Indices: 15338441--15338602 Score: 209
Period size: 59 Copynumber: 2.7 Consensus size: 59
15338431 TTTATTTTTT
* * **
15338441 AATATATTTGTACAAATTGTTTTTATATTGTTTCATTTAATAAAATAGAAATTCTTTTG
1 AATATATTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAAAAGAAATTCTTTAA
* * * *
15338500 AATATTTTTGTACAAATTATTTTTATACTATTTCATTTAATAAAAAAGAAGTTCTTTAA
1 AATATATTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAAAAGAAATTCTTTAA
* * *
15338559 AATATGTTTGTGCAAATTATTTTT-TCATTGTTTCGTTTAATAAA
1 AATATATTTGTACAAATTATTTTTAT-ATTGTTTCATTTAATAAA
15338603 TTAGGAGTTA
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
58 1 0.01
59 88 0.99
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (59 bp):
AATATATTTGTACAAATTATTTTTATATTGTTTCATTTAATAAAAAAGAAATTCTTTAA
Done.