Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 68 of 207
Found at i:19689423 original size:103 final size:102
Alignment explanation
Indices: 19689309--19689664 Score: 502
Period size: 103 Copynumber: 3.5 Consensus size: 102
19689299 GGATTGCTGT
*
19689309 GTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTTGAAG
1 GTGCTGATTCCCCTATCCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATG-TGAAG
*
19689374 GGGGCTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAA
65 GGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAA
19689412 GTGCTGATTCCCCTA-CCTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAA
1 GTGCTGATTCCCCTATCC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG-AA
19689476 GGGGGTTGCTAAGTGCTGATTCCCCCCGAGGGGTTGCTAA
64 GGGGGTTGCTAAGTGCTGATT-CCCCCGAGGGGTTGCTAA
* * * * *
19689516 GTGCTGATT-CCCTGACCCATTTGGTGGTTGCTAAGTGCTGGTTCCACCGCATCTGAAATGTGAA
1 GTGCTGATTCCCCT-ATCCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAA
* * **
19689580 GGGGGTTGCTAAGCGCTGATTCCCCCAAGGGGTTGCTGT
64 GGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAA
* * * *
19689619 GTGCTGATTCCCCGATTCATTGGTGG-TGCTAAGTGCGGAATCCACC
1 GTGCTGATTCCCCTATCCATTGGTGGTTGCTAAGTGCTGATTCCACC
19689665 AACAACGGTT
Statistics
Matches: 230, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
101 17 0.07
102 10 0.04
103 109 0.47
104 54 0.23
105 40 0.17
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (102 bp):
GTGCTGATTCCCCTATCCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGG
GGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAA
Found at i:19689445 original size:33 final size:33
Alignment explanation
Indices: 19689403--19689560 Score: 112
Period size: 33 Copynumber: 4.6 Consensus size: 33
19689393 TCCCCCGAGG
19689403 GGTTGCTAAGTGCTGATTCCCCTACCTATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTACCTATTGGT
** *
19689436 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA-CCT--AT-T----GGT
*
19689479 GGTTGCTAAGTGCTGATTCCCC--CCGA--GG-
1 GGTTGCTAAGTGCTGATTCCCCTACCTATTGGT
*
19689507 GGTTGCTAAGTGCTGATT-CCCTGACCCATTTGGT
1 GGTTGCTAAGTGCTGATTCCCCT-ACCTA-TTGGT
*
19689541 GGTTGCTAAGTGCTGGTTCC
1 GGTTGCTAAGTGCTGATTCC
19689561 ACCGCATCTG
Statistics
Matches: 99, Mismatches: 8, Indels: 34
0.70 0.06 0.24
Matches are distributed among these distances:
27 3 0.03
28 18 0.18
29 2 0.02
30 3 0.03
33 22 0.22
34 19 0.19
35 3 0.03
36 2 0.02
38 2 0.02
39 1 0.01
42 2 0.02
43 22 0.22
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCTACCTATTGGT
Found at i:19693063 original size:6 final size:6
Alignment explanation
Indices: 19693052--19693077 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
19693042 GTGGTTGGAA
19693052 GAAGTG GAAGTG GAAGTG GAAGTG GA
1 GAAGTG GAAGTG GAAGTG GAAGTG GA
19693078 TTTCTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.50, T:0.15
Consensus pattern (6 bp):
GAAGTG
Found at i:19698850 original size:21 final size:22
Alignment explanation
Indices: 19698803--19698851 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
19698793 TATTTCAGCT
* *
19698803 GTTAGGTTGTTAACAATAGCAATA
1 GTTAAGTTATTAACAATAGC-A-A
19698827 GTTAAGTTATTAACAATAGC-A
1 GTTAAGTTATTAACAATAGCAA
19698848 GTTA
1 GTTA
19698852 TTCAGATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 5 0.22
24 18 0.78
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (22 bp):
GTTAAGTTATTAACAATAGCAA
Found at i:19703619 original size:27 final size:26
Alignment explanation
Indices: 19703558--19703619 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
19703548 AAGTACCATA
19703558 AAATTAAA-TATATTTGACTTTTTTC
1 AAATTAAATTATATTTGACTTTTTTC
**
19703583 ATAAACAAATTATATTTGACTTTAATTT-
1 A-AATTAAATTATATTTGACTTT--TTTC
19703611 AAATTAAAT
1 AAATTAAAT
19703620 ATTTTAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
25 1 0.03
26 5 0.17
27 19 0.66
28 1 0.03
29 3 0.10
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (26 bp):
AAATTAAATTATATTTGACTTTTTTC
Found at i:19708635 original size:95 final size:93
Alignment explanation
Indices: 19708470--19708665 Score: 211
Period size: 95 Copynumber: 2.1 Consensus size: 93
19708460 TAATACATAC
* * * * ** *
19708470 ATAATAATATATAAAAAGGTTGAAACAAGCGAAATATATAAAGTAGGGTTTTTAAAAGAAAATAA
1 ATAATAATATATAAAAAGGTTGAAACAAACAAAATAAATAAAATAGGGTTCCTAAAAAAAAATAA
*
19708535 TTATATATATATAGGAATAAGTAAATAT-AT
66 TTATATATATATA-G-ATAAATAAA-ATGAT
*
19708565 ATAATAATATATACAAAA-GTTGAAATAAACAAAATAAATTAAAATAGGG-TCCTAAAAAATAAA
1 ATAATAATATATA-AAAAGGTTGAAACAAACAAAATAAA-TAAAATAGGGTTCCTAAAAAA-AAA
* *
19708628 TTA-TATATATGTATAGATAAATAAAATGAT
63 TAATTATATATATATAGATAAATAAAATGAT
19708658 ATAATAAT
1 ATAATAAT
19708666 GTATTATATA
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
92 2 0.02
93 18 0.21
94 1 0.01
95 47 0.55
96 18 0.21
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.30
Consensus pattern (93 bp):
ATAATAATATATAAAAAGGTTGAAACAAACAAAATAAATAAAATAGGGTTCCTAAAAAAAAATAA
TTATATATATATAGATAAATAAAATGAT
Found at i:19708908 original size:17 final size:16
Alignment explanation
Indices: 19708870--19708912 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
19708860 AATAACGGTG
19708870 ATAATAATAATAAAAA
1 ATAATAATAATAAAAA
**
19708886 ATTAATAATAATAGATTA
1 A-TAATAATAATA-AAAA
19708904 ATAATAATA
1 ATAATAATA
19708913 TTACTGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 19 0.83
18 3 0.13
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATAATAATAATAAAAA
Found at i:19708911 original size:14 final size:14
Alignment explanation
Indices: 19708874--19708912 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
19708864 ACGGTGATAA
*
19708874 TAATAATAAAAAAT
1 TAATAATAATAAAT
*
19708888 TAATAATAATAGAT
1 TAATAATAATAAAT
19708902 TAATAATAATA
1 TAATAATAATA
19708913 TTACTGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:19712221 original size:15 final size:15
Alignment explanation
Indices: 19712198--19712235 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
19712188 CAAAAGTAAA
* *
19712198 AAATCAAATTATGTT
1 AAATTAAATTATATT
19712213 AAATTAAATTATATT
1 AAATTAAATTATATT
19712228 -AATTAAAT
1 AAATTAAAT
19712236 CACTAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (15 bp):
AAATTAAATTATATT
Found at i:19714552 original size:24 final size:23
Alignment explanation
Indices: 19714520--19714565 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
19714510 TGCTTCGATT
*
19714520 TTTATTTTTAATGCATATATTTTC
1 TTTATTTTTAATCCATAT-TTTTC
19714544 TTTATTTTTAATCCATATTTTT
1 TTTATTTTTAATCCATATTTTT
19714566 AATAATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTATTTTTAATCCATATTTTTC
Found at i:19715039 original size:19 final size:19
Alignment explanation
Indices: 19715015--19715066 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
19715005 TAGTATGGTA
19715015 AATTATATTTAATAAAAAT
1 AATTATATTTAATAAAAAT
* *
19715034 AATTATATTTGA-AACAAT
1 AATTATATTTAATAAAAAT
* *
19715052 TATTTTATTTAATAA
1 AATTATATTTAATAA
19715067 TATTAGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 14 0.52
19 13 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
AATTATATTTAATAAAAAT
Found at i:19729358 original size:15 final size:15
Alignment explanation
Indices: 19729338--19729367 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19729328 CTTTGGGTTC
19729338 CCTTTTAAAAGTATA
1 CCTTTTAAAAGTATA
19729353 CCTTTTAAAAGTATA
1 CCTTTTAAAAGTATA
19729368 GTAAAAATAC
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:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
CCTTTTAAAAGTATA
Found at i:19735375 original size:16 final size:16
Alignment explanation
Indices: 19735351--19735384 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
19735341 CATTTAAAGG
*
19735351 AAAATGAATATTGTAA
1 AAAAGGAATATTGTAA
19735367 AAAAGGAATATTGTAA
1 AAAAGGAATATTGTAA
19735383 AA
1 AA
19735385 GTTTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (16 bp):
AAAAGGAATATTGTAA
Found at i:19735643 original size:31 final size:30
Alignment explanation
Indices: 19735608--19735685 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 30
19735598 TTTATAAGGG
19735608 TTTTGAAAATATTAATTAAATTATTTAAAAT
1 TTTTGAAAATATTAATTAAATTATTT-AAAT
* * * *
19735639 TTTTGAAAATTTTCATTAATTTCTTTAAAT
1 TTTTGAAAATATTAATTAAATTATTTAAAT
** *
19735669 TTTAAAAAAAATTAATT
1 TTTTGAAAATATTAATT
19735686 GTATCCCTAT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 16 0.42
31 22 0.58
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (30 bp):
TTTTGAAAATATTAATTAAATTATTTAAAT
Found at i:19735756 original size:891 final size:888
Alignment explanation
Indices: 19734702--19736420 Score: 3005
Period size: 891 Copynumber: 1.9 Consensus size: 888
19734692 AAAAAATTTA
* *
19734702 ATTAAGTTTTATAAGGGTTTTAAAAATATTAATTAAATTCTTTAAAATTTTGAAAATTTTCGTTA
1 ATTAAGTTTTATAAGGGTTTTAAAAATATTAATTAAATTATTTAAAATTTTGAAAATTTTCATTA
*
19734767 ATTTCTTTAAATTAAAAAAAAATTAATTGTATCCCTATTTTTTTTTGAAAATTCTCAATGACCCT
66 ATTTCTTTAAATTAAAAAAAAATTAATTGTATCCCTATTTTTTTTTGAAAATTCTCAATAACCCT
* *
19734832 CAAAATTTTAATTTAACTTTTCAAAATTTTAATTAAATTCATAAAATTTAATGCACCATCCCACC
131 CAAAATTTTAATTAAACTTTTCAAAAATTTAATTAAATTCATAAAATTTAATGCACCATCCCACC
19734897 CCTAACTCCATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGCACTT
196 CCTAACTCCATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGCACTT
19734962 AGACCTGTTCATGGATCGGGTCATCCAATTCGG-CTTGAAAGCCCGCCTGAAAAATAGAAAGGTT
261 AGACCTGTTCATGGATCGGGTCATCCAATTCGGTC-TGAAAGCCCGCCTGAAAAATAGAAAGGTT
* *
19735026 GGAGTAAAAATATAGACTCGAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCGG
325 GGAGTAAAAATATAGACCCAAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCGG
* * ** *
19735091 GCTTGGGCAAAATTTTAGGCTCATTTTTTGGGTTGGGT-GAGGCCCATCAAACGGGCCTAAAATT
390 GCTTGGGAAAAATTTTAGGCCCATTTTTTGGGCCGAGTCG-GGCCCATCAAACGGGCCTAAAATT
* *
19735155 TTAGTTGGGTCCGACCCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAA
454 TTAGTTGGATCCGAACCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAA
19735220 AATCACCATACACCTCTAAATTATAGTATTCATTCTCAATTGGTCCAT-AAATTTTAAAACATTT
519 AATCACCATACACCTCTAAATTATAGTATTCATTCTCAATTGGTCC-TCAAATTTTAAAACATTT
* *
19735284 TAATTACATCAATAAACCATCGATGTTATATGAATAAAGTTATTTTATTACTAAAACCATTTAAA
583 TAATTACATCAATAAACCATCGATGTTATATGAATAAAGTCATTTCATTACTAAAACCATTTAAA
19735349 GGAAAATGAATATTGTAAAAA-AGGAATATTGTAAAAGTTTTATTTTGAGTTTGTCAAAACTTAC
648 GGAAAATGAATATTGTAAAAATA-G-ATATTGTAAAAGTTTTATTTTGAGTTTGTCAAAACTTAC
19735413 ACAACACCTTTATAGTTCACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTATAAC
711 ACAACACCTTTATAGTTCACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTATAAC
* * *
19735478 GTTTTATTTTTCTTTAGAATTTCCATTTTAAATCATGTCAAATAAGAATTCAAAAAAATTAAGTA
776 GTTTTATTATTCTTTAAAATTTCCATTTTAAATCATATCAAATAAGAATTCAAAAAAATTAAGTA
19735543 ATAAAATATTTCACAAAATTAAATCATTGTAACATATTAAATTAAATT
841 ATAAAATATTTCACAAAATTAAATCATTGTAACATATTAAATTAAATT
*
19735591 ATTAAGTTTTATAAGGGTTTTGAAAATATTAATTAAATTATTTAAAATTTTTGAAAATTTTCATT
1 ATTAAGTTTTATAAGGGTTTTAAAAATATTAATTAAATTATTTAAAA-TTTTGAAAATTTTCATT
*
19735656 AATTTCTTTAAATTTTAAAAAAAATTAATTGTATCCCTATTTTTTTTTGAAAATTCTCAATAACC
65 AATTTCTTTAAA-TTAAAAAAAAATTAATTGTATCCCTATTTTTTTTTGAAAATTCTCAATAACC
* *
19735721 CTCAAAATTTTAATTAAACTTTTCAAAAATTTAATTAAATTCGTAAAATTTAATGCACCATTCCA
129 CTCAAAATTTTAATTAAACTTTTCAAAAATTTAATTAAATTCATAAAATTTAATGCACCATCCCA
* *
19735786 CCCCTAACTCTATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGCAT
194 CCCCTAACTCCATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGCAC
* * * *
19735851 TTAGACCTGTTCATGGATCGGGTCATCCAGTTCGGTCTGAAAGCCCGCTTGAAAAGTAGGAAGGT
259 TTAGACCTGTTCATGGATCGGGTCATCCAATTCGGTCTGAAAGCCCGCCTGAAAAATAGAAAGGT
19735916 TGGAGTAAAAATATAGACCCAAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCG
324 TGGAGTAAAAATATAGACCCAAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCG
19735981 GGCTTGGGAAAAATTTTAGGCCCATTTTTTGGGCCGAGTCGGGCCCATCAAACGGGCCTAAAATT
389 GGCTTGGGAAAAATTTTAGGCCCATTTTTTGGGCCGAGTCGGGCCCATCAAACGGGCCTAAAATT
19736046 TTAGTTGGATCCGAACCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAA
454 TTAGTTGGATCCGAACCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAA
*
19736111 AATCACCATACACCTCTAAATTATAGTCTTCATTCTCAATTGGTCCTCAAATTTTAAAACATTTT
519 AATCACCATACACCTCTAAATTATAGTATTCATTCTCAATTGGTCCTCAAATTTTAAAACATTTT
19736176 AATTACATCAATAAACCATCGATGTTATATGAATAAAGTCATTTCATTACTAAAACCATTTAAAG
584 AATTACATCAATAAACCATCGATGTTATATGAATAAAGTCATTTCATTACTAAAACCATTTAAAG
* *
19736241 GAAAATGAATATTGTAAAAATAGATGTTGTAAAAGTTTTATTTTGAGTTTTTCAAAACTTACACA
649 GAAAATGAATATTGTAAAAATAGATATTGTAAAAGTTTTATTTTGAGTTTGTCAAAACTTACACA
* * *
19736306 ACACCTTTATCGTTCACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTGTAATGTT
714 ACACCTTTATAGTTCACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTATAACGTT
** *
19736371 TTATTATTCTTTAAAATTTTTATTTTAAATTATATCAAATAAGAATTCAA
779 TTATTATTCTTTAAAATTTCCATTTTAAATCATATCAAATAAGAATTCAA
19736421 CAATTAAATT
Statistics
Matches: 786, Mismatches: 38, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
889 45 0.06
890 175 0.22
891 563 0.72
892 3 0.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (888 bp):
ATTAAGTTTTATAAGGGTTTTAAAAATATTAATTAAATTATTTAAAATTTTGAAAATTTTCATTA
ATTTCTTTAAATTAAAAAAAAATTAATTGTATCCCTATTTTTTTTTGAAAATTCTCAATAACCCT
CAAAATTTTAATTAAACTTTTCAAAAATTTAATTAAATTCATAAAATTTAATGCACCATCCCACC
CCTAACTCCATAGGCCACAAATATAAATAATTCAAATTAAAAAAACAAACTACATAAATGCACTT
AGACCTGTTCATGGATCGGGTCATCCAATTCGGTCTGAAAGCCCGCCTGAAAAATAGAAAGGTTG
GAGTAAAAATATAGACCCAAAAAATTGGCTTGAGAAAAAAATAAGACCCATTTATCCGGTCCGGG
CTTGGGAAAAATTTTAGGCCCATTTTTTGGGCCGAGTCGGGCCCATCAAACGGGCCTAAAATTTT
AGTTGGATCCGAACCATGAACACCTCTAAACACACTTATATATAAATAAATATATAGAGTTAAAA
TCACCATACACCTCTAAATTATAGTATTCATTCTCAATTGGTCCTCAAATTTTAAAACATTTTAA
TTACATCAATAAACCATCGATGTTATATGAATAAAGTCATTTCATTACTAAAACCATTTAAAGGA
AAATGAATATTGTAAAAATAGATATTGTAAAAGTTTTATTTTGAGTTTGTCAAAACTTACACAAC
ACCTTTATAGTTCACTCTCTATTTTTTCAGTTTTATTTTATTTTTAATTTTAACTATAACGTTTT
ATTATTCTTTAAAATTTCCATTTTAAATCATATCAAATAAGAATTCAAAAAAATTAAGTAATAAA
ATATTTCACAAAATTAAATCATTGTAACATATTAAATTAAATT
Found at i:19737806 original size:2 final size:2
Alignment explanation
Indices: 19737799--19737834 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
19737789 GTTTGTTGAT
19737799 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
19737835 TGGGTTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:19739416 original size:21 final size:22
Alignment explanation
Indices: 19739390--19739436 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
19739380 CTCTGCTCAA
*
19739390 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
19739411 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
19739433 ACTC
1 ACTC
19739437 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:19749747 original size:41 final size:41
Alignment explanation
Indices: 19749702--19749816 Score: 194
Period size: 41 Copynumber: 2.8 Consensus size: 41
19749692 ACTGACATTT
* *
19749702 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
19749743 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
* *
19749784 AGCCTGCTAGACTTAAAGTCTAAAAGGTTTCAC
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCAC
19749817 TGGAAATAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
Found at i:19750354 original size:2 final size:2
Alignment explanation
Indices: 19750347--19750371 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
19750337 AATCTTAAGT
19750347 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
19750372 TATATATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:19752748 original size:16 final size:17
Alignment explanation
Indices: 19752727--19752759 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
19752717 ACACCTTTAA
19752727 AAAATTCCTT-CAGAAT
1 AAAATTCCTTCCAGAAT
*
19752743 AAAATTCTTTCCAGAAT
1 AAAATTCCTTCCAGAAT
19752760 TATGAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (17 bp):
AAAATTCCTTCCAGAAT
Found at i:19755291 original size:29 final size:30
Alignment explanation
Indices: 19755232--19755292 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
19755222 GCTTTTTGAA
* * * *
19755232 AATATTTACAAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAAACAACCAAATTTT
19755262 AATATTTACAAAAA-AAACAACCAAATTTT
1 AATATTTACAAAAAGAAACAACCAAATTTT
19755291 AA
1 AA
19755293 AAATAATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.54, C:0.11, G:0.03, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAAACAACCAAATTTT
Found at i:19765601 original size:22 final size:22
Alignment explanation
Indices: 19765550--19765601 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
19765540 TTAGATACTA
* *
19765550 AATTGAAGAAATTGAAATTTCT
1 AATTGAATAAACTGAAATTTCT
*
19765572 AATTGAATAAACTGAAATTTTT
1 AATTGAATAAACTGAAATTTCT
19765594 AATTGAAT
1 AATTGAAT
19765602 GTAATTTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (22 bp):
AATTGAATAAACTGAAATTTCT
Found at i:19768090 original size:19 final size:19
Alignment explanation
Indices: 19768066--19768102 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
19768056 GTTAAAATAT
19768066 TATTTTA-ATAAAATATTTC
1 TATTTTATAT-AAATATTTC
19768085 TATTTTATATAAATATTT
1 TATTTTATATAAATATTT
19768103 AATAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTATATAAATATTTC
Found at i:19768664 original size:17 final size:17
Alignment explanation
Indices: 19768642--19768683 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
19768632 CAAATATGGA
*
19768642 ATGTGATTTTCAAAGAT
1 ATGTGATCTTCAAAGAT
19768659 ATGTGATCTTCAAAGAT
1 ATGTGATCTTCAAAGAT
19768676 ATGTGATC
1 ATGTGATC
19768684 CTAGACATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (17 bp):
ATGTGATCTTCAAAGAT
Found at i:19769418 original size:39 final size:39
Alignment explanation
Indices: 19769362--19769438 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
19769352 ATGTTGAAAA
19769362 GATGACTGGTGGAGATGATGCCATTGAGGCTATGATGAC
1 GATGACTGGTGGAGATGATGCCATTGAGGCTATGATGAC
*
19769401 GATGATTGGTAGG-GATGATGCCATTGAGGCTATGATGA
1 GATGACTGGT-GGAGATGATGCCATTGAGGCTATGATGA
19769439 AGGCCTTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 34 0.94
40 2 0.06
ACGTcount: A:0.26, C:0.10, G:0.36, T:0.27
Consensus pattern (39 bp):
GATGACTGGTGGAGATGATGCCATTGAGGCTATGATGAC
Found at i:19774663 original size:51 final size:50
Alignment explanation
Indices: 19774506--19774700 Score: 203
Period size: 51 Copynumber: 3.8 Consensus size: 50
19774496 ATGATCAATG
* * *
19774506 CTATCTGGTACACATAGTAGCCTACACTTTGTACTACACATGTGACCAATA
1 CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA-A
* * * * * *
19774557 CCATCCGGTACACGTAGTAGGCTGCACATAGTACTACACACGTGCCCAAA
1 CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAA
*
19774607 GCTATCCGGTACAAATAGTAGCCTGCACTTAGTACTACACATGTGACCATAA
1 -CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCA-AA
*** * * *
19774659 CTATCTTATACTCAT-GCTAGCCTACACATAGTACTACACATG
1 CTATCCGGTACACATAG-TAGCCTGCACTTAGTACTACACATG
19774701 AGTTCTCATG
Statistics
Matches: 118, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 2 0.02
51 114 0.97
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (50 bp):
CTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAA
Found at i:19774687 original size:102 final size:102
Alignment explanation
Indices: 19774505--19774698 Score: 248
Period size: 102 Copynumber: 1.9 Consensus size: 102
19774495 TATGATCAAT
* * * *
19774505 GCTATCTGGTACACATAGTAGCCTACACTTTGTACTACACATGTGACCAATACCATCCGGTACAC
1 GCTATCCGGTACAAATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCCGATACAC
* * *
19774570 GTAGTAGGCTGCACATAGTACTACACACGTGCCCAAA
66 ATAGTAGCCTACACATAGTACTACACACGTGCCCAAA
* * ** *
19774607 GCTATCCGGTACAAATAGTAGCCTGCACTTAGTACTACACATGTGACC-ATAACTATCTTATACT
1 GCTATCCGGTACAAATAGTAGCCTACACTTAGTACTACACATGTGACCAAT-ACCATCCGATACA
19774671 CAT-GCTAGCCTACACATAGTACTACACA
65 CATAG-TAGCCTACACATAGTACTACACA
19774699 TGAGTTCTCA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
101 3 0.04
102 75 0.96
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (102 bp):
GCTATCCGGTACAAATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCCGATACAC
ATAGTAGCCTACACATAGTACTACACACGTGCCCAAA
Found at i:19779974 original size:27 final size:26
Alignment explanation
Indices: 19779922--19779996 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
19779912 ACATAAAGCC
*
19779922 ATAACAGTCATTTCATCTCCTA-GGGGT
1 ATAACAGTCATTTTA-C-CCTATGGGGT
19779949 ATAACAGTCATTTTACCCTATGGGGGT
1 ATAACAGTCATTTTACCCTAT-GGGGT
* **
19779976 ATTATGGTCATTTTACCCTAT
1 ATAACAGTCATTTTACCCTAT
19779997 AGGGATCTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.10
26 1 0.02
27 37 0.88
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (26 bp):
ATAACAGTCATTTTACCCTATGGGGT
Found at i:19780711 original size:24 final size:25
Alignment explanation
Indices: 19780667--19780713 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
19780657 CCCAAATCTC
*
19780667 AATATTCTCTCCTCAAATCTCTCCA
1 AATATCCTCTCCTCAAATCTCTCCA
*
19780692 AATATCCT-TCCTCAATTCTCTC
1 AATATCCTCTCCTCAAATCTCTC
19780714 TATGACAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (25 bp):
AATATCCTCTCCTCAAATCTCTCCA
Found at i:19798673 original size:19 final size:20
Alignment explanation
Indices: 19798649--19798691 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
19798639 CTAATGTACA
*
19798649 ATTTTATACA-GAAACTTTG
1 ATTTTATACATGAAAATTTG
*
19798668 ATTTTATGCATGAAAATTTG
1 ATTTTATACATGAAAATTTG
19798688 ATTT
1 ATTT
19798692 GATTCAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.47
Consensus pattern (20 bp):
ATTTTATACATGAAAATTTG
Found at i:19802291 original size:25 final size:25
Alignment explanation
Indices: 19802236--19802283 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19802226 TTGCGAGACA
*
19802236 TATATGTTAAAAGAATTGCAAGCCT
1 TATATGTTAAAAGAATTACAAGCCT
* *
19802261 TATATGTTATAAGCATTACAAGC
1 TATATGTTAAAAGAATTACAAGC
19802284 TTTTTATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (25 bp):
TATATGTTAAAAGAATTACAAGCCT
Found at i:19803976 original size:27 final size:27
Alignment explanation
Indices: 19803944--19804011 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
19803934 TGAGCTATGC
* *
19803944 TCGCAAATATGTTTTGGCGAA-TAGTGT
1 TCGCAAATATGTTTTGGCAAACCA-TGT
* * *
19803971 TTGCAAATGTGTTATGGCAAACCATGT
1 TCGCAAATATGTTTTGGCAAACCATGT
19803998 TCGCAAATATGTTT
1 TCGCAAATATGTTT
19804012 GTTAAAATGT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
TCGCAAATATGTTTTGGCAAACCATGT
Found at i:19811021 original size:10 final size:10
Alignment explanation
Indices: 19811006--19811039 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
19810996 AGGGGATGAC
19811006 AAAAAAAACAA
1 AAAAAAAAC-A
19811017 AAAAAAAACA
1 AAAAAAAACA
*
19811027 AAACAAAACA
1 AAAAAAAACA
19811037 AAA
1 AAA
19811040 TCTATCAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:19811022 original size:11 final size:11
Alignment explanation
Indices: 19811006--19811039 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
19810996 AGGGGATGAC
19811006 AAAAAAAACAA
1 AAAAAAAACAA
19811017 AAAAAAAAC-A
1 AAAAAAAACAA
*
19811027 AAACAAAACAA
1 AAAAAAAACAA
19811038 AA
1 AA
19811040 TCTATCAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:19812889 original size:132 final size:132
Alignment explanation
Indices: 19812722--19813352 Score: 980
Period size: 132 Copynumber: 4.8 Consensus size: 132
19812712 TTGACAGCAA
* *
19812722 AGCAGATCAAAGATGGCGGATTTTACCTCCTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
19812787 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAATAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
19812852 GG
131 GG
* ** *
19812854 AGCAGATCGAAGATGACAAATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
19812919 TCTACTTCCCCGGACAACAGTGGAATAGATTTAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
19812984 GG
131 GG
*
19812986 AGCAGATCGGAGATGGCGGATTTTACCTCCCTG-GTGTTACAGTGGAGTACATTGAAGCCAGTAA
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTG-GTTACAGTGGAGTACATTGAAGCCAGTAA
* *
19813050 TTCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAAATCTTATCTCCCTAAGCAGTAG
65 TTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
19813115 TGG
130 TGG
* * *
19813118 AGCAGATCGAAGTTGGCGGATTTTACCTCCTTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
19813183 TCTACTTCCTTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCACTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
19813248 GG
131 GG
** * *
19813250 AGTGGATCGAAGATGGCGGATTTTACCTCCATGTGGTTACAGTAGAGTACATTGAAGCCAGTAA-
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** * *
19813314 TCATA-TCTCCCTGTTCAGCAGTGGAATAGGTTGAAGATT
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
19813353 GTAAGTCCTA
Statistics
Matches: 456, Mismatches: 39, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
131 4 0.01
132 451 0.99
133 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:19813770 original size:19 final size:19
Alignment explanation
Indices: 19813680--19813771 Score: 103
Period size: 19 Copynumber: 4.8 Consensus size: 19
19813670 AATCTTCAGG
*
19813680 GATATGCAATCTTACATAT
1 GATATGCAATCTTAGATAT
* ** *
19813699 AATATATAATCTTAGATAA
1 GATATGCAATCTTAGATAT
*
19813718 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
**
19813737 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
19813756 GATATGCAATATTAGA
1 GATATGCAATCTTAGA
19813772 AGATATGATT
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 57 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19813771 original size:38 final size:38
Alignment explanation
Indices: 19813680--19813771 Score: 139
Period size: 38 Copynumber: 2.4 Consensus size: 38
19813670 AATCTTCAGG
*
19813680 GATATGCAATCTTACATATAATATATAATCTTAGATAA
1 GATATGCAATCTTAGATATAATATATAATCTTAGATAA
* * *
19813718 GATATGCAATCTTAGATGTGATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATAATATATAATCTTAGATAA
*
19813756 GATATGCAATATTAGA
1 GATATGCAATCTTAGA
19813772 AGATATGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATAATATATAATCTTAGATAA
Found at i:19813797 original size:22 final size:21
Alignment explanation
Indices: 19813695--19813797 Score: 65
Period size: 19 Copynumber: 5.1 Consensus size: 21
19813685 GCAATCTTAC
* *
19813695 ATATAATATATAATCTT--AG
1 ATATGATATGTAATCTTAGAG
* *
19813714 ATAAGATATGCAATCTT--AG
1 ATATGATATGTAATCTTAGAG
* *
19813733 ATGTGATATATAATCTT--AG
1 ATATGATATGTAATCTTAGAG
* *
19813752 ATATGATATGCAATATTAGAAG
1 ATATGATATGTAATCTTAG-AG
*
19813774 ATATGATTTTGTAATCTTAGAG
1 ATATGA-TATGTAATCTTAGAG
19813796 AT
1 AT
19813798 TTAATTTGTA
Statistics
Matches: 65, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
19 43 0.66
22 12 0.18
23 10 0.15
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (21 bp):
ATATGATATGTAATCTTAGAG
Found at i:19820703 original size:26 final size:27
Alignment explanation
Indices: 19820643--19820704 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 27
19820633 TGAGCTAGTG
*
19820643 TTCGCCAGTCTTGCTGTGAATAGGGGA
1 TTCGCCAGTCTTGCTGCGAATAGGGGA
* * * *
19820670 TT-GTCAGTCTTGTTGCGAAT-TGGGT
1 TTCGCCAGTCTTGCTGCGAATAGGGGA
19820695 TTCGCCAGTC
1 TTCGCCAGTC
19820705 AAAGGTGCAT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 5 0.18
26 21 0.75
27 2 0.07
ACGTcount: A:0.15, C:0.19, G:0.31, T:0.35
Consensus pattern (27 bp):
TTCGCCAGTCTTGCTGCGAATAGGGGA
Found at i:19821445 original size:42 final size:41
Alignment explanation
Indices: 19821353--19821449 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 41
19821343 GCTCCCTATC
* *
19821353 TGAGCATAAGTGACAAGCTGTGTATAAGCAAAGCTCCCCACG
1 TGAGCTTAAGTGACAAGCTATGTATAAGCAAAGCT-CCCACG
* * * *
19821395 TGATCTTAAGTGACAAGTTATGTATTAGCAAAGCT-CCTCG
1 TGAGCTTAAGTGACAAGCTATGTATAAGCAAAGCTCCCACG
19821435 TGCAAGCTTAAGTGA
1 TG--AGCTTAAGTGA
19821450 TTGTGCTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 6 0.13
42 40 0.87
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (41 bp):
TGAGCTTAAGTGACAAGCTATGTATAAGCAAAGCTCCCACG
Found at i:19826399 original size:3 final size:3
Alignment explanation
Indices: 19826393--19826435 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
19826383 AAAGATGATG
19826393 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19826436 AAGATACCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19827457 original size:13 final size:14
Alignment explanation
Indices: 19827429--19827462 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
19827419 ATGAGTTGCT
19827429 ATATAATATGATATA
1 ATATAATA-GATATA
19827444 ATATAATA-ATATA
1 ATATAATAGATATA
19827457 ATATAA
1 ATATAA
19827463 ATGGATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
15 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
ATATAATAGATATA
Found at i:19856725 original size:20 final size:18
Alignment explanation
Indices: 19856686--19856723 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
19856676 TCGAGTTGCA
19856686 TGCAAGCCTATATACATG
1 TGCAAGCCTATATACATG
19856704 TGCAAGCCTATATACATG
1 TGCAAGCCTATATACATG
19856722 TG
1 TG
19856724 TGAGCTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (18 bp):
TGCAAGCCTATATACATG
Found at i:19865439 original size:18 final size:18
Alignment explanation
Indices: 19865416--19865451 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
19865406 AGAAAATTTT
19865416 GAAGAAATTTTTAAAATA
1 GAAGAAATTTTTAAAATA
19865434 GAAGAAATTTTTAAAATA
1 GAAGAAATTTTTAAAATA
19865452 CCAATTCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (18 bp):
GAAGAAATTTTTAAAATA
Found at i:19865796 original size:24 final size:24
Alignment explanation
Indices: 19865763--19865811 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
19865753 ATGCAAATGA
19865763 CAAGGAAAATGCCCAATCCAACTT
1 CAAGGAAAATGCCCAATCCAACTT
* * *
19865787 CAAGGCAAATTCTCAATCCAACTT
1 CAAGGAAAATGCCCAATCCAACTT
19865811 C
1 C
19865812 TAGGTTATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.31, G:0.10, T:0.20
Consensus pattern (24 bp):
CAAGGAAAATGCCCAATCCAACTT
Found at i:19866186 original size:24 final size:26
Alignment explanation
Indices: 19866153--19866201 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
19866143 TTGAGTCCAT
*
19866153 AAATTCCAAA-TAAAAAATGATTTTA
1 AAATTCCAAATTAAAAAATAATTTTA
*
19866178 AAATT-CAAATTTAAAAATAATTTT
1 AAATTCCAAATTAAAAAATAATTTT
19866202 CTTTTGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (26 bp):
AAATTCCAAATTAAAAAATAATTTTA
Found at i:19872585 original size:50 final size:50
Alignment explanation
Indices: 19872469--19873004 Score: 671
Period size: 50 Copynumber: 10.6 Consensus size: 50
19872459 ATAATAACAA
* * * ** * * *
19872469 GCCAAAGCCATGTCCTAGACATAGTCTTACATGGGATGTTTCCTGTAC--T
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGT
* * ** *
19872518 GCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
19872568 GCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
** * * * *
19872618 GCCAACACCATGTCCTAGACACGGTTTTACATGGGACCTCTCATCTAGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
** *
19872668 GCCAACACCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
19872718 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCACATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
19872768 GCCAATGCCATGTCCTAGACATGGTCTTACATGAGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * * *
19872818 GCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTTATCCCAGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
19872868 GCCAATGCCATGTCCCAAACATGGTGTTACATGGGACCTCTCATCTCGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
19872918 GCGAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGAT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GGT
19872974 GCCAATGCCATGTCCCAGACATGGTCTTACA
1 GCCAATGCCATGTCCCAGACATGGTCTTACA
19873005 CTGGCTCACA
Statistics
Matches: 425, Mismatches: 54, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
48 1 0.00
49 36 0.08
50 351 0.83
53 5 0.01
56 32 0.08
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
Found at i:19873088 original size:42 final size:41
Alignment explanation
Indices: 19873016--19873097 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
19873006 TGGCTCACAT
* * *
19873016 ATCGACGTTGATGCCATGTCCCAAACATGGTCTTATATGAG
1 ATCGACGTCGATGCCATATCCCAAACATGGTCTTACATGAG
* * *
19873057 ATCGCACGTCGATGCCATATCTCAGATATGGTCTTACATGA
1 ATCG-ACGTCGATGCCATATCCCAAACATGGTCTTACATGA
19873098 AAATCACATA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (41 bp):
ATCGACGTCGATGCCATATCCCAAACATGGTCTTACATGAG
Found at i:19884084 original size:47 final size:46
Alignment explanation
Indices: 19883939--19884089 Score: 135
Period size: 46 Copynumber: 3.2 Consensus size: 46
19883929 AAAGCACACA
* * * * *
19883939 AACAGATAAT-TGTGGACAATGCCACTAGAGTTGCAGTTAAACTATCAG
1 AACAGAT-ATGTGTGGTCAA-GCCACTATAATTGCAGTCAAGCTA-CAG
* * * * *
19883987 ATCAGATATATGTGGTCAAGCCACTAT-CTTGTAGTCAAGCTACTG
1 AACAGATATGTGTGGTCAAGCCACTATAATTGCAGTCAAGCTACAG
* *
19884032 TAACAGGTATGTGTGGTCGAGCCACTATAATTGCAGTCAAGCTACCAG
1 -AACAGATATGTGTGGTCAAGCCACTATAATTGCAGTCAAGCTA-CAG
19884080 AACAGATATG
1 AACAGATATG
19884090 CGGTTAAATC
Statistics
Matches: 83, Mismatches: 16, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.02
46 34 0.41
47 31 0.37
48 16 0.19
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (46 bp):
AACAGATATGTGTGGTCAAGCCACTATAATTGCAGTCAAGCTACAG
Found at i:19885861 original size:51 final size:51
Alignment explanation
Indices: 19885730--19885921 Score: 183
Period size: 51 Copynumber: 3.8 Consensus size: 51
19885720 GAAATTGAAT
* * * * * *
19885730 GTGATGGTCACGTGTGTAGTCCTATGTGCATGCTACTACGTGTACCAGA-A
1 GTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
* * *
19885780 -TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA
1 GTGAT-GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
* * * *** *
19885831 G-GTTCGATCACGTGTGTAGTACTATATGCAGGCTACTACATGTATCAGATA
1 GTGAT-GATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
* *
19885882 GTGATGGTCACATGTGTAGTGCTATGTGCAGGCTACTATG
1 GTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATG
19885922 TGAACCGGTA
Statistics
Matches: 113, Mismatches: 25, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
49 4 0.04
50 37 0.33
51 70 0.62
52 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (51 bp):
GTGATGATCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
Found at i:19885919 original size:102 final size:101
Alignment explanation
Indices: 19885737--19885921 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
19885727 AATGTGATGG
* * * * *
19885737 TCACGTGTGTAGTCCTATGTGCATGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAGAATGATAGGTCACATGTGTAGTAC
19885802 TATGTGCAGGCTACTATGCGTACCGGATAGGTTCGA
66 TATGTGCAGGCTACTATGCGTACCGGATAGGTTCGA
*
19885838 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTATCAGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAGA-A-TGATAGGTCACATGTGTAGT
*
19885902 GCTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
19885922 TGAACCGGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 37 0.49
102 34 0.45
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCGGATAGGTTCGA
Found at i:19885929 original size:102 final size:101
Alignment explanation
Indices: 19885737--19885929 Score: 280
Period size: 102 Copynumber: 1.9 Consensus size: 101
19885727 AATGTGATGG
* * * * *
19885737 TCACGTGTGTAGTCCTATGTGCATGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAGAATGATAGGTCACATGTGTAGTAC
*
19885802 TATGTGCAGGCTACTATGCGTACCGGATAGGTTCGA
66 TATGTGCAGGCTACTATGCGAACCGGATAGGTTCGA
*
19885838 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTATCAGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAGA-A-TGATAGGTCACATGTGTAGT
* *
19885902 GCTATGTGCAGGCTACTATGTGAACCGG
64 ACTATGTGCAGGCTACTATGCGAACCGG
19885930 TATCATTAAT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
101 37 0.46
102 40 0.49
103 4 0.05
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAGAATGATAGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGAACCGGATAGGTTCGA
Found at i:19886168 original size:16 final size:16
Alignment explanation
Indices: 19886147--19886178 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19886137 TGATTGAAAG
*
19886147 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
19886163 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
19886179 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:19894035 original size:64 final size:64
Alignment explanation
Indices: 19893934--19894092 Score: 203
Period size: 64 Copynumber: 2.5 Consensus size: 64
19893924 GCTTTACGGG
* * * ** *
19893934 GGTTCGGTGGATGAGAATAGGGTCTTAGTATTGAATATTGTTAAGTAAATTATGGA-TTTGTAGA
1 GGTTCAGTGGATGAGAATGGGGTTTTAGTATCAAATATTGTTAAGCAAATTAT-GACTTTGTAGA
* *
19893998 GGTTCAGTTGATGAGAATGGGGTTTTAGTATCAAATATTGTTAAGCAAATTATGACTTTGTGGA
1 GGTTCAGTGGATGAGAATGGGGTTTTAGTATCAAATATTGTTAAGCAAATTATGACTTTGTAGA
* * *
19894062 GGTTAAGTGGATGAGAACGGGGTTTCAGTAT
1 GGTTCAGTGGATGAGAATGGGGTTTTAGTAT
19894093 AGGAAGAACA
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
63 2 0.02
64 80 0.98
ACGTcount: A:0.29, C:0.05, G:0.30, T:0.36
Consensus pattern (64 bp):
GGTTCAGTGGATGAGAATGGGGTTTTAGTATCAAATATTGTTAAGCAAATTATGACTTTGTAGA
Found at i:19901871 original size:20 final size:20
Alignment explanation
Indices: 19901826--19901919 Score: 107
Period size: 20 Copynumber: 4.7 Consensus size: 20
19901816 CTCAGAGGGG
* *
19901826 CTTCTACCGATACAACTCCA
1 CTTCTACCCATACAAGTCCA
* *
19901846 CCTCTACCCATACAAGTACA
1 CTTCTACCCATACAAGTCCA
*
19901866 CTTCTACCCATTCAAGTCCA
1 CTTCTACCCATACAAGTCCA
* * *
19901886 TTTCTACCTATGCAAGTCCA
1 CTTCTACCCATACAAGTCCA
*
19901906 GTTCTACCCATACA
1 CTTCTACCCATACA
19901920 TCTTTTGAGT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.29, C:0.37, G:0.06, T:0.28
Consensus pattern (20 bp):
CTTCTACCCATACAAGTCCA
Found at i:19902341 original size:28 final size:29
Alignment explanation
Indices: 19902293--19902347 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
19902283 AAGTAGAGTG
* *
19902293 TAAAAGGTTTCTAGTTGAGCCACAAAAGC
1 TAAAAGGTCTCTAGTTAAGCCACAAAAGC
*
19902322 TAAAAGGTCT-TAGTTAAGCCATAAAA
1 TAAAAGGTCTCTAGTTAAGCCACAAAA
19902348 ACTAGAGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (29 bp):
TAAAAGGTCTCTAGTTAAGCCACAAAAGC
Found at i:19902348 original size:29 final size:29
Alignment explanation
Indices: 19902293--19902348 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
19902283 AAGTAGAGTG
* * *
19902293 TAAAAGGTTTCTAGTTGAGCCACAAAAGC
1 TAAAAGGTCTCTAGTTAAGCCAAAAAAGC
19902322 TAAAAGGTCT-TAGTTAAGCCATAAAAA
1 TAAAAGGTCTCTAGTTAAGCCA-AAAAA
19902349 CTAGAGGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (29 bp):
TAAAAGGTCTCTAGTTAAGCCAAAAAAGC
Found at i:19932462 original size:42 final size:42
Alignment explanation
Indices: 19932350--19932498 Score: 124
Period size: 42 Copynumber: 3.6 Consensus size: 42
19932340 AGTGTTTGCT
* * * * * * *
19932350 TTCCGTTTAGCTCTTATGAGCTTCAGTT-AACTCATATGAGT
1 TTCCGTTTAACCCTTATGGGTTTTAGTTCAACTCCTATGAGA
* * * ** *
19932391 TTCAGATTAACCCTTCTGGGTTTTAGTTCAACTTTTTTGAGA
1 TTCCGTTTAACCCTTATGGGTTTTAGTTCAACTCCTATGAGA
*
19932433 TT-CGTTTTAACCCTTATGGGTTTCT-GTTCAACTCCTATGAGC
1 TTCCG-TTTAACCCTTATGGGTTT-TAGTTCAACTCCTATGAGA
*
19932475 TTCCGTTCAACCCTTATGGGTTTT
1 TTCCGTTTAACCCTTATGGGTTTT
19932499 CGTTTAGCAC
Statistics
Matches: 84, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
41 22 0.26
42 59 0.70
43 3 0.04
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.44
Consensus pattern (42 bp):
TTCCGTTTAACCCTTATGGGTTTTAGTTCAACTCCTATGAGA
Found at i:19932502 original size:21 final size:20
Alignment explanation
Indices: 19932441--19932502 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
19932431 GATTCGTTTT
19932441 AACCCTTATGGGTTTCTGTTC
1 AACCCTTATGGGTTTC-GTTC
* *
19932462 AACTCC-TATGAGCTTCCGTTC
1 AAC-CCTTATG-GGTTTCGTTC
19932483 AACCCTTATGGGTTTTCGTT
1 AACCCTTATGGG-TTTCGTT
19932503 TAGCACTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
20 3 0.09
21 24 0.73
22 6 0.18
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (20 bp):
AACCCTTATGGGTTTCGTTC
Found at i:19935897 original size:74 final size:74
Alignment explanation
Indices: 19935776--19935936 Score: 225
Period size: 74 Copynumber: 2.2 Consensus size: 74
19935766 TAATGAGTAT
* * *
19935776 GATTGAAAAGGTGTGTATATGAAATGAGTTATGGCATTGAGCTTATGAAATTTAAA-TTGTAATA
1 GATTGAAAAGGTATGTATATGAAATGAGCTATGGCATTGAGCTTATGAAA-TGAAAGTTGTAATA
* *
19935840 TGTGTAAATG
65 TATATAAATG
* * *
19935850 GATTGAAAAGGTATGTATATGAAATGAGCTATGTCATTGAGTTTATGAAATGAAAGTTGTGATAT
1 GATTGAAAAGGTATGTATATGAAATGAGCTATGGCATTGAGCTTATGAAATGAAAGTTGTAATAT
19935915 ATATAAATG
66 ATATAAATG
*
19935924 GTTTGAAAAGGTA
1 GATTGAAAAGGTA
19935937 ACTAATTGAT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
73 4 0.05
74 73 0.95
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.35
Consensus pattern (74 bp):
GATTGAAAAGGTATGTATATGAAATGAGCTATGGCATTGAGCTTATGAAATGAAAGTTGTAATAT
ATATAAATG
Found at i:19936188 original size:21 final size:22
Alignment explanation
Indices: 19936141--19936189 Score: 55
Period size: 26 Copynumber: 2.1 Consensus size: 22
19936131 TTATATGAGC
19936141 TTACTATACACTAGTTGCTTATGTAA
1 TTACTATACACTAGTTGC---T-TAA
19936167 TTACTATACACTAGTTGC-TAA
1 TTACTATACACTAGTTGCTTAA
19936188 TT
1 TT
19936190 TTGGCAAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.22
26 18 0.78
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (22 bp):
TTACTATACACTAGTTGCTTAA
Found at i:19938188 original size:138 final size:138
Alignment explanation
Indices: 19938013--19938283 Score: 366
Period size: 138 Copynumber: 2.0 Consensus size: 138
19938003 ATTTTCTTTC
* * * * * *
19938013 TTTTGATTATCAAGAGTTTCCAATTAGAATAAATTATTATAAGTATTATATTGAATAATTAATTC
1 TTTTGAGTATCAAGAGTTTCCAATCAGAATAAATTATTATAAGTACTAGATTGAATAACTAACTC
* * * * *
19938078 AATTCA-AACTAATTAATCAAAATATATATAATTGAAAATAAAATT-TGAGTATTCCTTAACTAG
66 AACT-ATAACTAACTAATCAAAACATATATAATCGAAAAT-AAATTCGGAGTATTCCTTAACTAG
19938141 CAAACTTGAA
129 CAAACTTGAA
* * * *
19938151 TTTTGAGTATCAAGAGTTTCCTATCAGAATCACTTATTATAAGTACTGGATTGAATAACTAACTC
1 TTTTGAGTATCAAGAGTTTCCAATCAGAATAAATTATTATAAGTACTAGATTGAATAACTAACTC
*
19938216 AACTATAACTAACTAATCAAAACATATATAATCGAAAATCAATTCGGAGTATTCCTTAACTAGCA
66 AACTATAACTAACTAATCAAAACATATATAATCGAAAATAAATTCGGAGTATTCCTTAACTAGCA
19938281 AAC
131 AAC
19938284 CTTAATACTT
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
137 5 0.04
138 110 0.96
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (138 bp):
TTTTGAGTATCAAGAGTTTCCAATCAGAATAAATTATTATAAGTACTAGATTGAATAACTAACTC
AACTATAACTAACTAATCAAAACATATATAATCGAAAATAAATTCGGAGTATTCCTTAACTAGCA
AACTTGAA
Found at i:19938602 original size:3 final size:3
Alignment explanation
Indices: 19938594--19938638 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
19938584 AAATACTATG
19938594 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19938639 GGGTTAGGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19939272 original size:22 final size:22
Alignment explanation
Indices: 19939247--19939293 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
19939237 TAGATCATAT
* *
19939247 TATAAAT-ATATTGTATTTATCA
1 TATAAATAAT-TTGTATCTAACA
19939269 TATAAATAATTTGTATCTAACA
1 TATAAATAATTTGTATCTAACA
19939291 TAT
1 TAT
19939294 TAGAAAAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (22 bp):
TATAAATAATTTGTATCTAACA
Found at i:19942339 original size:24 final size:25
Alignment explanation
Indices: 19942311--19942370 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
19942301 CATTTTAAGT
19942311 TACTTTTTTACAAA-ATATTTTTTA
1 TACTTTTTTACAAATATATTTTTTA
* *
19942335 TACTTTTTTTATAAATTTATTTTTTA
1 TAC-TTTTTTACAAATATATTTTTTA
* *
19942361 AAATTTTTTA
1 TACTTTTTTA
19942371 TTACGGCTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 3 0.10
25 17 0.57
26 10 0.33
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (25 bp):
TACTTTTTTACAAATATATTTTTTA
Found at i:19942342 original size:25 final size:26
Alignment explanation
Indices: 19942314--19942369 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
19942304 TTTAAGTTAC
* *
19942314 TTTTTTACAAA-ATATTTTTTATACT
1 TTTTTTACAAATATATTTTTTAAAAT
* *
19942339 TTTTTTATAAATTTATTTTTTAAAAT
1 TTTTTTACAAATATATTTTTTAAAAT
19942365 TTTTT
1 TTTTT
19942370 ATTACGGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTTTTACAAATATATTTTTTAAAAT
Found at i:19942981 original size:16 final size:16
Alignment explanation
Indices: 19942946--19942990 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
19942936 ATCTTTATTG
19942946 AATCCCTAAAATCTTCA
1 AATCCCT-AAATCTTCA
* *
19942963 AATCCCTAAATTTTGA
1 AATCCCTAAATCTTCA
19942979 AATCCCTAAATC
1 AATCCCTAAATC
19942991 GTTAGCATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.40, C:0.27, G:0.02, T:0.31
Consensus pattern (16 bp):
AATCCCTAAATCTTCA
Found at i:19943074 original size:32 final size:32
Alignment explanation
Indices: 19943011--19943085 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
19943001 CTAAACATTC
* *
19943011 TTGAACTCCCTAAAATTTTTACGAATCAAATCA
1 TTGAA-TCCCTAAAACTATTACGAATCAAATCA
* *
19943044 TTGAATCCCTAAAACTATTAGGAA-CGAAATCG
1 TTGAATCCCTAAAACTATTACGAATC-AAATCA
*
19943076 TTAAATCCCT
1 TTGAATCCCT
19943086 TAGAACCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
31 1 0.03
32 30 0.83
33 5 0.14
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (32 bp):
TTGAATCCCTAAAACTATTACGAATCAAATCA
Found at i:19946906 original size:27 final size:27
Alignment explanation
Indices: 19946876--19946957 Score: 64
Period size: 26 Copynumber: 3.1 Consensus size: 27
19946866 ACGTGCAGCA
19946876 GCAACATTATCCAGTCTATCTGATGTT
1 GCAACATTATCCAGTCTATCTGATGTT
* * * **
19946903 GCAAAATCA-CCAG-CATAT-TCAT-CA
1 GCAACATTATCCAGTC-TATCTGATGTT
* *
19946927 GCAACATTATCCACTCAATCTGATGTT
1 GCAACATTATCCAGTCTATCTGATGTT
19946954 GCAA
1 GCAA
19946958 AATCACTAGC
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 7 0.18
25 9 0.24
26 11 0.29
27 11 0.29
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (27 bp):
GCAACATTATCCAGTCTATCTGATGTT
Found at i:19946930 original size:51 final size:51
Alignment explanation
Indices: 19946874--19946980 Score: 187
Period size: 51 Copynumber: 2.1 Consensus size: 51
19946864 CTACGTGCAG
* *
19946874 CAGCAACATTATCCAGTCTATCTGATGTTGCAAAATCACCAGCATATTCAT
1 CAGCAACATTATCCACTCAATCTGATGTTGCAAAATCACCAGCATATTCAT
*
19946925 CAGCAACATTATCCACTCAATCTGATGTTGCAAAATCACTAGCATATTCAT
1 CAGCAACATTATCCACTCAATCTGATGTTGCAAAATCACCAGCATATTCAT
19946976 CAGCA
1 CAGCA
19946981 GCAACTTCAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (51 bp):
CAGCAACATTATCCACTCAATCTGATGTTGCAAAATCACCAGCATATTCAT
Found at i:19949300 original size:12 final size:12
Alignment explanation
Indices: 19949292--19949362 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
19949282 AATATATACG
19949292 TATATATATAAA
1 TATATATATAAA
19949304 TATATATATAAA
1 TATATATATAAA
* * * *
19949316 AATTTGTTAGAAA
1 TATAT-ATATAAA
* *
19949329 AAAATATATAAA
1 TATATATATAAA
* *
19949341 TATAAATATATA
1 TATATATATAAA
*
19949353 CATATATATA
1 TATATATATA
19949363 GAAGTTATAA
Statistics
Matches: 44, Mismatches: 14, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
12 36 0.82
13 8 0.18
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (12 bp):
TATATATATAAA
Found at i:19949309 original size:14 final size:14
Alignment explanation
Indices: 19949292--19949358 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
19949282 AATATATACG
19949292 TATATATATAAATA
1 TATATATATAAATA
* *
19949306 TATATATAAAAATT
1 TATATATATAAATA
* * * *
19949320 TGTTAGAAAAAAATA
1 T-ATATATATAAATA
*
19949335 TATAAATATAAATA
1 TATATATATAAATA
*
19949349 TATACATATA
1 TATATATATA
19949359 TATAGAAGTT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 31 0.76
15 10 0.24
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.37
Consensus pattern (14 bp):
TATATATATAAATA
Found at i:19956883 original size:22 final size:22
Alignment explanation
Indices: 19956853--19956895 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
19956843 ACACCAAAAC
*
19956853 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
19956875 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
19956896 AGCGCTGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:19957057 original size:85 final size:85
Alignment explanation
Indices: 19956968--19957284 Score: 322
Period size: 87 Copynumber: 3.7 Consensus size: 85
19956958 AAGGTGTTGG
* * * * *
19956968 TCTATAGCGGCGCTTCTAGCACAAACGCCGCTGAAG-A-CTAAGACCTTTAGCGGCGCTTTAGT-
1 TCTATAGCGGCGCTTCTACCACAAACGCCACTAAAGAACCT-A-ATCTTTAGCGGCGCTTT-CTC
* *
19957030 GGAAGCGCCGCTAA-AGACCCTGA
63 GAAAACGCCGC-AATAGACCCTGA
*
19957053 TCTATAGCGGCGCTT-TGACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCTCCT
1 TCTATAGCGGCGCTTCT-ACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCT-CG
19957117 AAAACGCCGCAATAGACCCTGA
64 AAAACGCCGCAATAGACCCTGA
* * *
19957139 TCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCA
1 TCTATAGCGGCGCTTCTACCAC-AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTT-CTCG
*
19957204 AAAACGCCGCTAA-AGACCATGA
64 AAAACGCCGC-AATAGACCCTGA
* * * * * * * * *
19957226 TCTTTAGTGGCACTTTTTCCACAAACGCCGCTAAAGACCCTTATCTTTAGCGGCACTTT
1 TCTATAGCGGCGCTTCTACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTT
19957285 GACCAAAAAC
Statistics
Matches: 200, Mismatches: 22, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
84 2 0.01
85 49 0.25
86 72 0.36
87 74 0.37
88 3 0.01
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (85 bp):
TCTATAGCGGCGCTTCTACCACAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCTCGAA
AACGCCGCAATAGACCCTGA
Found at i:19957061 original size:42 final size:42
Alignment explanation
Indices: 19956968--19957304 Score: 212
Period size: 43 Copynumber: 7.8 Consensus size: 42
19956958 AAGGTGTTGG
* * ***
19956968 TCTATAGCGGCGCTTCTAGC-ACAAACGCCGCTGAAGACTAAGA
1 TCTATAGCGGCGCTT-TA-CTAAAAACGCCGCTAAAGACCCTGA
* * * ** *
19957011 CCTTTAGCGGCGCTTTAGTGGAAGCGCCGCTAAAGACCCTGA
1 TCTATAGCGGCGCTTTACTAAAAACGCCGCTAAAGACCCTGA
* * * * *
19957053 TCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAA
1 TCTATAGCGGCGCTTT-ACTAAAAACGCCGCTAAAGACCCTGA
* *
19957096 TCTTTAGCGGCGCTTT-CTCCTAAAACGCCGC-AATAGACCCTGA
1 TCTATAGCGGCGCTTTACT--AAAAACGCCGCTAA-AGACCCTGA
* * * * *
19957139 TCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTAA
1 TCTATAGCGGCGCTT-TACTA-AAAACGCCGCTAAAGACCCTGA
* * * *
19957183 TCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCATGA
1 TCTATAGCGGCGCTTT-ACTAAAAACGCCGCTAAAGACCCTGA
* * * * * * *
19957226 TCTTTAGTGGCACTTTTTCCACAAACGCCGCTAAAGACCCTTA
1 TCTATAGCGGCGC-TTTACTAAAAACGCCGCTAAAGACCCTGA
* * * *
19957269 TCTTTAGCGGCACTTTGACCAAAAACGCCACTAAAG
1 TCTATAGCGGCGCTTT-ACTAAAAACGCCGCTAAAG
19957305 GCCAACACCT
Statistics
Matches: 231, Mismatches: 51, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.00
42 37 0.16
43 154 0.67
44 36 0.16
45 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (42 bp):
TCTATAGCGGCGCTTTACTAAAAACGCCGCTAAAGACCCTGA
Found at i:19957104 original size:43 final size:43
Alignment explanation
Indices: 19957035--19957304 Score: 276
Period size: 43 Copynumber: 6.3 Consensus size: 43
19957025 TTAGTGGAAG
* *
19957035 CGCCGCTAAAGACCCTGATCTATAGCGGCGCTTTGACCACAAA
1 CGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTGACCACAAA
* * **
19957078 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCTCCTA-AAA
1 CGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTGACC-ACAAA
* * *
19957121 CGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAA
1 CGCCGCTAA-AGAACCTGATCTTTAGCGGCGCTTTGACCAC-AAA
* * ** *
19957165 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAA
1 CGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTGACCACAAA
* * **
19957208 CGCCGCTAAAG-ACCATGATCTTTAGTGGCACTTTTTCCACAAA
1 CGCCGCTAAAGAACC-TGATCTTTAGCGGCGCTTTGACCACAAA
* * * *
19957251 CGCCGCTAAAGACCCTTATCTTTAGCGGCACTTTGACCAAAAA
1 CGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTGACCACAAA
*
19957294 CGCCACTAAAG
1 CGCCGCTAAAG
19957305 GCCAACACCT
Statistics
Matches: 185, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
42 6 0.03
43 142 0.77
44 35 0.19
45 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.21
Consensus pattern (43 bp):
CGCCGCTAAAGAACCTGATCTTTAGCGGCGCTTTGACCACAAA
Found at i:19957217 original size:130 final size:129
Alignment explanation
Indices: 19957035--19957304 Score: 339
Period size: 130 Copynumber: 2.1 Consensus size: 129
19957025 TTAGTGGAAG
* * * * *
19957035 CGCCGCTAAAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACC-TAATCT
1 CGCCACTAAAGAACCTAATCTATAGCGGCGCTTTCACCAAAAACGCCACTAAAG-ACCATAATCT
* *
19957099 TTAGCGGCGCTTTCTCCTA-AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACCACA
65 TTAGCGGCACTTTCTCC-ACAAACGCCGCTAA-AGACCCTGATCTATAGCGGCACTTCGACCA-A
19957162 AAA
127 AAA
* * * *
19957165 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACCATGATCTT
1 CGCCACTAAAGAACCTAATCTATAGCGGCGCTTTCACCAAAAACGCCACTAAAGACCATAATCTT
* * * * *
19957230 TAGTGGCACTTTTTCCACAAACGCCGCTAAAGACCCTTATCTTTAGCGGCACTTTGACCAAAAA
66 TAGCGGCACTTTCTCCACAAACGCCGCTAAAGACCCTGATCTATAGCGGCACTTCGACCAAAAA
19957294 CGCCACTAAAG
1 CGCCACTAAAG
19957305 GCCAACACCT
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
129 19 0.16
130 100 0.83
131 2 0.02
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.21
Consensus pattern (129 bp):
CGCCACTAAAGAACCTAATCTATAGCGGCGCTTTCACCAAAAACGCCACTAAAGACCATAATCTT
TAGCGGCACTTTCTCCACAAACGCCGCTAAAGACCCTGATCTATAGCGGCACTTCGACCAAAAA
Found at i:19957291 original size:86 final size:86
Alignment explanation
Indices: 19957035--19957304 Score: 362
Period size: 86 Copynumber: 3.1 Consensus size: 86
19957025 TTAGTGGAAG
*
19957035 CGCCGCTAAAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAATCTT
1 CGCCGCTAAAGACCATGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAATCTT
* *
19957100 TAGCGGCGCTTTCTCCTAAAA
66 TAGCGGCGCTTTCACCAAAAA
* *
19957121 CGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACGCCACTAAAGAACCTAATC
1 CGCCGCTAA-AGACCATGATCTATAGCGGCGCTTTGACCAC-AAACGCCACTAAAGAACCTAATC
*
19957185 TTTAGCGGCGCTTTCCCCAAAAA
64 TTTAGCGGCGCTTTCACCAAAAA
* * * ** * * *
19957208 CGCCGCTAAAGACCATGATCTTTAGTGGCACTTTTTCCACAAACGCCGCTAAAGACCCTTATCTT
1 CGCCGCTAAAGACCATGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAATCTT
* *
19957273 TAGCGGCACTTTGACCAAAAA
66 TAGCGGCGCTTTCACCAAAAA
*
19957294 CGCCACTAAAG
1 CGCCGCTAAAG
19957305 GCCAACACCT
Statistics
Matches: 164, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
85 2 0.01
86 86 0.52
87 74 0.45
88 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.21
Consensus pattern (86 bp):
CGCCGCTAAAGACCATGATCTATAGCGGCGCTTTGACCACAAACGCCACTAAAGAACCTAATCTT
TAGCGGCGCTTTCACCAAAAA
Found at i:19957329 original size:86 final size:87
Alignment explanation
Indices: 19957071--19957322 Score: 249
Period size: 87 Copynumber: 2.9 Consensus size: 87
19957061 GGCGCTTTGA
* * * *
19957071 CCAC-AAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCTCCTAAAACGCCGC-AATAGAC
1 CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCACTTTCACCAAAAACGCCACTAA-AGAC
*** * * * * ***
19957134 CCTGATCTATAGCGGCGCTTCGA
65 CAACACCTTTAGTGGCACTTTTT
* * *
19957157 CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGACC
1 CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCACTTTCACCAAAAACGCCACTAAAGACC
** *
19957222 ATGATCTTTAGTGGCACTTTTT
66 AACACCTTTAGTGGCACTTTTT
* * * * *
19957244 CCAC-AAACGCCGCTAAAGACCCTTATCTTTAGCGGCACTTTGACCAAAAACGCCACTAAAGGCC
1 CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCACTTTCACCAAAAACGCCACTAAAGACC
19957308 AACACCTTTAGTGGC
66 AACACCTTTAGTGGC
19957323 GTTTTTTTTT
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
86 68 0.47
87 74 0.51
88 2 0.01
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (87 bp):
CCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCACTTTCACCAAAAACGCCACTAAAGACC
AACACCTTTAGTGGCACTTTTT
Found at i:19957679 original size:21 final size:21
Alignment explanation
Indices: 19957653--19957721 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
19957643 GACGCTGCTT
19957653 TGCTTCCCTCGCTGCAGCCTC
1 TGCTTCCCTCGCTGCAGCCTC
19957674 TGCTTCCCTCGCTGCAGCCT-
1 TGCTTCCCTCGCTGCAGCCTC
* * * *
19957694 GGACTTCTCTAGCTGCCGCCTC
1 TG-CTTCCCTCGCTGCAGCCTC
19957716 TGCTTC
1 TGCTTC
19957722 TCTTACTACC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 1 0.02
21 39 0.95
22 1 0.02
ACGTcount: A:0.06, C:0.43, G:0.20, T:0.30
Consensus pattern (21 bp):
TGCTTCCCTCGCTGCAGCCTC
Found at i:19957789 original size:66 final size:66
Alignment explanation
Indices: 19957712--19957857 Score: 179
Period size: 66 Copynumber: 2.2 Consensus size: 66
19957702 CTAGCTGCCG
* * *
19957712 CCTCTGCTTCTCTTACTACCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCACTACCACATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
19957775 GAA
64 GAA
* * * * * *
19957778 CCTCAGCTTCTCTCGCTGCTACATCTGCTTTTAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCACTACCACATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
19957843 A
66 A
19957844 CCTCAGCTTCTCTC
1 CCTCAGCTTCTCTC
19957858 GATGTTGCCT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
65 1 0.01
66 64 0.93
67 4 0.06
ACGTcount: A:0.14, C:0.29, G:0.16, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTCACTACCACATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:19957858 original size:66 final size:66
Alignment explanation
Indices: 19957733--19957858 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
19957723 CTTACTACCG
19957733 CATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCT
1 CATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCT
19957798 A
66 A
* * *
19957799 CATCTGCTTTTAGTTG-TAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCG
1 CATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCG
19957859 ATGTTGCCTC
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
65 1 0.02
66 50 0.91
67 4 0.07
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.41
Consensus pattern (66 bp):
CATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCT
A
Found at i:19957874 original size:66 final size:66
Alignment explanation
Indices: 19957733--19957881 Score: 185
Period size: 66 Copynumber: 2.3 Consensus size: 66
19957723 CTTACTACCG
* * *
19957733 CATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGC
1 CATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGC
19957797 TA
65 TA
* * * *
19957799 CATCTGCTTTTAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGT
1 CATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGC
*
19957863 TG
65 TA
*
19957865 CCTCCGCTTTAAGTTGT
1 CATCCGCTTTAAGTTGT
19957882 GTAATTTGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
65 1 0.01
66 67 0.93
67 4 0.06
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.42
Consensus pattern (66 bp):
CATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCT
A
Found at i:19959781 original size:29 final size:29
Alignment explanation
Indices: 19959739--19959818 Score: 151
Period size: 29 Copynumber: 2.8 Consensus size: 29
19959729 AACCCTCATC
19959739 AGTGGTGTATTATGCAAGTTATTTATGTA
1 AGTGGTGTATTATGCAAGTTATTTATGTA
19959768 AGTGGTGTATTATGCAAGTTATTTATGTA
1 AGTGGTGTATTATGCAAGTTATTTATGTA
*
19959797 AGTGGTGTATTATGTAAGTTAT
1 AGTGGTGTATTATGCAAGTTAT
19959819 GTACGCTATG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.45
Consensus pattern (29 bp):
AGTGGTGTATTATGCAAGTTATTTATGTA
Found at i:19959786 original size:16 final size:16
Alignment explanation
Indices: 19959739--19959815 Score: 76
Period size: 16 Copynumber: 5.2 Consensus size: 16
19959729 AACCCTCATC
*
19959739 AGTGGTGTATTATGCA
1 AGTGGTGTATTATGTA
*
19959755 AGT--TAT-TTATGTA
1 AGTGGTGTATTATGTA
*
19959768 AGTGGTGTATTATGCA
1 AGTGGTGTATTATGTA
*
19959784 AGT--TAT-TTATGTA
1 AGTGGTGTATTATGTA
19959797 AGTGGTGTATTATGTA
1 AGTGGTGTATTATGTA
19959813 AGT
1 AGT
19959816 TATGTACGCT
Statistics
Matches: 48, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
13 18 0.38
14 4 0.08
15 4 0.08
16 22 0.46
ACGTcount: A:0.27, C:0.03, G:0.26, T:0.44
Consensus pattern (16 bp):
AGTGGTGTATTATGTA
Found at i:19960626 original size:23 final size:20
Alignment explanation
Indices: 19960581--19960621 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
19960571 ATGTTATTCG
19960581 AATTTTAAATATATATA-TA
1 AATTTTAAATATATATATTA
19960600 AATTTTAAATATATATATTA
1 AATTTTAAATATATATATTA
19960620 AA
1 AA
19960622 AAATTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTTTAAATATATATATTA
Found at i:19961285 original size:28 final size:29
Alignment explanation
Indices: 19961239--19961299 Score: 106
Period size: 28 Copynumber: 2.1 Consensus size: 29
19961229 GCAAATAAAT
19961239 CCTCACCGACAAAAAATTAAAAATTGAAA
1 CCTCACCGACAAAAAATTAAAAATTGAAA
*
19961268 CCTCACCGA-AAAACATTAAAAATTGAAA
1 CCTCACCGACAAAAAATTAAAAATTGAAA
19961296 CCTC
1 CCTC
19961300 TGTGAATAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 22 0.71
29 9 0.29
ACGTcount: A:0.51, C:0.25, G:0.07, T:0.18
Consensus pattern (29 bp):
CCTCACCGACAAAAAATTAAAAATTGAAA
Found at i:19962706 original size:19 final size:19
Alignment explanation
Indices: 19962661--19962708 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
19962651 AATTAGAAAA
* *
19962661 ATTTTA-TTTCATTTTTTT
1 ATTTTATTTTTATTTTTGT
**
19962679 ATTCCATTTTTATTTTTGT
1 ATTTTATTTTTATTTTTGT
19962698 ATTTTATTTTT
1 ATTTTATTTTT
19962709 TCTTATAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (19 bp):
ATTTTATTTTTATTTTTGT
Found at i:19963081 original size:23 final size:23
Alignment explanation
Indices: 19963055--19963100 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19963045 AACCCTAAAT
* *
19963055 CCCTAGCTCTTAACCCATAAACC
1 CCCTAACTCCTAACCCATAAACC
*
19963078 CCCTAACTCCTAACCCCTAAACC
1 CCCTAACTCCTAACCCATAAACC
19963101 TTAAACCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.48, G:0.02, T:0.20
Consensus pattern (23 bp):
CCCTAACTCCTAACCCATAAACC
Found at i:19963424 original size:21 final size:21
Alignment explanation
Indices: 19963377--19963428 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
19963367 AACTCTTAAC
*
19963377 CCCTAAACCCCTAAACCTCTAG
1 CCCT-AACCCCTAAACCTCTAA
19963399 CCCTAACCCCTAAACCT-TAAA
1 CCCTAACCCCTAAACCTCT-AA
*
19963420 TCCTAACCC
1 CCCTAACCC
19963429 GACCCTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 22 0.81
22 4 0.15
ACGTcount: A:0.33, C:0.46, G:0.02, T:0.19
Consensus pattern (21 bp):
CCCTAACCCCTAAACCTCTAA
Found at i:19963573 original size:15 final size:16
Alignment explanation
Indices: 19963547--19963580 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
19963537 ATATACCTCT
19963547 AACCCTTAAATCCATA
1 AACCCTTAAATCCATA
19963563 AACCC-TAAATCCATA
1 AACCCTTAAATCCATA
19963578 AAC
1 AAC
19963581 ACCATATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (16 bp):
AACCCTTAAATCCATA
Found at i:19963934 original size:41 final size:41
Alignment explanation
Indices: 19963875--19964007 Score: 169
Period size: 41 Copynumber: 3.2 Consensus size: 41
19963865 TAAAAAAAAT
* **
19963875 ATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGATCTTAGC
1 ATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGATCAGAGC
* **
19963916 ATTAGCGGCGCTTCTTCAAAAATGCCGTTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGATCAGAGC
* * *
19963957 ATTACCGGCGCTTCTTCAAAAACGTCGCTAAAGGAT-AGAGC
1 ATTAGCGGCGCTTCTTCAAAAATGCCGCTAAA-GATCAGAGC
19963998 ATTAGCGGCG
1 ATTAGCGGCG
19964008 TTTTTTAAGA
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 77 0.99
42 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGATCAGAGC
Found at i:19964235 original size:40 final size:40
Alignment explanation
Indices: 19964129--19964245 Score: 116
Period size: 40 Copynumber: 3.0 Consensus size: 40
19964119 GCGATTTTCA
*
19964129 GAAAA-CGCCGCTAATGCT-AATTTTTAGCGGCTTTTTCT
1 GAAAAGCGCCGCTAATGCTCAATTTTTAGCGGCTTTTTAT
* * **
19964167 GTAAAGCGCCGCTAATGCTCTACCTTTAGCGG-TGTATTTAT
1 GAAAAGCGCCGCTAATGCTCAATTTTTAGCGGCT-T-TTTAT
* *
19964208 -AAAAGCGCCGCTAATGCTCGATTTTTAGTGGCGTTTTT
1 GAAAAGCGCCGCTAATGCTCAATTTTTAGCGGC-TTTTT
19964246 TGTCCAAACG
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
38 4 0.06
39 14 0.22
40 39 0.62
41 5 0.08
42 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (40 bp):
GAAAAGCGCCGCTAATGCTCAATTTTTAGCGGCTTTTTAT
Found at i:19965460 original size:16 final size:17
Alignment explanation
Indices: 19965438--19965471 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19965428 CGGTTTTTAC
19965438 ATATATATTAATAAATTT
1 ATATATA-TAATAAATTT
*
19965456 ATATATATATTAAATT
1 ATATATATAATAAATT
19965472 GTTTTTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATATATAATAAATTT
Found at i:19965536 original size:49 final size:49
Alignment explanation
Indices: 19965480--19965581 Score: 204
Period size: 49 Copynumber: 2.1 Consensus size: 49
19965470 TTGTTTTTAC
19965480 ATATATTGCAATGATTTATTTATAAATAAATAAATCAAATTAAATATAT
1 ATATATTGCAATGATTTATTTATAAATAAATAAATCAAATTAAATATAT
19965529 ATATATTGCAATGATTTATTTATAAATAAATAAATCAAATTAAATATAT
1 ATATATTGCAATGATTTATTTATAAATAAATAAATCAAATTAAATATAT
19965578 ATAT
1 ATAT
19965582 TGCAAGGGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (49 bp):
ATATATTGCAATGATTTATTTATAAATAAATAAATCAAATTAAATATAT
Found at i:19968220 original size:24 final size:24
Alignment explanation
Indices: 19968188--19968233 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
19968178 GTACACATAC
*
19968188 TATAAAAATATGT-ATGTATATATG
1 TATAAAAAT-TGTAACGTATATATG
*
19968212 TATATAAATTGTAACGTATATA
1 TATAAAAATTGTAACGTATATA
19968234 AAAATGTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (24 bp):
TATAAAAATTGTAACGTATATATG
Found at i:19968292 original size:16 final size:16
Alignment explanation
Indices: 19968268--19968307 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
19968258 AAAATTAGAA
* *
19968268 ATATGTAAGCGTGTAT
1 ATATATAAGCATGTAT
*
19968284 ATATATAAGTATGTAT
1 ATATATAAGCATGTAT
19968300 ATATATAA
1 ATATATAA
19968308 AAAAAATCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (16 bp):
ATATATAAGCATGTAT
Found at i:19970066 original size:98 final size:98
Alignment explanation
Indices: 19969872--19970071 Score: 271
Period size: 98 Copynumber: 2.0 Consensus size: 98
19969862 GGGAGATAAG
*
19969872 ATCTGATGTGATCTACTCTACTGTAACTTCAGAGAAATAAGATCTATGATTTTAATCCATTCCAC
1 ATCTGATGTGATCTACTCTACTGTAACTTCAGAGAAATAAGATCTATGATTTTAATCCACTCCAC
* *
19969937 TGCAACTTCAGGAAGATAGAATTATCGGCTTCA
66 TACAACTTCAGGAAGATAGAATTATCAGCTTCA
* * *
19969970 ATCTGATGTGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCT-TTATTTTAATCCACTCCA
1 ATCTGATGTGATCTACTCTACTGTAACTTCAGAGAAATAAGAT-CTATGATTTTAATCCACTCCA
* * *
19970034 CTATAACTTCA-GAGAGTTAGGATTA-CTAGCTTCA
65 CTACAACTTCAGGA-AGATAGAATTATC-AGCTTCA
19970068 ATCT
1 ATCT
19970072 ACTCCGTTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
97 3 0.03
98 85 0.94
99 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (98 bp):
ATCTGATGTGATCTACTCTACTGTAACTTCAGAGAAATAAGATCTATGATTTTAATCCACTCCAC
TACAACTTCAGGAAGATAGAATTATCAGCTTCA
Found at i:19970136 original size:44 final size:43
Alignment explanation
Indices: 19970062--19971659 Score: 579
Period size: 44 Copynumber: 37.0 Consensus size: 43
19970052 AGGATTACTA
* ** * *
19970062 GCTTCAATCTACTCCGTTATAATATCAGGGAGATAAGATCTCT
1 GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* * * *
19970105 GGCTTCAATCTGCTCCACTGTAACCTTAGGGATATAAGATCTGAAAT
1 -GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT---CT
* ** * * *
19970152 TCTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGA-C-CT
1 GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* * * * * * * *
19970193 GATGCGATCTACTCTACTGTAA-CTTCAGAGAGATGAGATCCTTT
1 GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTCT
** * * * **
19970237 ATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGAT-AGT
1 GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCT
** * * *
19970279 GTCTTGGATCTGCTCCGCTGTAATCTCAGAGAGATAAGATTTCT
1 G-CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* * **
19970323 GGCTTCAATCTGTTCCACTGTAACCTCAGGGAGATAAGATCTGA
1 -GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
** * * * * *
19970367 AATTC-TTC-GGTCTACTCTAACCTCAGGGAGATAAGA-C-CT
1 GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* * * * ** * *
19970406 GATGCGATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCATTT
1 GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATC-TCT
** * ** *
19970450 ATTTTAATCCACTCCACTGTAATCTCAGGGAGATAGGAT-TACT
1 GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-CT
* *
19970493 AGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGA-C-CT
1 -GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* * * * * * *
19970535 GATACGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCATTT
1 GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATC-TCT
** * * *
19970579 ATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACT
1 GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-CT
* * *
19970622 AGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTTTT
1 -GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TCTCT
** * ** * **
19970667 ATTTTAATCCACTCCACTGTAA-CTTCAGGGAGATAGGAT-AGT
1 GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCT
** *
19970709 GTCTTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCT
1 G-CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* * *
19970753 GGCTTCAATCTGCTCCGCTCTAATCTCAGGAAGATAAGA-C-CT
1 -GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* * * * * * ** *
19970795 GATACGATCTACTCTAATGTAA-CTTCAGAAAGATAAGATCCTTT
1 GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTCT
** * * * * * **
19970839 ATTTTAATCCGCTCCACTATAA-CTTCAAGGAGATAGGAT-AGT
1 GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCT
** *
19970881 GTCTTGGATCTGCTCCACTGTAATCTCAGGGAGATAAAATCTCT
1 G-CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* *
19970925 GGCTTCAATCTGCTCCACTGT-AGCTTCAGGGAGATAAGATCTAAAAT
1 -GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCT---CT
* ** * *
19970972 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CT
1 GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
** * * * * * * *
19971013 AATGCGATCTACTCTACTGTAA-CTTCAGAGAGATGAGATCCTTT
1 GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTCT
** * * * * **
19971057 ATTTTAATCCGCTCCACTATAA-CTTCAGGGAGATAGGAT-AGT
1 GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCT
** *
19971099 GTCTTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-C-CT
1 G-CTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* * * * * * *
19971141 G-ATAAGATCTACTCTACTGTAA-CTTTAGAGAGATAAGATCCTTT
1 GCTTCA-ATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTCT
** * * **
19971185 ATTTTAATCCGCTCCACTGTAA-CTTCAGGGAGAT-AGAAT-AGT
1 GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAG-ATCTCT
*
19971227 GTCTT-AGATCTGCTCCACTATAATCTCAGGGAGATAAGATCTCT
1 G-CTTCA-ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* * * *
19971271 AGCTTCAATCTGCTCCACTATAACCTCAGAGAGATAAGATCTGAAAT
1 -GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT---CT
* ** ** *
19971318 TCTTCGGTCTATTCCACTGT-AGCTTCAGGGAGATAAGA-C-CT
1 GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTCT
* * * * ** * ** *
19971359 GATGCGATCTACT-TGCTGGAA-CTTCAAAGAGATAAGATCCTTT
1 GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTCT
** * * *
19971402 ATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACT
1 GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-CT
* * * *
19971445 AGCTTTAATCTGCTTCGCTGTAATCTCAGAGAGATAAGA-C-CT
1 -GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* * * * * * * *
19971487 GATACGATCTACTCTACTGTAA-CTTTAGAGAGATAAGATCCTTT
1 GCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-CTCT
** * * * * *
19971531 ATTTTAATCCGCTCCACTATAATCTCAGGGAGATAGGGT-TACT
1 GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-CT
*
19971574 AGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCT
1 -GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
* *
19971618 GGCTTCAATCTGCTCCACTGTAACCTCAGAGAGATAAGATCT
1 -GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT
19971660 GAAATTTTTC
Statistics
Matches: 1139, Mismatches: 325, Indels: 180
0.69 0.20 0.11
Matches are distributed among these distances:
39 3 0.00
40 28 0.02
41 224 0.20
42 23 0.02
43 168 0.15
44 580 0.51
45 19 0.02
46 89 0.08
47 5 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (43 bp):
GCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCT
Found at i:19970289 original size:87 final size:87
Alignment explanation
Indices: 19970163--19971657 Score: 574
Period size: 87 Copynumber: 17.3 Consensus size: 87
19970153 CTTCGGTCTA
* * * * * *
19970163 CTCCACTATAACCTCAGGGAGATAAGA-CCTG--ATGCGATCTACTCTACTGTAACTTCAGAGAG
1 CTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTG-GATCTACTCCACTGTAACTTCAGGGAG
* * * *
19970225 ATGAGATCCTTTATTTTAATCCG
65 ATAAGATCCTTTACTTCAATCTG
* * * * *
19970248 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAA-TCTCAGAGAG
1 CTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTGGATCTACTCCACTGTAACT-TCAGGGAG
*
19970312 ATAAGAT--TTCTGGCTTCAATCTG
65 ATAAGATCCTT-T-ACTTCAATCTG
* * *
19970335 TTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCGG-TCTACT---C--TAACCTCAG
1 CTCCACTGTAACTTCAGGGAGATAAGATACTG----TCTT-GGATCTACTCCACTGTAACTTCAG
* * * *
19970393 GGAGATAAGA-CC-TGA-TGCGATCTA
61 GGAGATAAGATCCTTTACTTCAATCTG
** * * * ** *
19970417 CTCTGCTGTAACTTCAGAGAGATAAGAT-CATTTATTTTAATCCACTCCACTGTAA-TCTCAGGG
1 CTCCACTGTAACTTCAGGGAGATAAGATAC-TGT-CTTGGATCTACTCCACTGTAACT-TCAGGG
* *
19970480 AGATAGGAT--TACTAGCTTCAATCTG
63 AGATAAGATCCT-TTA-CTTCAATCTG
* * * * ** * *
19970505 CTCCGCTGTAA-TCTCAGAGAGATAAGA-CCTG-ATACGATCTACTCTACTGTAACTTCAGAGAG
1 CTCCACTGTAACT-TCAGGGAGATAAGATACTGTCTTGGATCTACTCCACTGTAACTTCAGGGAG
* * * *
19970567 ATAAGATCATTTATTTTAATCCG
65 ATAAGATCCTTTACTTCAATCTG
* ** * *
19970590 CTCCACTGTAA-TCTCAGGGAGATAGGATTACTAG-CTTCAATCTGCTCCGCTGTAA-TCTCAGG
1 CTCCACTGTAACT-TCAGGGAGATAAGA-TACT-GTCTTGGATCTACTCCACTGTAACT-TCAGG
** * * **
19970652 GAGATAAGATTTTTTATTTTAATCCA
62 GAGATAAGATCCTTTACTTCAATCTG
* * * *
19970678 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGCTGTAA-TCTCAGGGAG
1 CTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTGGATCTACTCCACTGTAACT-TCAGGGAG
**
19970742 ATAAGAT-CTCTGGCTTCAATCTG
65 ATAAGATCCT-TTACTTCAATCTG
* * * * * ** * * **
19970765 CTCCGCTCTAA-TCTCAGGAAGATAAGA-CCTG-ATACGATCTACTCTAATGTAACTTCAGAAAG
1 CTCCACTGTAACT-TCAGGGAGATAAGATACTGTCTTGGATCTACTCCACTGTAACTTCAGGGAG
* * *
19970827 ATAAGATCCTTTATTTTAATCCG
65 ATAAGATCCTTTACTTCAATCTG
* * * * *
19970850 CTCCACTATAACTTCAAGGAGATAGGATAGTGTCTTGGATCTGCTCCACTGTAA-TCTCAGGGAG
1 CTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTGGATCTACTCCACTGTAACT-TCAGGGAG
* **
19970914 ATAAAAT-CTCTGGCTTCAATCTG
65 ATAAGATCCT-TTACTTCAATCTG
* * *
19970937 CTCCACTGTAGCTTCAGGGAGATAAGAT-CTAAAATTCTTCGG-TCTACTCCACTGTAACCTCAG
1 CTCCACTGTAACTTCAGGGAGATAAGATACT----GTCTT-GGATCTACTCCACTGTAACTTCAG
* * * *
19971000 GGAGATAAGA-CC--TAATGCGATCTA
61 GGAGATAAGATCCTTTACTTCAATCTG
* * * * * * ** ** *
19971024 CTCTACTGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGAG
1 CTCCACTGTAACTTCAGGGAGATAAGATACTGT-CTTGGATCTACTCCACTGTAACTTCAGGGAG
* ** * **
19971089 ATAGGATAGTGT-CTTGGATCTG
65 ATAAGATCCTTTACTTCAATCTG
* * * ** * * *
19971111 CTCCGCTGTAA-TCTCAGGGAGATAAGA-CCTG-ATAAGATCTACTCTACTGTAACTTTAGAGAG
1 CTCCACTGTAACT-TCAGGGAGATAAGATACTGTCTTGGATCTACTCCACTGTAACTTCAGGGAG
* * *
19971173 ATAAGATCCTTTATTTTAATCCG
65 ATAAGATCCTTTACTTCAATCTG
* * * *
19971196 CTCCACTGTAACTTCAGGGAGAT-AGAATAGTGTCTTAGATCTGCTCCACTATAA-TCTCAGGGA
1 CTCCACTGTAACTTCAGGGAGATAAG-ATACTGTCTTGGATCTACTCCACTGTAACT-TCAGGGA
*
19971259 GATAAGAT-CTCTAGCTTCAATCTG
64 GATAAGATCCTTTA-CTTCAATCTG
* * * * *
19971283 CTCCACTATAACCTCAGAGAGATAAGAT-CTGAAATTCTTCGG-TCTATTCCACTGTAGCTTCAG
1 CTCCACTGTAACTTCAGGGAGATAAGATACTG----TCTT-GGATCTACTCCACTGTAACTTCAG
* * * *
19971346 GGAGATAAGA-CC-TGA-TGCGATCTA
61 GGAGATAAGATCCTTTACTTCAATCTG
** * ** * * * ** **
19971370 CT-TGCTGGAACTTCAAAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAA-TCTCAGGGA
1 CTCCACTGTAACTTCAGGGAGATAAGATACTGT-CTTGGATCTACTCCACTGTAACT-TCAGGGA
* * *
19971433 GATAGGAT--TACTAGCTTTAATCTG
64 GATAAGATCCT-TTA-CTTCAATCTG
* * * * * ** * * *
19971457 CTTCGCTGTAA-TCTCAGAGAGATAAGA-CCTG-ATACGATCTACTCTACTGTAACTTTAGAGAG
1 CTCCACTGTAACT-TCAGGGAGATAAGATACTGTCTTGGATCTACTCCACTGTAACTTCAGGGAG
* * *
19971519 ATAAGATCCTTTATTTTAATCCG
65 ATAAGATCCTTTACTTCAATCTG
* * * ** * *
19971542 CTCCACTATAA-TCTCAGGGAGATAGGGTTACTAG-CTTCAATCTGCTCCGCTGTAA-TCTCAGG
1 CTCCACTGTAACT-TCAGGGAGATA-AGATACT-GTCTTGGATCTACTCCACTGTAACT-TCAGG
**
19971604 GAGATAAGAT-CTCTGGCTTCAATCTG
62 GAGATAAGATCCT-TTACTTCAATCTG
* *
19971630 CTCCACTGTAACCTCAGAGAGATAAGAT
1 CTCCACTGTAACTTCAGGGAGATAAGAT
19971658 CTGAAATTTT
Statistics
Matches: 1044, Mismatches: 269, Indels: 192
0.69 0.18 0.13
Matches are distributed among these distances:
79 1 0.00
80 7 0.01
82 30 0.03
83 4 0.00
84 59 0.06
85 283 0.27
86 62 0.06
87 337 0.32
88 182 0.17
89 2 0.00
90 71 0.07
91 6 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (87 bp):
CTCCACTGTAACTTCAGGGAGATAAGATACTGTCTTGGATCTACTCCACTGTAACTTCAGGGAGA
TAAGATCCTTTACTTCAATCTG
Found at i:19970556 original size:129 final size:129
Alignment explanation
Indices: 19970388--19970917 Score: 658
Period size: 129 Copynumber: 4.1 Consensus size: 129
19970378 CTACTCTAAC
* *
19970388 CTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCATTTATT
1 CTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATT
*
19970453 TTAATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAAT
66 TTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAAT
*
19970517 CTCAGAGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATT
1 CTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATT
19970582 TTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAAT
66 TTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAAT
** * *** * * * * *
19970646 CTCAGGGAGATAAGATTTTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGAT-AGTG
1 CTCAGGGAGATAAGA--CCTGA-TACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCA-TT
* ** * * * * *
19970710 T-CTTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCGCTC
62 TATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCCGCTG
19970773 TAAT
126 TAAT
* * * *
19970777 CTCAGGAAGATAAGACCTGATACGATCTACTCTAATGTAACTTCAGAAAGATAAGATCCTTTATT
1 CTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATT
* * * ** *
19970842 TTAATCCGCTCCACTATAA-CTTCAAGGAGATAGGA-TAGT-GTCTTGGATCTGCTCCACTGTAA
66 TTAATCCGCTCCACTGTAATC-TCAGGGAGATAGGATTACTAG-CTTCAATCTGCTCCGCTGTAA
19970904 T
129 T
19970905 CTCAGGGAGATAA
1 CTCAGGGAGATAA
19970918 AATCTCTGGC
Statistics
Matches: 338, Mismatches: 53, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
127 2 0.01
128 62 0.18
129 168 0.50
131 73 0.22
132 33 0.10
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (129 bp):
CTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATT
TTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAAT
Found at i:19970790 original size:430 final size:432
Alignment explanation
Indices: 19969972--19970796 Score: 1092
Period size: 430 Copynumber: 1.9 Consensus size: 432
19969962 CGGCTTCAAT
* * *
19969972 CTGATGTGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTA
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCACTCCACTA
* * *
19970037 TAACTTCAGAGAGTTAGGATTACTAGCTTCAATCTACTCCGTTATAATATCAGGGAGATAAGATC
66 TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTATAATATCAGAGAGATAAGATC
* * * * * ** *
19970102 TCTGGCTTCAATCTGCTCCACTGTAACCTTAGGGATATAAGATCTGAAATTCTTCGGTCTACTCC
131 TCTGGATACAATCTACTCCACTGTAACCTTAGAGAGATAAGATCTGAAATTCTTCAATCCACTCC
* * * *
19970167 ACTATAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGAT
196 ACTATAACCTCAGGGAGATAAGAACTGATGCAATCTACTCCACTGTAACTTCAGAGAGATAAGAT
*
19970232 CCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGC
261 CCTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGC
* * * *
19970297 TGTAATCTCAGAGAGATAAGATTTCTGGCTTCAATCTGTTCCACTGTAACCTCAGGGAGATAAGA
326 TGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTCTAACCTCAGGAAGATAAGA
*
19970362 TCTGAAATTCTTCGGTCTACTCTAACCTCAGGGAGATAAGAC
391 CCTGAAATTCTTCGGTCTACTCTAACCTCAGGGAGATAAGAC
* *
19970404 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCACTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCACTCCACTA
* * * *
19970469 TAA-TCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGAGAGATAAGA-
66 TAACT-TCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTATAATATCAGAGAGATAAGAT
* * ** *
19970532 C-CT-GATACGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCAT-TTATT-TT-AATCCGC
130 CTCTGGATACAATCTACTCCACTGTAACCTT-AGAGAGATAAGATC-TGAAATTCTTCAATCCAC
* * * * * * * *
19970591 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAA-TCTCAGGGAG
193 TCCACTATAACCTCAGGGAGATAAGA--ACT-GATGCAATCTACTCCACTGTAACT-TCAGAGAG
**
19970655 ATAAGATTTTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCT
254 ATAAGATCCTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCT
* * *
19970720 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCGCTCTAATCTCAGGAA
319 GCTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTCTAACCTCAGGAA
19970785 GATAAGACCTGA
384 GATAAGACCTGA
19970797 TACGATCTAC
Statistics
Matches: 338, Mismatches: 48, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
427 26 0.08
428 5 0.01
429 35 0.10
430 156 0.46
431 2 0.01
432 114 0.34
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (432 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATTTATTTTAATCCACTCCACTA
TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTATAATATCAGAGAGATAAGATC
TCTGGATACAATCTACTCCACTGTAACCTTAGAGAGATAAGATCTGAAATTCTTCAATCCACTCC
ACTATAACCTCAGGGAGATAAGAACTGATGCAATCTACTCCACTGTAACTTCAGAGAGATAAGAT
CCTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTGGATCTGCTCCGC
TGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTCTAACCTCAGGAAGATAAGA
CCTGAAATTCTTCGGTCTACTCTAACCTCAGGGAGATAAGAC
Found at i:19971154 original size:128 final size:128
Alignment explanation
Indices: 19970983--19971265 Score: 467
Period size: 128 Copynumber: 2.2 Consensus size: 128
19970973 CTTCGGTCTA
* ** *
19970983 CTCCACTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGAGATG
1 CTCCACTGTAATCTCAGGGAGATAAGACCTAATAAGATCTACTCTACTGTAACTTCAGAGAGATA
* *
19971048 AGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGAGATAGGATAGTGTCTTGGATCTG
66 AGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGAGATAGAATAGTGTCTTAGATCTG
* * *
19971111 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATAAGATCTACTCTACTGTAACTTTAGAGAGATA
1 CTCCACTGTAATCTCAGGGAGATAAGACCTAATAAGATCTACTCTACTGTAACTTCAGAGAGATA
*
19971176 AGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGAATAGTGTCTTAGATCTG
66 AGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGAGATAGAATAGTGTCTTAGATCTG
*
19971239 CTCCACTATAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
19971266 TCTCTAGCTT
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
128 143 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (128 bp):
CTCCACTGTAATCTCAGGGAGATAAGACCTAATAAGATCTACTCTACTGTAACTTCAGAGAGATA
AGATCCTTTATTTTAATCCGCTCCACTATAACTTCAGGGAGATAGAATAGTGTCTTAGATCTG
Found at i:19971184 original size:346 final size:346
Alignment explanation
Indices: 19970720--19971675 Score: 1422
Period size: 346 Copynumber: 2.8 Consensus size: 346
19970710 TCTTGGATCT
* * * * * * *
19970720 GCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCGCTCTAATCTCAGGA
1 GCTCCACTATAATCTCAGGGAGATAGGAT-TACTAGCTTGAATCTGCTCCGCTGTAATCTCAGGG
* * *
19970784 AGATAAGACCTGATACGATCTACTCTAATGTAACTTCAGAAAGATAAGATCCTTTATTTTAATCC
65 AGATAAGACCTGATACGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCC
* *
19970849 GCTCCACTATAACTTCAAGGAGATAGGATAGTGTCTTGGATCTGCTCCACTGTAATCTCAGGGAG
130 GCTCCACTATAACTTCAGGGAGATAGGATAGTGTCTTAGATCTGCTCCACTGTAATCTCAGGGAG
* * * * *
19970914 ATAAAATCTCTGGCTTCAATCTGCTCCACTGTAGCTTCAGGGAGATAAGATCTAAAATTCTTCGG
195 ATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGAGAGATAAGATCTGAAATTCTTCGG
* *
19970979 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTCTACTGTAACTTCAGAGA
260 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACT-TACTGGAACTTCAAAGA
*
19971044 GATGAGATCCTTTATTTTAATCC
324 GATAAGATCCTTTATTTTAATCC
* *
19971067 GCTCCACTATAA-CTTCAGGGAGATAGGA-TAGT-GTCTTGGATCTGCTCCGCTGTAATCTCAGG
1 GCTCCACTATAATC-TCAGGGAGATAGGATTACTAG-CTTGAATCTGCTCCGCTGTAATCTCAGG
*
19971129 GAGATAAGACCTGATAAGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATC
64 GAGATAAGACCTGATACGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATC
* * *
19971194 CGCTCCACTGTAACTTCAGGGAGATAGAATAGTGTCTTAGATCTGCTCCACTATAATCTCAGGGA
129 CGCTCCACTATAACTTCAGGGAGATAGGATAGTGTCTTAGATCTGCTCCACTGTAATCTCAGGGA
* *
19971259 GATAAGATCTCTAGCTTCAATCTGCTCCACTATAACCTCAGAGAGATAAGATCTGAAATTCTTCG
194 GATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGAGAGATAAGATCTGAAATTCTTCG
* * * * *
19971324 GTCTATTCCACTGTAGCTTCAGGGAGATAAGACCTGATGCGATCTACTTGCTGGAACTTCAAAGA
259 GTCTACTCCACTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTTACTGGAACTTCAAAGA
19971389 GATAAGATCCTTTATTTTAATCC
324 GATAAGATCCTTTATTTTAATCC
* * * *
19971412 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTTAATCTGCTTCGCTGTAATCTCAGAGA
1 GCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTGAATCTGCTCCGCTGTAATCTCAGGGA
19971477 GATAAGACCTGATACGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCG
66 GATAAGACCTGATACGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCG
* * *
19971542 CTCCACTATAA-TCTCAGGGAGATAGGGTTACTAG-CTTCA-ATCTGCTCCGCTGTAATCTCAGG
131 CTCCACTATAACT-TCAGGGAGATA-GGATAGT-GTCTT-AGATCTGCTCCACTGTAATCTCAGG
*
19971604 GAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGAGAGATAAGATCTGAAATTTTT
192 GAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGAGAGATAAGATCTGAAATTCTT
19971669 CGGTCTA
257 CGGTCTA
19971676 TTCCCTGGGG
Statistics
Matches: 551, Mismatches: 48, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
345 64 0.12
346 364 0.66
347 121 0.22
348 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (346 bp):
GCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTGAATCTGCTCCGCTGTAATCTCAGGGA
GATAAGACCTGATACGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCCG
CTCCACTATAACTTCAGGGAGATAGGATAGTGTCTTAGATCTGCTCCACTGTAATCTCAGGGAGA
TAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGAGAGATAAGATCTGAAATTCTTCGGT
CTACTCCACTGTAACCTCAGGGAGATAAGACCTAATGCGATCTACTTACTGGAACTTCAAAGAGA
TAAGATCCTTTATTTTAATCC
Found at i:19971538 original size:129 final size:129
Alignment explanation
Indices: 19971342--19971658 Score: 456
Period size: 129 Copynumber: 2.4 Consensus size: 129
19971332 CACTGTAGCT
* * * *
19971342 TCAGGGAGATAAGACCTGATGCGATCTACT-TGCTGGAACTTCAAAGAGATAAGATCCTTTATTT
1 TCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
* * *
19971406 TAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTTAATCTGCTTCGCTGTAATC
66 TAATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATC
* *
19971470 TCAGAGAGATAAGACCTGATACGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTT
1 TCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
*
19971535 TAATCCGCTCCACTATAATCTCAGGGAGATAGGGTTACTAGCTTCAATCTGCTCCGCTGTAATC
66 TAATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATC
* * * * * *
19971599 TCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGAGAGATAAGATC
1 TCAGGGAGATAAGA-C-CT-GATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
19971659 TGAAATTTTT
Statistics
Matches: 167, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
128 28 0.17
129 103 0.62
130 1 0.01
131 2 0.01
132 33 0.20
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (129 bp):
TCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
TAATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATC
Found at i:19973796 original size:9 final size:8
Alignment explanation
Indices: 19973777--19973895 Score: 50
Period size: 8 Copynumber: 14.4 Consensus size: 8
19973767 CTCCTTTTTC
19973777 TTTTCTTT
1 TTTTCTTT
*
19973785 TTCTC-TT
1 TTTTCTTT
19973792 TTTTCTTT
1 TTTTCTTT
*
19973800 TTCTCTTAT
1 TTTTCTT-T
19973809 TTTTGACTTT
1 TTTT--CTTT
** **
19973819 GATT-GAT
1 TTTTCTTT
19973826 TTTTCTTT
1 TTTTCTTT
19973834 TTTTGCTTT
1 TTTT-CTTT
*
19973843 TGCTTT-TGAT
1 T--TTTCT-TT
19973853 TTTTC-TT
1 TTTTCTTT
19973860 TTTTC-TT
1 TTTTCTTT
19973867 TTTTCTTT
1 TTTTCTTT
*
19973875 TCCTTCTTT
1 T-TTTCTTT
19973884 TTTTACTTT
1 TTTT-CTTT
19973893 TTT
1 TTT
19973896 ATAGAATCTA
Statistics
Matches: 82, Mismatches: 16, Indels: 25
0.67 0.13 0.20
Matches are distributed among these distances:
7 22 0.27
8 25 0.30
9 24 0.29
10 5 0.06
11 6 0.07
ACGTcount: A:0.05, C:0.14, G:0.05, T:0.76
Consensus pattern (8 bp):
TTTTCTTT
Found at i:19973797 original size:15 final size:16
Alignment explanation
Indices: 19973777--19973811 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
19973767 CTCCTTTTTC
19973777 TTTTCTTTTTCTCTT-
1 TTTTCTTTTTCTCTTA
19973792 TTTTCTTTTTCTCTTA
1 TTTTCTTTTTCTCTTA
19973808 TTTT
1 TTTT
19973812 TGACTTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTTTTTCTCTTA
Found at i:19973883 original size:16 final size:14
Alignment explanation
Indices: 19973852--19973886 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
19973842 TTGCTTTTGA
19973852 TTTTTCTTTTTTCT
1 TTTTTCTTTTTTCT
19973866 TTTTTCTTTTCCTTCT
1 TTTTTCTTTT--TTCT
19973882 TTTTT
1 TTTTT
19973887 TACTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.53
16 9 0.47
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTTTTTTCT
Found at i:19973893 original size:32 final size:33
Alignment explanation
Indices: 19973825--19973895 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
19973815 CTTTGATTGA
*
19973825 TTTTTCTTTTTTTGCTTTTGCTTTTGATTTTTCT
1 TTTTTCTTTTTTTGCTTTTCCTTTT-ATTTTTCT
19973859 TTTTTC-TTTTTT-CTTTTCCTTCTT-TTTTTACT
1 TTTTTCTTTTTTTGCTTTTCCTT-TTATTTTT-CT
19973891 TTTTT
1 TTTTT
19973896 ATAGAATCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
31 5 0.15
32 15 0.44
33 8 0.24
34 6 0.18
ACGTcount: A:0.03, C:0.14, G:0.04, T:0.79
Consensus pattern (33 bp):
TTTTTCTTTTTTTGCTTTTCCTTTTATTTTTCT
Found at i:19978368 original size:16 final size:16
Alignment explanation
Indices: 19978344--19978383 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
19978334 AAAATTAGAA
* *
19978344 ATATGTAAGCGTGTAT
1 ATATATAAGCATGTAT
*
19978360 ATATATAAGTATGTAT
1 ATATATAAGCATGTAT
19978376 ATATATAA
1 ATATATAA
19978384 CAAAATCTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.40
Consensus pattern (16 bp):
ATATATAAGCATGTAT
Found at i:19978402 original size:23 final size:21
Alignment explanation
Indices: 19978376--19978418 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
19978366 AAGTATGTAT
*
19978376 ATATATAACAAAATCTAGAAA
1 ATATATAACAAAATCTAAAAA
19978397 ATATATAACAAAATCTAAAAA
1 ATATATAACAAAATCTAAAAA
19978418 A
1 A
19978419 CGGTATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.23
Consensus pattern (21 bp):
ATATATAACAAAATCTAAAAA
Found at i:19982442 original size:4 final size:4
Alignment explanation
Indices: 19982433--19982482 Score: 91
Period size: 4 Copynumber: 12.5 Consensus size: 4
19982423 ATCCTTTTCT
*
19982433 CATA CATA CATA CATA CATG CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
19982481 CA
1 CA
19982483 CGCATGCATG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:19984862 original size:21 final size:21
Alignment explanation
Indices: 19984837--19984891 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
19984827 GCTTTTGTGG
19984837 TTGTACTTGTTTTTGATGAAC
1 TTGTACTTGTTTTTGATGAAC
19984858 TTGTACTTGTTTTTGATGAAC
1 TTGTACTTGTTTTTGATGAAC
*
19984879 TTGAACTTGTTTT
1 TTGTACTTGTTTT
19984892 CGATTTTACC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.18, C:0.09, G:0.18, T:0.55
Consensus pattern (21 bp):
TTGTACTTGTTTTTGATGAAC
Found at i:19984928 original size:7 final size:7
Alignment explanation
Indices: 19984918--19984943 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
19984908 ATCAAAATCC
19984918 AAAAATA
1 AAAAATA
19984925 AAAAATA
1 AAAAATA
19984932 AAAAATA
1 AAAAATA
19984939 AAAAA
1 AAAAA
19984944 AGACAAATAT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:19985914 original size:29 final size:29
Alignment explanation
Indices: 19985850--19985919 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 29
19985840 ACTACTAAAA
*
19985850 TAGTCACTTTTGTTTGACTCAAGTTACATTT
1 TAGTCACTTATGTTTGA--CAAGTTACATTT
*
19985881 TAGTCACTTATGTTTGA-AATGTTACGTTT
1 TAGTCACTTATGTTTGACAA-GTTACATTT
19985910 TAGTCACTTA
1 TAGTCACTTA
19985920 CGTTATCGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 18 0.50
31 16 0.44
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
TAGTCACTTATGTTTGACAAGTTACATTT
Found at i:19986872 original size:27 final size:27
Alignment explanation
Indices: 19986824--19986876 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
19986814 GGATTTGGTG
19986824 GTGCCTTCCTGAAAGGTGGCACCAGTT
1 GTGCCTTCCTGAAAGGTGGCACCAGTT
* *
19986851 GTGCCTTCTTGACAGGCT-GCACCAGT
1 GTGCCTTCCTGAAAGG-TGGCACCAGT
19986877 CTGATTAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.26
Consensus pattern (27 bp):
GTGCCTTCCTGAAAGGTGGCACCAGTT
Found at i:19988488 original size:13 final size:13
Alignment explanation
Indices: 19988470--19988494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19988460 TTGGATCTGT
19988470 ACCAAAACAATCC
1 ACCAAAACAATCC
19988483 ACCAAAACAATC
1 ACCAAAACAATC
19988495 ATGAAACATA
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:0.56, C:0.36, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCC
Found at i:19989362 original size:42 final size:42
Alignment explanation
Indices: 19989254--19989418 Score: 145
Period size: 43 Copynumber: 3.9 Consensus size: 42
19989244 AGCTCGTACA
* * * *
19989254 ATGCCAACGTCCCAGACGA-GGTCTTACATGTAATCAAATGTCG
1 ATGCCAACGTCCCAGAC-ATGGTCTTACACGAAATCATAT-ACG
* * *
19989297 ATGCC-ACTATCCCAGATAGGGTCTTACACGAAATCATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCATATACG
* * * *
19989339 ATGCCAATGTCTCAGACATGGTCTTACACGTAAATCTTAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCATATA-CG
** *
19989383 ATGCCAACGTCCCAGATGTGGTCTTACACAAAATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAATCA
19989419 CATATCAGAA
Statistics
Matches: 98, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 28 0.29
43 43 0.44
44 27 0.28
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCATATACG
Found at i:19990763 original size:22 final size:22
Alignment explanation
Indices: 19990738--19990791 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
19990728 AAACTGTTTA
*
19990738 GTATTTTTTTAA-TGATATTATT
1 GTATTTTATTAATTG-TATTATT
*
19990760 GTATGTTATTAATTGTATTATT
1 GTATTTTATTAATTGTATTATT
*
19990782 -TATTGTATTA
1 GTATTTTATTA
19990792 TATTTATGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 8 0.30
22 17 0.63
23 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (22 bp):
GTATTTTATTAATTGTATTATT
Found at i:19990795 original size:14 final size:13
Alignment explanation
Indices: 19990755--19990798 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
19990745 TTTAATGATA
19990755 TTATTGTATGTTAT
1 TTATTGTAT-TTAT
*
19990769 TAATTGTA-TTAT
1 TTATTGTATTTAT
19990781 TTATTGTATTATAT
1 TTATTGTATT-TAT
19990795 TTAT
1 TTAT
19990799 GTGTTTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 11 0.42
13 1 0.04
14 14 0.54
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (13 bp):
TTATTGTATTTAT
Done.