Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 61 of 186
Found at i:19073272 original size:18 final size:18
Alignment explanation
Indices: 19073249--19073290 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
19073239 GTATTGTTTC
* *
19073249 TAAAAAATATTTTTGAGG
1 TAAAAAATACTTTTGAGA
19073267 TAAAAAATACTTTTGAGA
1 TAAAAAATACTTTTGAGA
19073285 TAAAAA
1 TAAAAA
19073291 CATTATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.33
Consensus pattern (18 bp):
TAAAAAATACTTTTGAGA
Found at i:19073735 original size:179 final size:181
Alignment explanation
Indices: 19073435--19073788 Score: 606
Period size: 179 Copynumber: 2.0 Consensus size: 181
19073425 ACCAAAAGCA
19073435 CTTTTGAGAAGTAATGCTAAACTAAGCCTTAAATGAGAACGATAACATAAGTGCATTGAGTGTTA
1 CTTTTGAGAAGTAATGCTAAACTAAGCCTTAAATGAGAACGATAACATAAGTGCATTGAGTGTTA
* *
19073500 TGGTGCATTTAAGGGGGAAGAAAAAAAGGATTGAGACAAAATTTTGGAATCAACAATAA-CGAAA
66 TGGTGCATTTAAGGAGGAAGAAAAAAAGGATTGAGACAAAATTTTGGAATCAACAATAACCAAAA
*
19073564 AAA-AAGAAGAAAGGCTCAAAGGGAATTAGTGCAAAAGTGAAGAAAGTCAC
131 AAAGAAGAAGAAAGGCTCAAAGGGAATCAGTGCAAAAGTGAAGAAAGTCAC
* *
19073614 CTTTTGAGAAGTAATGCTACACTAAGCCTTAAATGAGAACGATAACGTAAGTGCATCT-AGTGTT
1 CTTTTGAGAAGTAATGCTAAACTAAGCCTTAAATGAGAACGATAACATAAGTGCAT-TGAGTGTT
* * *
19073678 ATGGTGCATTTAAGGAGTAAGAAAAAAAGGATTGAGATAGAATTTTGGAATCAACAATAACCAAA
65 ATGGTGCATTTAAGGAGGAAGAAAAAAAGGATTGAGACAAAATTTTGGAATCAACAATAACCAAA
19073743 AAAAGAAGAAGAAAGGCTCAAAGGGAATCAGTGCAAAAGTGAAGAA
130 AAAAGAAGAAGAAAGGCTCAAAGGGAATCAGTGCAAAAGTGAAGAA
19073789 GCCATTCACT
Statistics
Matches: 164, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
179 116 0.71
180 8 0.05
181 40 0.24
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.21
Consensus pattern (181 bp):
CTTTTGAGAAGTAATGCTAAACTAAGCCTTAAATGAGAACGATAACATAAGTGCATTGAGTGTTA
TGGTGCATTTAAGGAGGAAGAAAAAAAGGATTGAGACAAAATTTTGGAATCAACAATAACCAAAA
AAAGAAGAAGAAAGGCTCAAAGGGAATCAGTGCAAAAGTGAAGAAAGTCAC
Found at i:19079314 original size:14 final size:14
Alignment explanation
Indices: 19079279--19079308 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19079269 GACCACTTTT
19079279 TCATAATTAATTAA
1 TCATAATTAATTAA
*
19079293 TCATAATTTATTAA
1 TCATAATTAATTAA
19079307 TC
1 TC
19079309 CAAATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (14 bp):
TCATAATTAATTAA
Found at i:19084839 original size:45 final size:45
Alignment explanation
Indices: 19084732--19084858 Score: 154
Period size: 45 Copynumber: 2.9 Consensus size: 45
19084722 TTTTCTCAAA
* * *
19084732 TCACCGGCATT-TCGCCTGCTAGGCTCG-AGGCCTG-ATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCATC
*
19084774 TCACCGGTATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCATC
* * *
19084819 TCACCGGCATTATAGTCTGCTAAGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
19084859 ATCAAATCAA
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
42 10 0.14
43 15 0.21
44 6 0.08
45 41 0.56
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCATC
Found at i:19085253 original size:43 final size:43
Alignment explanation
Indices: 19085192--19085352 Score: 202
Period size: 43 Copynumber: 3.8 Consensus size: 43
19085182 ATTACGCTTG
* * *
19085192 CTAGGAACGAAGGCCCGAATACACATCACCGGCACAAAGCCTA
1 CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTA
*
19085235 CTAGGCACGGAGGCCCGAATACACATCACCAGCA-GAAGCCTA
1 CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTA
* * * * *
19085277 CTAGGCACAAAGGCCCAAATACACGTCACCAGCACGAAGCTTG
1 CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTA
* *
19085320 CTAGGCACGAAAGCCCGAATATA-AT-ACCAGCAC
1 CTAGGCACGAAGGCCCGAATACACATCACCAGCAC
19085353 TAGGCCTGCG
Statistics
Matches: 102, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
41 8 0.08
42 38 0.37
43 56 0.55
ACGTcount: A:0.36, C:0.32, G:0.21, T:0.11
Consensus pattern (43 bp):
CTAGGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTA
Found at i:19085383 original size:38 final size:38
Alignment explanation
Indices: 19085333--19085518 Score: 230
Period size: 38 Copynumber: 4.8 Consensus size: 38
19085323 GGCACGAAAG
* * * *
19085333 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
19085371 CCTGGATATAATACCAGCACGAAGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
19085409 CCTGGATATAATACCAGCACGAAGCCTGCGGGTTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
19085447 CCCAGATATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATA-A-TACCAGCACGAAGCCTGCGGGATTTAA
** *
19085487 CCCGGATATTTTACCAGCA-TATAGCCTGCGGG
1 CCCGGATATAATACCAGCACGA-AGCCTGCGGG
19085519 TCTTTAAGCC
Statistics
Matches: 132, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.01
38 96 0.73
39 1 0.01
40 34 0.26
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.24
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:19085484 original size:78 final size:76
Alignment explanation
Indices: 19085333--19085525 Score: 244
Period size: 78 Copynumber: 2.5 Consensus size: 76
19085323 GGCACGAAAG
* * * * **
19085333 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTATCCTGGATATAATACCAGCACGAAGCCT
1 CCCGGATATAATACCAGCACTAAGCCTGCGGGTTTTAACCCAGATATAATACCAGCACGAAGCCT
*
19085398 GCGGGATTTAT
66 GCGGGATTTAA
* *
19085409 CCTGGATATAATACCAGCACGAAGCCTGCGGGTTTTAACCCAGATATATATTACCAGCACGAAGC
1 CCCGGATATAATACCAGCACTAAGCCTGCGGGTTTTAACCCAGATATA-A-TACCAGCACGAAGC
19085474 CTGCGGGATTTAA
64 CTGCGGGATTTAA
**
19085487 CCCGGATATTTTACCAGCA-TATAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACTA-AGCCTGCGGGT-TTTAA
19085526 GCCCGAATAC
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
76 40 0.40
77 2 0.02
78 53 0.53
79 5 0.05
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (76 bp):
CCCGGATATAATACCAGCACTAAGCCTGCGGGTTTTAACCCAGATATAATACCAGCACGAAGCCT
GCGGGATTTAA
Found at i:19088639 original size:65 final size:65
Alignment explanation
Indices: 19088542--19088664 Score: 219
Period size: 65 Copynumber: 1.9 Consensus size: 65
19088532 AAAAAAAATG
19088542 ATCAAAAAATTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCGTTAACAAACATA
1 ATCAAAAAATTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCGTTAACAAACATA
* * *
19088607 ATCAGAAATTTACCTGTTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCGTTAAC
1 ATCAAAAAATTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCGTTAAC
19088665 TATTGGGGGT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (65 bp):
ATCAAAAAATTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCGTTAACAAACATA
Found at i:19095185 original size:28 final size:28
Alignment explanation
Indices: 19095129--19095185 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
19095119 ATTTTAGCTC
*
19095129 TTAAATTTATAAAATTTAATTTAATTTT
1 TTAAATTTATAAAATTAAATTTAATTTT
*
19095157 TTAAA-TTATAAAAATTAAAATTTTATTTT
1 TTAAATTTAT-AAAATT-AAATTTAATTTT
19095186 AACTTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 4 0.16
28 11 0.44
29 10 0.40
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTAAATTTATAAAATTAAATTTAATTTT
Found at i:19095206 original size:19 final size:20
Alignment explanation
Indices: 19095171--19095209 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
19095161 ATTATAAAAA
19095171 TTAAAATTTTATTTTAACTT
1 TTAAAATTTTATTTTAACTT
19095191 TTAAAATTTT-TTTTAACTT
1 TTAAAATTTTATTTTAACTT
19095210 CACCCCCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TTAAAATTTTATTTTAACTT
Found at i:19112527 original size:39 final size:39
Alignment explanation
Indices: 19112484--19112561 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
19112474 GTTTTCAAGT
19112484 GAAATAATGGTTATTTGTATATATGGTTGTGGTTGAGGC
1 GAAATAATGGTTATTTGTATATATGGTTGTGGTTGAGGC
19112523 GAAATAATGGTTATTTGTATATATGGTTGTGGTTGAGGC
1 GAAATAATGGTTATTTGTATATATGGTTGTGGTTGAGGC
19112562 TATGTTTGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.03, G:0.31, T:0.41
Consensus pattern (39 bp):
GAAATAATGGTTATTTGTATATATGGTTGTGGTTGAGGC
Found at i:19114042 original size:19 final size:19
Alignment explanation
Indices: 19114017--19114068 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
19114007 TCAAATACAT
19114017 TTTTAACATGATTGAAA-A
1 TTTTAACATGATTGAAACA
*
19114035 TGTTTAAC-TCAATTGAAACCA
1 T-TTTAACAT-GATTGAAA-CA
19114056 TTTTAACATGATT
1 TTTTAACATGATT
19114069 TTATCAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 2 0.07
19 13 0.48
20 9 0.33
21 3 0.11
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (19 bp):
TTTTAACATGATTGAAACA
Found at i:19115782 original size:15 final size:15
Alignment explanation
Indices: 19115764--19115792 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19115754 GATTATTATT
19115764 AAAAATAATTTAATA
1 AAAAATAATTTAATA
19115779 AAAAATAATTTAAT
1 AAAAATAATTTAAT
19115793 CATATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAAATAATTTAATA
Found at i:19115791 original size:26 final size:27
Alignment explanation
Indices: 19115760--19115831 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 27
19115750 AACGGATTAT
19115760 TATTAAAAATAATTTAATAAAAAATAA
1 TATTAAAAATAATTTAATAAAAAATAA
** * * * *
19115787 T-TTAATCATATTTTAAT-ATAATTAT
1 TATTAAAAATAATTTAATAAAAAATAA
*
19115812 TATTAAATATAATTTAATAA
1 TATTAAAAATAATTTAATAA
19115832 TATTTTTAAT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
25 6 0.18
26 26 0.76
27 2 0.06
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (27 bp):
TATTAAAAATAATTTAATAAAAAATAA
Found at i:19116503 original size:13 final size:13
Alignment explanation
Indices: 19116449--19116509 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
19116439 TTATTTATTT
* *
19116449 TAAAAAAAATTAA
1 TAAAAAATATAAA
*
19116462 TAAATAATATAAA
1 TAAAAAATATAAA
** *
19116475 TTTAAAAGTTAAAAA
1 --TAAAAAATATAAA
19116490 TAAAAAATATAAA
1 TAAAAAATATAAA
19116503 TAAAAAA
1 TAAAAAA
19116510 ATTATAAAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
13 27 0.75
15 9 0.25
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
TAAAAAATATAAA
Found at i:19116509 original size:28 final size:29
Alignment explanation
Indices: 19116460--19116520 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
19116450 AAAAAAAATT
* ** *
19116460 AATAAATAATATAAATTTAAAAGTTA-AA
1 AATAAAAAATATAAATAAAAAAATTATAA
19116488 AATAAAAAATATAAATAAAAAAATTATAA
1 AATAAAAAATATAAATAAAAAAATTATAA
19116517 AATA
1 AATA
19116521 TAAGATCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (29 bp):
AATAAAAAATATAAATAAAAAAATTATAA
Found at i:19116535 original size:24 final size:22
Alignment explanation
Indices: 19116485--19116538 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
19116475 TTTAAAAGTT
*
19116485 AAAAA-TAAAAAATATAAATAA
1 AAAAATTATAAAATATAAATAA
19116506 AAAAATTATAAAATATAAGATCAA
1 AAAAATTATAAAATATAA-AT-AA
*
19116530 ATAAATTAT
1 AAAAATTAT
19116539 TATGCATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 5 0.18
22 11 0.39
23 2 0.07
24 10 0.36
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAAATTATAAAATATAAATAA
Found at i:19120332 original size:43 final size:43
Alignment explanation
Indices: 19120285--19120421 Score: 131
Period size: 43 Copynumber: 3.2 Consensus size: 43
19120275 TCCCGGACGA
* * * *
19120285 GGTCTTACATGTAATCCAATATCGATGCCTCTATCCCAGACAG
1 GGTCTTACACGTAATCCAATATCGATGCCTATGTCCCAGACAC
* * *
19120328 GGTCTTACACGAAAT-CAAGTA-CGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAATCCAA-TATCGATGCCTATGTCCCAGACAC
*
19120370 GGTCTTATACGTAAATCTC-A-ATCGA-GTCCTATGTCCCAGACAC
1 GGTCTTACACGT-AATC-CAATATCGATG-CCTATGTCCCAGACAC
19120413 GGTCTTACA
1 GGTCTTACA
19120422 TGATATCTCA
Statistics
Matches: 77, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
42 32 0.42
43 43 0.56
44 1 0.01
45 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAATCCAATATCGATGCCTATGTCCCAGACAC
Found at i:19120677 original size:15 final size:15
Alignment explanation
Indices: 19120657--19120686 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
19120647 ACTTTCCCCG
19120657 ATCTAAGTCTGATTT
1 ATCTAAGTCTGATTT
19120672 ATCTAAGTCTGATTT
1 ATCTAAGTCTGATTT
19120687 TCTTTGTTCT
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:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
ATCTAAGTCTGATTT
Found at i:19129746 original size:34 final size:34
Alignment explanation
Indices: 19129703--19129783 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
19129693 GCATGACTAC
19129703 TACTGATACTGTGATAGGCTAAGGCCCTAATGCA
1 TACTGATACTGTGATAGGCTAAGGCCCTAATGCA
* * *
19129737 TACTGATACTATGATGGGCTAAGGCCCTACTGCA
1 TACTGATACTGTGATAGGCTAAGGCCCTAATGCA
*
19129771 TATTTGATACTGT
1 TA-CTGATACTGT
19129784 ACTGAGATGG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 33 0.80
35 8 0.20
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (34 bp):
TACTGATACTGTGATAGGCTAAGGCCCTAATGCA
Found at i:19131189 original size:26 final size:26
Alignment explanation
Indices: 19131152--19131259 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
19131142 TGATACAAAT
19131152 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
19131178 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
19131204 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
19131230 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
19131256 TGAT
1 TGAT
19131260 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:19132901 original size:27 final size:26
Alignment explanation
Indices: 19132861--19133001 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 26
19132851 AGGAAGCGTC
*
19132861 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
19132888 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
19132915 CTGGTGGCTATGCCACGATTATTTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
19132942 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
19132969 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
19132996 CTGGTG
1 CTGGTG
19133002 ACTTCGTCAC
Statistics
Matches: 100, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
26 10 0.10
27 88 0.88
28 2 0.02
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:19132943 original size:54 final size:53
Alignment explanation
Indices: 19132861--19133001 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
19132851 AGGAAGCGTC
19132861 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
19132915 CTGGTGGCTATGCCACGATTATTTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
19132969 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
19133002 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 6 0.07
54 75 0.93
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:19133012 original size:27 final size:26
Alignment explanation
Indices: 19132861--19133019 Score: 149
Period size: 27 Copynumber: 5.9 Consensus size: 26
19132851 AGGAAGCGTC
* * *
19132861 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCACAA-TATCTGTT
*
19132888 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
* * * * *
19132915 CTGGTGGCTATGCCACGATTATTTGAT
1 CTGGTGACTCTGCCAC-AATATCTGTT
*
19132942 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGACTCTGCCACA-ATATCTGTT
*
19132969 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCACAATATCTGT-T
*
19132996 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGACTCT-GCCACAATATCTG
19133020 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (26 bp):
CTGGTGACTCTGCCACAATATCTGTT
Found at i:19138323 original size:16 final size:16
Alignment explanation
Indices: 19138278--19138324 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
19138268 ATTTATATTG
19138278 AATTT-TAATTTTTTA
1 AATTTCTAATTTTTTA
* **
19138293 ATTTTCTAAAATTTTA
1 AATTTCTAATTTTTTA
*
19138309 AATTTCTTATTTTTTA
1 AATTTCTAATTTTTTA
19138325 TAAGTTTTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (16 bp):
AATTTCTAATTTTTTA
Found at i:19151951 original size:14 final size:17
Alignment explanation
Indices: 19151918--19151950 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19151908 AATGTTGATG
19151918 AATGTACTACGATGAAA
1 AATGTACTACGATGAAA
19151935 AATGTACT-C-ATGAAA
1 AATGTACTACGATGAAA
19151950 A
1 A
19151951 TTCTTCAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (17 bp):
AATGTACTACGATGAAA
Found at i:19154047 original size:50 final size:50
Alignment explanation
Indices: 19153923--19154171 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
19153913 GATAATAACA
* * ** * *
19153923 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
19153974 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
19154024 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
19154074 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
19154129 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
19154172 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:19154101 original size:100 final size:104
Alignment explanation
Indices: 19153922--19154171 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
19153912 TGATAATAAC
**
19153922 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
19153987 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
19154024 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
19154087 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
19154129 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
19154172 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:19154287 original size:13 final size:13
Alignment explanation
Indices: 19154266--19154297 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
19154256 GCTTGGATCA
*
19154266 TCATCAAATAAAT
1 TCATAAAATAAAT
19154279 TCATAAAATAAAT
1 TCATAAAATAAAT
19154292 TCATAA
1 TCATAA
19154298 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:19154545 original size:30 final size:30
Alignment explanation
Indices: 19154509--19154566 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
19154499 CCTCGACTCT
*
19154509 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
19154539 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
19154567 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:19161233 original size:36 final size:36
Alignment explanation
Indices: 19161186--19161256 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
19161176 AATATCCCAT
* *
19161186 AATAATATCCTATAATATCCCATTAGGAATTAAATC
1 AATAATATCCTATAACATCCCATTAGGAATCAAATC
*
19161222 AATAATATCCTATAACATCCTATTAGGAATCAAAT
1 AATAATATCCTATAACATCCCATTAGGAATCAAAT
19161257 TGCTAAAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (36 bp):
AATAATATCCTATAACATCCCATTAGGAATCAAATC
Found at i:19167245 original size:13 final size:13
Alignment explanation
Indices: 19167227--19167266 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
19167217 TTGCTAAAAG
*
19167227 ATAATATCCCATA
1 ATAATATCACATA
*
19167240 ATAATATCTCATA
1 ATAATATCACATA
*
19167253 ATAACATCACATA
1 ATAATATCACATA
19167266 A
1 A
19167267 GGAATCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAATATCACATA
Found at i:19167326 original size:56 final size:58
Alignment explanation
Indices: 19167206--19167365 Score: 234
Period size: 59 Copynumber: 2.8 Consensus size: 58
19167196 AGTAGTTACG
19167206 TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATCTCATAATAACATCACAT
1 TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATC-CATAATAACATCACAT
* * * * *
19167265 AAGGAATCAAATTTCTAAGAGATAATATCTCATAATAATATCC-T-ATAACATCTCAT
1 TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATCCATAATAACATCACAT
*
19167321 TAGGAATCAAATTGCTAAAATATAATATCCCCATAATAATATCCA
1 TAGGAATCAAATTGCTAAAAGATAATAT-CCCATAATAATATCCA
19167366 AACAATATGG
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
56 35 0.39
57 15 0.17
58 1 0.01
59 38 0.43
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (58 bp):
TAGGAATCAAATTGCTAAAAGATAATATCCCATAATAATATCCATAATAACATCACAT
Found at i:19171422 original size:92 final size:91
Alignment explanation
Indices: 19171286--19171535 Score: 220
Period size: 91 Copynumber: 2.7 Consensus size: 91
19171276 CTCAAACTAT
** * *
19171286 AAAAAAAAACCAATTAAGCCACTGCTTTTTTTTTGCACTT-AATTGGGTACTTGGAACTTTCAAA
1 AAAAAAAAAAGAATTAAGCC-CTACTTTTTTTTTACA-TTCAATTGGGTACTT-GAACTTTCAAA
* **
19171350 ATGCATCAAAAAGGTCCGCAAA-ATTT-A
63 ATACATCAAAAAGACCCGCAAATATTTAA
* ** * * *
19171377 AAAAAAAAAAGTAATTAAGCCCTTACTTTTTTTTTTCATTCAATTGAATATTTAAACTTTTAAAA
1 AAAAAAAAAAG-AATTAAGCCC-TACTTTTTTTTTACATTCAATTGGGTACTTGAACTTTCAAAA
* *
19171442 TACATCAAAAAGACCCTCAAACTTTTTTCAAA
64 TACATCAAAAAGACCCGCAAA--TATTT--AA
* * *
19171474 AAAAAAAAAAGAATTAAGCCCCTA-ATTTTTTTTACACTCAATTGGGTACTTGAACTGTCAAA
1 AAAAAAAAAAGAATTAAG-CCCTACTTTTTTTTTACATTCAATTGGGTACTTGAACTTTCAAA
19171536 TATATAAAAA
Statistics
Matches: 126, Mismatches: 23, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
91 39 0.31
92 31 0.25
94 3 0.02
95 29 0.23
96 9 0.07
97 15 0.12
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.33
Consensus pattern (91 bp):
AAAAAAAAAAGAATTAAGCCCTACTTTTTTTTTACATTCAATTGGGTACTTGAACTTTCAAAATA
CATCAAAAAGACCCGCAAATATTTAA
Found at i:19171710 original size:20 final size:20
Alignment explanation
Indices: 19171686--19171743 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 20
19171676 TTAAATTTTA
19171686 ATAAAAA-TATAAAAAGATATT
1 ATAAAAATTATAAAAA-A-ATT
19171707 -TAAAAATTATTAAAAAAATT
1 ATAAAAATTA-TAAAAAAATT
19171727 ATAAAATATTATAAAAA
1 ATAAAA-ATTATAAAAA
19171744 TCATAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
20 9 0.27
21 14 0.42
22 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAAAAATTATAAAAAAATT
Found at i:19171742 original size:19 final size:18
Alignment explanation
Indices: 19171652--19171752 Score: 60
Period size: 19 Copynumber: 5.2 Consensus size: 18
19171642 GTTGCAAAAG
* *
19171652 AAATTATAAAAGTTATAC
1 AAATTATAAAAATTATAA
**
19171670 AAATTATTAAATTTTAATAA
1 AAATTA-TAAAAATT-ATAA
*
19171690 AAA-TATAAAAAGATATTTAA
1 AAATTAT-AAAA-AT-TATAA
19171710 AAATTATTAAAAAAATTATAA
1 AAATTA-T--AAAAATTATAA
*
19171731 AATATTATAAAAATCATAA
1 AA-ATTATAAAAATTATAA
19171750 AAA
1 AAA
19171753 AAATTACAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
18 8 0.12
19 23 0.35
20 13 0.20
21 10 0.15
22 7 0.11
23 5 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AAATTATAAAAATTATAA
Found at i:19171742 original size:31 final size:30
Alignment explanation
Indices: 19171678--19171764 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
19171668 ACAAATTATT
19171678 AAATT-TTAATAAAAATATAAAAAGATATTTAA
1 AAATTATTAA-AAAAAT-TAAAAA-ATATTTAA
*
19171710 AAATTATTAAAAAAATTATAAAATATTATAA
1 AAATTATTAAAAAAATTAAAAAATATT-TAA
* * *
19171741 AAATCATAAAAAAAATTACAAAAT
1 AAATTATTAAAAAAATTAAAAAAT
19171765 GCATCAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 5 0.10
31 29 0.59
32 11 0.22
33 4 0.08
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (30 bp):
AAATTATTAAAAAAATTAAAAAATATTTAA
Found at i:19171774 original size:31 final size:31
Alignment explanation
Indices: 19171707--19171775 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
19171697 AAAAGATATT
* * * **
19171707 TAAAAATTATTAAAAAAATTATAAAATATTA
1 TAAAAATCATAAAAAAAATTACAAAATAGCA
19171738 TAAAAATCATAAAAAAAATTACAAAAT-GCA
1 TAAAAATCATAAAAAAAATTACAAAATAGCA
19171768 TCAAAAAT
1 T-AAAAAT
19171776 GCCTTTTAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 2 0.06
31 30 0.94
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (31 bp):
TAAAAATCATAAAAAAAATTACAAAATAGCA
Found at i:19172075 original size:21 final size:22
Alignment explanation
Indices: 19172029--19172069 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
19172019 TCTTATAATT
*
19172029 TTTTTTTACAATTTTTTAATGA
1 TTTTTTTACAATTTTTAAATGA
19172051 TTTTTTTA-AATTTTTAAAT
1 TTTTTTTACAATTTTTAAAT
19172070 AGTTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTTTTACAATTTTTAAATGA
Found at i:19172658 original size:17 final size:16
Alignment explanation
Indices: 19172625--19172663 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
19172615 AAAAAATATG
*
19172625 AAAAAAAATCTGAAAC
1 AAAAAAAAGCTGAAAC
*
19172641 AAAAAGAAAGCTGTAAC
1 AAAAA-AAAGCTGAAAC
19172658 AAAAAA
1 AAAAAA
19172664 CAAGAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.69, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAAAAAAGCTGAAAC
Found at i:19172892 original size:12 final size:12
Alignment explanation
Indices: 19172877--19172928 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
19172867 GAAAAAAAAA
19172877 GAGAAGAAGAAG
1 GAGAAGAAGAAG
19172889 GAGAAGAAGAA-
1 GAGAAGAAGAAG
* *
19172900 AAGAAGAGAAAAAG
1 GAG-A-AGAAGAAG
*
19172914 GAGAAGGAGAAG
1 GAGAAGAAGAAG
19172926 GAG
1 GAG
19172929 GCGGCACTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
11 2 0.06
12 21 0.66
13 7 0.22
14 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (12 bp):
GAGAAGAAGAAG
Found at i:19172901 original size:25 final size:25
Alignment explanation
Indices: 19172853--19172924 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
19172843 TCGGCTAGGA
* *
19172853 AGAAAGAAGGAAAAGAA-AAAAAAAG
1 AGAAA-AAGGAGAAGAAGAAAAGAAG
19172878 AGAAGAAGAAGGAGAAGAAGAAAAGAAG
1 AG-A-AA-AAGGAGAAGAAGAAAAGAAG
*
19172906 AGAAAAAGGAGAAGGAGAA
1 AGAAAAAGGAGAAGAAGAA
19172925 GGAGGCGGCA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 15 0.37
26 3 0.07
27 14 0.34
28 9 0.22
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (25 bp):
AGAAAAAGGAGAAGAAGAAAAGAAG
Found at i:19172901 original size:28 final size:28
Alignment explanation
Indices: 19172851--19172924 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 28
19172841 TTTCGGCTAG
*
19172851 GAAGAAAGAAGGAAAAGAA-AAAAAAAGA
1 GAAG-AAGAAGGAGAAGAAGAAAAAAAGA
*
19172879 GAAGAAGAAGGAGAAGAAGAAAAGAAGA
1 GAAGAAGAAGGAGAAGAAGAAAAAAAGA
*
19172907 G-A-AA-AAGGAGAAGGAGAA
1 GAAGAAGAAGGAGAAGAAGAA
19172925 GGAGGCGGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 13 0.31
26 2 0.05
27 14 0.33
28 13 0.31
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (28 bp):
GAAGAAGAAGGAGAAGAAGAAAAAAAGA
Found at i:19173665 original size:25 final size:27
Alignment explanation
Indices: 19173637--19173697 Score: 72
Period size: 30 Copynumber: 2.2 Consensus size: 27
19173627 AATACTTTTG
*
19173637 AAATACTAAAATA-ATA-TAAAAAATA
1 AAATACAAAAATAGATATTAAAAAATA
19173662 AAATACAAAAATAGTATATTTTAAAAAATA
1 AAATACAAAAATAG-ATA--TTAAAAAATA
19173692 AAATAC
1 AAATAC
19173698 GAGAATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 12 0.40
27 3 0.10
30 15 0.50
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (27 bp):
AAATACAAAAATAGATATTAAAAAATA
Found at i:19174127 original size:147 final size:139
Alignment explanation
Indices: 19173357--19174313 Score: 982
Period size: 144 Copynumber: 6.6 Consensus size: 139
19173347 TGGGTTTTTT
* * * * *
19173357 ACTAAAATAATATAAAAAAGAAAATACGAAAGTAGTATATTTTAAAAATAAAATAT-AAAATACA
1 ACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCTGAGAATAAA
*
19173421 AATACAAATAAAGGGCCAAAATCAGTG-TTTTTTACTAAATTA-ATAT--AAAAAACTAAAATAA
66 AATACAAACAAAGGGCCAAAATCAG-GATTTTTTACTAAATTATATATAAAAAAAACTAAAATAA
*
19173482 TACTTTTGAAACATTA
130 TACATTTG----A--A
* *
19173498 TGTACTAAAATAATATAAAAAATAAAATAAGAAAATAGTATA-TTTACAAAATAAAATCCGAGAA
1 ---ACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTA-AAAATAAAATCTGAGAA
* * *
19173562 TAAAAAATACAAACAAATGGTCAAAATCAAGATTTTTTACTAAATTA-ATAT-AAAAAAACTAAA
62 T-AAAAATACAAACAAAGGGCCAAAATCAGGATTTTTTACTAAATTATATATAAAAAAAACTAAA
*
19173625 ATAATACTTTTGAAA
126 ATAATACATTTG-AA
*
19173640 TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATAC-GAGAAT
1 -ACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTT-AAAAATAAAAT-CTGAGAAT
*
19173704 AAAAAAATACAAA-AAAGGGCCAAAATTCAGGATTTTTTTACCAAATTA-ATATAAAAAAGAACA
63 --AAAAATACAAACAAAGGGCCAAAA-TCAGGA-TTTTTTACTAAATTATATAT-AAAAA-AA-A
*
19173767 CTAAAATAATACATTTAAA
121 CTAAAATAATACATTTGAA
** * * *
19173786 ACTAAAATAATAT-AAAAATAAAATAAAAAAATAGTATAATTGAGAAAATAAAATC--CGAA-AA
1 ACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTA-AAAATAAAATCTGAGAATAA
* *
19173847 AAATACAAATAAAGGGCCAAAATCAGGATTTTTTACTAAATTA-ATATAAAAAATACTAAAATAA
65 AAATACAAACAAAGGGCCAAAATCAGGATTTTTTACTAAATTATATATAAAAAAAACTAAAATAA
19173911 TACATTTGAA
130 TACATTTGAA
*
19173921 ACATTATGTATTAAAATAATATAAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAAT
1 AC---------TAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTT-AAAAATAAAAT
* * *
19173986 CTGAGAATAAAAATTACAAATAAATGGCCAAAATTCAGGGTTTTTTTACTAAATTAATATATATA
55 CTGAGAATAAAAA-TACAAACAAAGGGCCAAAA-TCA-GGATTTTTTACTAAATT-ATATATA-A
* *
19174051 AAAAAACTAATACAATACATTTGAA
115 AAAAAACTAAAATAATACATTTGAA
19174076 ACTAAAATAATATAAAAAAAATAAAATACGAAAATAGTATATTTTAGAAAATAAAATCT--GAA-
1 ACTAAAATAATAT--AAAAAATAAAATACGAAAATAGTATATTTTA-AAAATAAAATCTGAGAAT
* *
19174138 AAAAATACAAACAAAGAGCCAAAATCAGGATTTTTTACTAAATTA-ATATAAAAAACACTAAAAT
63 AAAAATACAAACAAAGGGCCAAAATCAGGATTTTTTACTAAATTATATATAAAAAAAACTAAAAT
19174202 AATACATTTGAAACATTA
128 AATACATTTG----A--A
** *
19174220 TTGACTAAAATAATATAAAAAATAAAATATAAAAATAGTATATTTTAAAAATAAAATCCGAGAAT
1 ---ACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCTGAGAAT
19174285 AAAAAAATACAAACAAAGGGCCAAAATCA
63 --AAAAATACAAACAAAGGGCCAAAATCA
19174314 CCGAACAAAA
Statistics
Matches: 710, Mismatches: 49, Indels: 103
0.82 0.06 0.12
Matches are distributed among these distances:
135 21 0.03
136 1 0.00
137 5 0.01
138 39 0.05
139 22 0.03
140 51 0.07
141 45 0.06
142 27 0.04
143 40 0.06
144 111 0.16
145 54 0.08
146 97 0.14
147 95 0.13
148 3 0.00
149 31 0.04
150 18 0.03
151 3 0.00
152 16 0.02
153 1 0.00
154 5 0.01
155 25 0.04
ACGTcount: A:0.59, C:0.08, G:0.07, T:0.27
Consensus pattern (139 bp):
ACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCTGAGAATAAA
AATACAAACAAAGGGCCAAAATCAGGATTTTTTACTAAATTATATATAAAAAAAACTAAAATAAT
ACATTTGAA
Found at i:19174219 original size:293 final size:285
Alignment explanation
Indices: 19173355--19174311 Score: 1230
Period size: 293 Copynumber: 3.3 Consensus size: 285
19173345 CATGGGTTTT
* * * *
19173355 TTACTAAAATAATATAAAAAAGAAAATACGAAAGTAGTATATTTTAAAAATAAAATAT-A-AA-A
1 TTACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAATAAAATCTGAGAATA
* * * *
19173417 TACAAATACAAATAAAGGGCCAAAA-TCAGTG-TTTTTTACTAAATTAATATAAAAAACTAAAAT
66 AAAAAATACAAATAAAGGGCCAAAATTCAGGGTTTTTTTACTAAATTAATATAAAAAAC-AAACT
*
19173480 AATACTTTTGAA-ACATTATG-TACTAAAATAATATAAAAAATAAAATAAGAAAATAGTATATTT
130 AATAC-----AATACATT-TGAAACTAAAATAATATAAAAAATAAAATAAGAAAATAGTATATTT
* * *
19173543 ACAAAATAAAATCCGAGAATAAAAAATACAAACAAATGGTCAAAATCAAGATTTTTTACTAAATT
189 AGAAAATAAAAT-C-AG-A-AAAAAATACAAACAAA-GGCCAAAATCAGGATTTTTTACTAAATT
*
19173608 AATATAAAAAAACTAAAATAATACTTTTG--A-A--A
249 AATATAAAAAAACTAAAATAATACATTTGAAACATTA
19173640 -TACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAAATAAAATAC-GAGAA
1 TTACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTT-AAAAATAAAAT-CTGAGAA
* * *
19173703 TAAAAAAATACAAA-AAAGGGCCAAAATTCAGGATTTTTTTACCAAATTAATATAAAAAAGAACA
64 TAAAAAAATACAAATAAAGGGCCAAAATTCAGGGTTTTTTTACTAAATTAATATAAAAAACAA-A
* * * * *
19173767 CTAAAATAATACATTTAAAACTAAAATAATAT-AAAAATAAAATAAAAAAATAGTATAATTGAGA
128 CTAATACAATACATTTGAAACTAAAATAATATAAAAAATAAAATAAGAAAATAGTAT-ATTTAGA
* *
19173831 AAATAAAATCCGAAAAAAATACAAATAAAGGGCCAAAATCAGGATTTTTTACTAAATTAATATAA
192 AAATAAAATCAGAAAAAAATACAAACAAA-GGCCAAAATCAGGATTTTTTACTAAATTAATATAA
19173896 AAAATACTAAAATAATACATTTGAAACATTA
256 AAAA-ACTAAAATAATACATTTGAAACATTA
* **
19173927 TGTATTAAAATAATATAAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCTGAGA
1 T-TACTAAAATAATAT-AAAAAATAAAATACAAAAATAGTATATTTT-AAAAATAAAATCTGAGA
* *
19173992 AT-AAAAATTACAAATAAATGGCCAAAATTCAGGGTTTTTTTACTAAATTAATATATATAAAA-A
63 ATAAAAAAATACAAATAAAGGGCCAAAATTCAGGGTTTTTTTACTAAATTAATATA-A-AAAACA
*
19174055 AACTAATACAATACATTTGAAACTAAAATAATATAAAAAAAATAAAATACGAAAATAGTATATTT
126 AACTAATACAATACATTTGAAACTAAAATAATAT--AAAAAATAAAATAAGAAAATAGTATA-TT
*
19174120 TAGAAAATAAAATCTGAAAAAAATACAAACAAAGAGCCAAAATCAGGATTTTTTACTAAATTAAT
188 TAGAAAATAAAATCAGAAAAAAATACAAACAAAG-GCCAAAATCAGGATTTTTTACTAAATTAAT
19174185 ATAAAAAACACTAAAATAATACATTTGAAACATTA
252 ATAAAAAA-ACTAAAATAATACATTTGAAACATTA
* *
19174220 TTGACTAAAATAATATAAAAAATAAAATATAAAAATAGTATATTTTAAAAATAAAATCCGAGAAT
1 TT-ACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAATAAAATCTGAGAAT
*
19174285 AAAAAAATACAAACAAAGGGCCAAAAT
65 AAAAAAATACAAATAAAGGGCCAAAAT
19174312 CACCGAACAA
Statistics
Matches: 595, Mismatches: 46, Indels: 55
0.85 0.07 0.08
Matches are distributed among these distances:
281 52 0.09
282 18 0.03
283 1 0.00
284 69 0.12
285 44 0.07
286 1 0.00
287 15 0.03
288 17 0.03
289 54 0.09
290 113 0.19
291 21 0.04
292 59 0.10
293 131 0.22
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.27
Consensus pattern (285 bp):
TTACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAAAAATAAAATCTGAGAATA
AAAAAATACAAATAAAGGGCCAAAATTCAGGGTTTTTTTACTAAATTAATATAAAAAACAAACTA
ATACAATACATTTGAAACTAAAATAATATAAAAAATAAAATAAGAAAATAGTATATTTAGAAAAT
AAAATCAGAAAAAAATACAAACAAAGGCCAAAATCAGGATTTTTTACTAAATTAATATAAAAAAA
CTAAAATAATACATTTGAAACATTA
Found at i:19177047 original size:26 final size:26
Alignment explanation
Indices: 19177013--19177096 Score: 91
Period size: 26 Copynumber: 3.1 Consensus size: 26
19177003 GGAACAAAAT
19177013 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
*
19177039 TTAAATACATTA-ATCTAATTGGAA-CATTAA
1 TTAAATACATTACAAC--ATT--AATC--TAA
19177069 TTAAATACATTACAACATTAATCTAA
1 TTAAATACATTACAACATTAATCTAA
19177095 TT
1 TT
19177097 GGAACAAACT
Statistics
Matches: 48, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
25 2 0.04
26 17 0.35
27 5 0.10
28 2 0.04
29 5 0.10
30 15 0.31
31 2 0.04
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (26 bp):
TTAAATACATTACAACATTAATCTAA
Found at i:19177102 original size:17 final size:17
Alignment explanation
Indices: 19177021--19177102 Score: 65
Period size: 17 Copynumber: 4.5 Consensus size: 17
19177011 ATTTAAATAC
*
19177021 ATTACAACATTAATCTA
1 ATTAGAACATTAATCTA
*
19177038 ATTAAATACATTAATCTA
1 ATTAGA-ACATTAATCTA
* *
19177056 ATTGGAACATTAATTAAATA
1 ATTAGAACATTAA-T--CTA
*
19177076 CATTACAACATTAATCTA
1 -ATTAGAACATTAATCTA
*
19177094 ATTGGAACA
1 ATTAGAACA
19177103 AACTTTGTAA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
17 19 0.37
18 18 0.35
20 3 0.06
21 11 0.22
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (17 bp):
ATTAGAACATTAATCTA
Found at i:19182662 original size:24 final size:24
Alignment explanation
Indices: 19182630--19182677 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
19182620 CCAAGCTCCC
19182630 GCTCTTCCCAACTTGCATTCCTTG
1 GCTCTTCCCAACTTGCATTCCTTG
19182654 GCTCTTCCCAACTTGCATTCCTTG
1 GCTCTTCCCAACTTGCATTCCTTG
19182678 CACTCTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.38, G:0.12, T:0.38
Consensus pattern (24 bp):
GCTCTTCCCAACTTGCATTCCTTG
Found at i:19185819 original size:24 final size:24
Alignment explanation
Indices: 19185792--19185838 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
19185782 CTTTCAATGC
19185792 AAGGTTTTGAAAAATCTTTAAAAT
1 AAGGTTTTGAAAAATCTTTAAAAT
19185816 AAGGTTTTGAAAAATCTTTAAAA
1 AAGGTTTTGAAAAATCTTTAAAA
19185839 AAAAAGTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (24 bp):
AAGGTTTTGAAAAATCTTTAAAAT
Found at i:19185902 original size:23 final size:23
Alignment explanation
Indices: 19185872--19185917 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
19185862 AAATACATAC
19185872 GAATTTAACTGTTTTTCTATTGT
1 GAATTTAACTGTTTTTCTATTGT
19185895 GAATTTAACTGTTTTTCTATTGT
1 GAATTTAACTGTTTTTCTATTGT
19185918 TTTTGTTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.57
Consensus pattern (23 bp):
GAATTTAACTGTTTTTCTATTGT
Found at i:19188648 original size:16 final size:16
Alignment explanation
Indices: 19188609--19188661 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
19188599 ATAATGAATT
19188609 AAAAAGAAAC--AAAG
1 AAAAAGAAACAGAAAG
*
19188623 CAAAATGAAACAGAAAG
1 -AAAAAGAAACAGAAAG
*
19188640 AAAAAGAAAAAGAAAG
1 AAAAAGAAACAGAAAG
19188656 AAAAAG
1 AAAAAG
19188662 GAGAAAGAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.27
16 20 0.61
17 4 0.12
ACGTcount: A:0.75, C:0.06, G:0.17, T:0.02
Consensus pattern (16 bp):
AAAAAGAAACAGAAAG
Found at i:19188672 original size:16 final size:16
Alignment explanation
Indices: 19188619--19188679 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
19188609 AAAAAGAAAC
* *
19188619 AAAGCAAAATGAAACAG
1 AAAG-AAAAAGAAAAAG
19188636 AAAGAAAAAGAAAAAG
1 AAAGAAAAAGAAAAAG
*
19188652 AAAGAAAAAGGAGAAAG
1 AAAGAAAAA-GAAAAAG
*
19188669 -AAGAAGAAGAA
1 AAAGAAAAAGAA
19188680 GGGCTTTAGG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
15 2 0.05
16 26 0.68
17 10 0.26
ACGTcount: A:0.72, C:0.03, G:0.23, T:0.02
Consensus pattern (16 bp):
AAAGAAAAAGAAAAAG
Found at i:19188679 original size:13 final size:13
Alignment explanation
Indices: 19188637--19188679 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
19188627 ATGAAACAGA
*
19188637 AAGAAA-AAGAAA
1 AAGAAAGAAGAAG
*
19188649 AAGAAAGAAAAAG
1 AAGAAAGAAGAAG
*
19188662 GAGAAAGAAGAAG
1 AAGAAAGAAGAAG
19188675 AAGAA
1 AAGAA
19188680 GGGCTTTAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAGAAG
Found at i:19191098 original size:27 final size:27
Alignment explanation
Indices: 19191068--19191245 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19191058 ATATTGAGTC
* * * *
19191068 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19191095 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19191122 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19191150 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19191177 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19191204 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19191231 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19191246 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19191207 original size:82 final size:81
Alignment explanation
Indices: 19191089--19191244 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19191079 TGCTATATAA
* *
19191089 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19191154 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19191171 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19191235 CACTTAGTGC
65 CACTTAGTGC
19191245 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19193825 original size:43 final size:43
Alignment explanation
Indices: 19193655--19193826 Score: 111
Period size: 43 Copynumber: 4.0 Consensus size: 43
19193645 ACATAGGATC
* * * **
19193655 CGATATGTGATTTCGTGTAAGACCACGTTTGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACGCCTGGGACGTTGGCAT
* * * ** *
19193698 CGACT-TATGATTTACATGTAAGACCATGCCTGGGAC-ATCACTGT
1 CGA-TATTTGA-TTACATGTAAGACCACGCCTGGGACGTTGGC-AT
*** * *
19193742 CG-TATTTGATTTTGTGTAAGACC-CTGTCTGGGATAG-TGGCAT
1 CGATATTTGATTACATGTAAGACCAC-GCCTGGGA-CGTTGGCAT
*
19193784 CGATATTTGGTTACATGTAAGACCACGCCTGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACGCCTGGGACGTTGGCAT
19193827 TGTACAAGCT
Statistics
Matches: 93, Mismatches: 26, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
42 23 0.25
43 45 0.48
44 25 0.27
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCACGCCTGGGACGTTGGCAT
Found at i:19199009 original size:40 final size:39
Alignment explanation
Indices: 19198887--19199025 Score: 106
Period size: 40 Copynumber: 3.6 Consensus size: 39
19198877 GACTTCGAGT
** *
19198887 TGATGAGACA-TGGGTGTTAATTTATTACTTCAAATTTAT-
1 TGATGAGACACTGGGTGCCAATTTA-TACTTCGAA-TTATC
* ** *
19198926 TCGATGAGGCACTGGGTGCCAA-TT-TACTTCGGTTTAAC
1 T-GATGAGACACTGGGTGCCAATTTATACTTCGAATTATC
* * *
19198964 CGATGAGACACTGGGTGTCAATTTAATACTTTGAATTATC
1 TGATGAGACACTGGGTGCCAATTT-ATACTTCGAATTATC
* *
19199004 TGATGAGGCACTGTGTGCCAAT
1 TGATGAGACACTGGGTGCCAAT
19199026 CTGGTGTGTT
Statistics
Matches: 76, Mismatches: 18, Indels: 11
0.72 0.17 0.10
Matches are distributed among these distances:
37 21 0.28
38 8 0.11
39 1 0.01
40 38 0.50
41 8 0.11
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (39 bp):
TGATGAGACACTGGGTGCCAATTTATACTTCGAATTATC
Found at i:19200665 original size:41 final size:41
Alignment explanation
Indices: 19200599--19200777 Score: 187
Period size: 41 Copynumber: 4.4 Consensus size: 41
19200589 GTACAACCTA
* * *
19200599 CTTGATATAATACACTGTCACGAAGCATGCTAGGCTCAAAG
1 CTTGATATAATACACTGACACGAAGCCTGCTAGGCACAAAG
* * * * *
19200640 CTTGATATAACACACCGACATGAAGCCTACTAGGCACAATG
1 CTTGATATAATACACTGACACGAAGCCTGCTAGGCACAAAG
* * * *
19200681 CCTGATATAATACACTGGCACGAAGCCTGCTAGGCATAGAG
1 CTTGATATAATACACTGACACGAAGCCTGCTAGGCACAAAG
* * * * *
19200722 CCTGATATAATACACAGGCACAAAGCCTTCTAGGCACAAAG
1 CTTGATATAATACACTGACACGAAGCCTGCTAGGCACAAAG
**
19200763 CCAGATATAATACAC
1 CTTGATATAATACAC
19200778 CATCACAAAG
Statistics
Matches: 115, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 115 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (41 bp):
CTTGATATAATACACTGACACGAAGCCTGCTAGGCACAAAG
Found at i:19200748 original size:82 final size:82
Alignment explanation
Indices: 19200601--19200777 Score: 230
Period size: 82 Copynumber: 2.2 Consensus size: 82
19200591 ACAACCTACT
* * * **
19200601 TGATATAATACACTGTCACGAAGCATGCTAGGCTCAAAGCTTGATATAACACACCGACATGAAGC
1 TGATATAATACACTGGCACGAAGCATGCTAGGCTCAAAGCCTGATATAACACACAGACACAAAGC
*
19200666 CTACTAGGCACAATGCC
66 CTACTAGGCACAAAGCC
* * * *
19200683 TGATATAATACACTGGCACGAAGCCTGCTAGGCAT-AGAGCCTGATATAATACACAGGCACAAAG
1 TGATATAATACACTGGCACGAAGCATGCTAGGC-TCAAAGCCTGATATAACACACAGACACAAAG
*
19200747 CCTTCTAGGCACAAAGCC
65 CCTACTAGGCACAAAGCC
*
19200765 AGATATAATACAC
1 TGATATAATACAC
19200778 CATCACAAAG
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
82 81 0.99
83 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.20
Consensus pattern (82 bp):
TGATATAATACACTGGCACGAAGCATGCTAGGCTCAAAGCCTGATATAACACACAGACACAAAGC
CTACTAGGCACAAAGCC
Found at i:19202740 original size:23 final size:23
Alignment explanation
Indices: 19202714--19202757 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
19202704 TTCAAGTAGT
19202714 TTTTCTACT-TTTTTTTTATTTTC
1 TTTT-TACTATTTTTTTTATTTTC
**
19202737 TTTTTTGTATTTTTTTTATTT
1 TTTTTACTATTTTTTTTATTT
19202758 GGCACATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTTACTATTTTTTTTATTTTC
Found at i:19210992 original size:42 final size:42
Alignment explanation
Indices: 19210885--19210994 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 42
19210875 ATACCAATGC
*
19210885 CATATCCCAGATATGGTCTTACATGAGATCTCATATCGATGA
1 CATATCCCAGATATGGTCTTACACGAGATCTCATATCGATGA
* * *
19210927 CA-ATGGCCCAGCTATGGTCTTACACGA-AGTCTCATATTGATGT
1 CATAT--CCCAGATATGGTCTTACACGAGA-TCTCATATCGATGA
*
19210970 CATATCCCAGATATAGTCTTACACG
1 CATATCCCAGATATGGTCTTACACG
19210995 TAATCTTAGC
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 2 0.03
42 21 0.36
43 33 0.57
44 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAGATCTCATATCGATGA
Found at i:19216440 original size:40 final size:39
Alignment explanation
Indices: 19216342--19216564 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
19216332 TCCTCGTTCA
* * * * *
19216342 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
19216381 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
19216420 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
19216460 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
19216500 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
19216541 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19216565 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:19216564 original size:120 final size:119
Alignment explanation
Indices: 19216342--19216564 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
19216332 TCCTCGTTCA
* * * *
19216342 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
19216407 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
19216461 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
19216525 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
19216565 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19221404 original size:40 final size:39
Alignment explanation
Indices: 19221306--19221568 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
19221296 TCCTCGTTCA
* * * *
19221306 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
19221345 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
19221384 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
19221424 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
19221464 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
19221504 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
19221545 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19221569 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:19221528 original size:120 final size:119
Alignment explanation
Indices: 19221306--19221568 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
19221296 TCCTCGTTCA
* * *
19221306 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
19221371 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
19221424 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
19221489 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
19221545 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
19221569 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:19221577 original size:41 final size:41
Alignment explanation
Indices: 19221500--19221577 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
19221490 TTTGTATCTC
* * *
19221500 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
19221541 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
19221578 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:19226646 original size:36 final size:36
Alignment explanation
Indices: 19226596--19226664 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
19226586 CCACCACCAT
19226596 CATTGCCCGCATTTCCAGATGGTCTACCCCGAGTAG
1 CATTGCCCGCATTTCCAGATGGTCTACCCCGAGTAG
* *
19226632 CATTGCCCGTATTTCCAGATGGTCTACCTCGAG
1 CATTGCCCGCATTTCCAGATGGTCTACCCCGAG
19226665 CAGTGGTAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.19, C:0.32, G:0.22, T:0.28
Consensus pattern (36 bp):
CATTGCCCGCATTTCCAGATGGTCTACCCCGAGTAG
Found at i:19229425 original size:40 final size:39
Alignment explanation
Indices: 19229327--19229549 Score: 198
Period size: 40 Copynumber: 5.6 Consensus size: 39
19229317 TCCTCGTTCA
* * * *
19229327 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
19229366 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
19229405 GAATGCCTTCGGGACTTAACCCAGATTTAGTATCTCGGAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
19229445 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
19229485 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
19229526 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19229550 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 40 0.26
40 101 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:19229558 original size:41 final size:41
Alignment explanation
Indices: 19229481--19229558 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
19229471 TTTGTATCTC
* * *
19229481 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
19229522 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
19229559 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:19231139 original size:40 final size:40
Alignment explanation
Indices: 19231084--19231265 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
19231074 TATTCGAATG
19231084 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
19231124 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
19231164 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
19231204 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
19231244 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
19231266 TACTTGGGTT
Statistics
Matches: 133, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.11
40 117 0.88
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:19245733 original size:40 final size:39
Alignment explanation
Indices: 19245654--19245739 Score: 91
Period size: 40 Copynumber: 2.2 Consensus size: 39
19245644 TAACGACTTA
*** *
19245654 TCGGCTAAAATGGCACTTAGTGTGTGGTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAACAGCT
* * *
19245693 TCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGACAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAACAGCT
*
19245733 TTGGCTA
1 TCGGCTA
19245740 TATATATATA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
39 10 0.26
40 28 0.74
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAACAGCT
Found at i:19249038 original size:75 final size:75
Alignment explanation
Indices: 19248923--19249497 Score: 402
Period size: 75 Copynumber: 7.7 Consensus size: 75
19248913 CCCGCACTAA
* * * * * *
19248923 TCAGGTAAACCAACAAATATAATGATGTTG-CTAGCACTAGTAAGATAAACTGATGAAAGTTACG
1 TCAGATAAACCGACAAATATAATGGTG-TGCCCAACACTAGTAAGATAAACTGATGAAAGTTGCG
19248987 CCTAGCGATAG
65 CCTAGCGATAG
* *** * *
19248998 TCAGATATACCGACAAATATAATGGTGTGCCCAGTGCTAGTAAGATAAATTGATGAAAGTTGCAC
1 TCAGATAAACCGACAAATATAATGGTGTGCCCAACACTAGTAAGATAAACTGATGAAAGTTGCGC
* *
19249063 TTGGC-ACTAG
66 CTAGCGA-TAG
* * * * *
19249073 TCAGATAAACC-AAAAACTACAATGGTGTGCCTAGCACTAGTCAA-ATAAAGTGATGAAAGTTGC
1 TCAGATAAACCGACAAA-TATAATGGTGTGCCCAACACTAGT-AAGATAAACTGATGAAAGTTGC
* * *
19249136 GCCAAGTGCTAG
64 GCCTAGCGATAG
* * * * **
19249148 T-TGTATAAACCAACAAATATAATGGTGTGCCCAACACTAGT-TGAATAAA-TCAACAAAGGTTT
1 TCAG-ATAAACCGACAAATATAATGGTGTGCCCAACACTAGTAAG-ATAAACTGATGAAA-G-TT
* * * *
19249210 GCACCCAGTGCTAG
62 GCGCCTAGCGATAG
** ** * * *
19249224 TTGGATAAATTGACAAATATAATGATGTTG-CCAACACTAGTAAGAGAAACTGATGAAAGTTGTG
1 TCAGATAAACCGACAAATATAATGGTG-TGCCCAACACTAGTAAGATAAACTGATGAAAGTTGCG
* *
19249288 ACTAGC-ACTTG
65 CCTAGCGA-TAG
* * * * * *
19249299 TCAGATAAACCGAAAAATATAATGGTGTGCCTAGCATTAGTAAGATAAATTGATGAAAGTTGTGT
1 TCAGATAAACCGACAAATATAATGGTGTGCCCAACACTAGTAAGATAAACTGATGAAAGTTGCG-
*
19249364 CC-AAC-ACTAG
65 CCTAGCGA-TAG
* * * * * *
19249374 TCAGATAAACC-AAAAACTATAATAGTGTACCCAACACTAGTCAGATAAAGTGATGAAAGTTGTG
1 TCAGATAAACCGACAAA-TATAATGGTGTGCCCAACACTAGTAAGATAAACTGATGAAAGTTGCG
* *
19249438 CCAAGCGCTAG
65 CCTAGCGATAG
* * *
19249449 TCATATAAACCGACAAATATAATGGTGTGTCCAATACTAGTTAA-ATAAA
1 TCAGATAAACCGACAAATATAATGGTGTGCCCAACACTAG-TAAGATAAA
19249498 TCAACAAAGG
Statistics
Matches: 394, Mismatches: 83, Indels: 46
0.75 0.16 0.09
Matches are distributed among these distances:
74 22 0.06
75 300 0.76
76 63 0.16
77 9 0.02
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (75 bp):
TCAGATAAACCGACAAATATAATGGTGTGCCCAACACTAGTAAGATAAACTGATGAAAGTTGCGC
CTAGCGATAG
Found at i:19249188 original size:150 final size:150
Alignment explanation
Indices: 19248916--19249498 Score: 497
Period size: 150 Copynumber: 3.9 Consensus size: 150
19248906 TTTGTGCCCC
* * *
19248916 GCACTAATCAGGTAAACCAACAAATATAATGATGTTG-CTAGCACTAGTAAGATAAACTGATGAA
1 GCACTAGTCAGATAAACCAA-AAATATAATGATGTTGCCTAACACTAGTAAGATAAACTGATGAA
* * * * * ***
19248980 AGTTACGCCTAGCGATAGTCAGATATACCGACAAATATAATGGTGTGCCCAGTGCTAGTAAGATA
65 AGTTGCGCCAAGCGCTAGTCAGATAAACCAACAAATATAATGGTGTGCCCAACACTAGTAAGATA
**
19249045 AATTGATGAAAGTTGCACTTG
130 AATTGATGAAAGTTGCACTCA
* * * *
19249066 GCACTAGTCAGATAAACCAAAAACTACAATGGTG-TGCCTAGCACTAGTCAA-ATAAAGTGATGA
1 GCACTAGTCAGATAAACCAAAAA-TATAATGATGTTGCCTAACACTAGT-AAGATAAACTGATGA
* * *
19249129 AAGTTGCGCCAAGTGCTAGT-TGTATAAACCAACAAATATAATGGTGTGCCCAACACTAGT-TGA
64 AAGTTGCGCCAAGCGCTAGTCAG-ATAAACCAACAAATATAATGGTGTGCCCAACACTAGTAAG-
* ** *
19249192 ATAAA-TCAACAAAGGTTTGCACCCA
127 ATAAATTGATGAAA-G-TTGCACTCA
** ** ** * *
19249217 GTGCTAGTTGGATAAATTGACAAATATAATGATGTTGCC-AACACTAGTAAGAGAAACTGATGAA
1 GCACTAGTCAGATAAA-CCAAAAATATAATGATGTTGCCTAACACTAGTAAGATAAACTGATGAA
* * * * * * * *
19249281 AGTTGTGACTAGCACTTGTCAGATAAACCGAA-AAATATAATGGTGTGCCTAGCATTAGTAAGAT
65 AGTTGCGCCAAGCGCTAGTCAGATAAACC-AACAAATATAATGGTGTGCCCAACACTAGTAAGAT
**
19249345 AAATTGATGAAAGTTG-TGTCCA
129 AAATTGATGAAAGTTGCACT-CA
* * * * *
19249367 ACACTAGTCAGATAAACCAAAAACTATAAT-A-GTGTACCCAACACTAGTCAGATAAAGTGATGA
1 GCACTAGTCAGATAAACCAAAAA-TATAATGATGT-TGCCTAACACTAGTAAGATAAACTGATGA
* * * * *
19249430 AAGTTGTGCCAAGCGCTAGTCATATAAACCGACAAATATAATGGTGTGTCCAATACTAGTTAA-A
64 AAGTTGCGCCAAGCGCTAGTCAGATAAACCAACAAATATAATGGTGTGCCCAACACTAG-TAAGA
19249494 TAAAT
128 TAAAT
19249499 CAACAAAGGT
Statistics
Matches: 339, Mismatches: 74, Indels: 40
0.75 0.16 0.09
Matches are distributed among these distances:
148 2 0.01
149 21 0.06
150 199 0.59
151 100 0.29
152 17 0.05
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (150 bp):
GCACTAGTCAGATAAACCAAAAATATAATGATGTTGCCTAACACTAGTAAGATAAACTGATGAAA
GTTGCGCCAAGCGCTAGTCAGATAAACCAACAAATATAATGGTGTGCCCAACACTAGTAAGATAA
ATTGATGAAAGTTGCACTCA
Found at i:19249477 original size:301 final size:301
Alignment explanation
Indices: 19248935--19249509 Score: 830
Period size: 301 Copynumber: 1.9 Consensus size: 301
19248925 AGGTAAACCA
* * * *
19248935 ACAAATATAATGATGTTGCTAGCACTAGTAAGATAAACTGATGAAAGTTACGCCTAGCGATAGTC
1 ACAAATATAATGATGTTGCCAACACTAGTAAGAGAAACTGATGAAAGTTACGACTAGCGATAGTC
* * ** *
19249000 AGATATACCGACAAATATAATGGTGTGCCCAGTGCTAGTAAGATAAATTGATGAAAGTTGCACTT
66 AGATAAACCGAAAAATATAATGGTGTGCCCAGCACTAGTAAGATAAATTGATGAAAGTTGCACTC
** * * * *
19249065 GGCACTAGTCAGATAAACCAAAAACTACAATGGTGTGCCTAGCACTAGTCAAATAAAGTGATGAA
131 AACACTAGTCAGATAAACCAAAAACTACAATAGTGTACCCAACACTAGTCAAATAAAGTGATGAA
* ** *
19249130 AGTTGCGCCAAGTGCTAGTTGTATAAACCAACAAATATAATGGTGTGCCCAACACTAGTTGAATA
196 AGTTGCGCCAAGCGCTAGTCATATAAACCAACAAATATAATGGTGTGCCCAACACTAGTTAAATA
19249195 AATCAACAAAGGTTTGCACCCAGTGCTAGTTGGATAAATTG
261 AATCAACAAAGGTTTGCACCCAGTGCTAGTTGGATAAATTG
** *
19249236 ACAAATATAATGATGTTGCCAACACTAGTAAGAGAAACTGATGAAAGTTGTGACTAGC-ACTTGT
1 ACAAATATAATGATGTTGCCAACACTAGTAAGAGAAACTGATGAAAGTTACGACTAGCGA-TAGT
* * **
19249300 CAGATAAACCGAAAAATATAATGGTGTGCCTAGCATTAGTAAGATAAATTGATGAAAGTTG-TGT
65 CAGATAAACCGAAAAATATAATGGTGTGCCCAGCACTAGTAAGATAAATTGATGAAAGTTGCACT
* *
19249364 CCAACACTAGTCAGATAAACCAAAAACTATAATAGTGTACCCAACACTAGTCAGATAAAGTGATG
130 -CAACACTAGTCAGATAAACCAAAAACTACAATAGTGTACCCAACACTAGTCAAATAAAGTGATG
* * * *
19249429 AAAGTTGTGCCAAGCGCTAGTCATATAAACCGACAAATATAATGGTGTGTCCAATACTAGTTAAA
194 AAAGTTGCGCCAAGCGCTAGTCATATAAACCAACAAATATAATGGTGTGCCCAACACTAGTTAAA
19249494 TAAATCAACAAAGGTT
259 TAAATCAACAAAGGTT
19249510 GGGTGCCCAG
Statistics
Matches: 240, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
300 2 0.01
301 238 0.99
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.25
Consensus pattern (301 bp):
ACAAATATAATGATGTTGCCAACACTAGTAAGAGAAACTGATGAAAGTTACGACTAGCGATAGTC
AGATAAACCGAAAAATATAATGGTGTGCCCAGCACTAGTAAGATAAATTGATGAAAGTTGCACTC
AACACTAGTCAGATAAACCAAAAACTACAATAGTGTACCCAACACTAGTCAAATAAAGTGATGAA
AGTTGCGCCAAGCGCTAGTCATATAAACCAACAAATATAATGGTGTGCCCAACACTAGTTAAATA
AATCAACAAAGGTTTGCACCCAGTGCTAGTTGGATAAATTG
Found at i:19252260 original size:20 final size:18
Alignment explanation
Indices: 19252209--19252261 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
19252199 AAAGTTACAG
*
19252209 AAAAACTATAAAAATTTT
1 AAAAATTATAAAAATTTT
**
19252227 AAATGTTATAAAAAACTTTT
1 AAAAATTAT-AAAAA-TTTT
19252247 AAACAATTATAAAAA
1 AAA-AATTATAAAAA
19252262 AATTAAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 6 0.22
19 5 0.19
20 12 0.44
21 4 0.15
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAATTATAAAAATTTT
Found at i:19253058 original size:11 final size:11
Alignment explanation
Indices: 19253042--19253066 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19253032 TAAATTGAAC
19253042 ATTTTAAAGGT
1 ATTTTAAAGGT
19253053 ATTTTAAAGGT
1 ATTTTAAAGGT
19253064 ATT
1 ATT
19253067 CAATCATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (11 bp):
ATTTTAAAGGT
Found at i:19254116 original size:27 final size:26
Alignment explanation
Indices: 19254068--19254119 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
19254058 GCGAGGCTGC
*
19254068 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
19254094 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
19254120 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:19261634 original size:68 final size:63
Alignment explanation
Indices: 19261487--19261634 Score: 174
Period size: 63 Copynumber: 2.3 Consensus size: 63
19261477 CATAATTTTG
* *
19261487 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACATAGTACCACCCATGCGACCTAGCCAGTTTATCTCGTA
* * *
19261550 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACA-TCATAATGTC
1 GCTCTCTTGTAC-ACATGGTGAACACATAGTACCACCCATGCGACCTAGC--CAGT--T--TATC
19261613 TCGTA
59 TCGTA
19261618 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
19261635 ATATGCACTC
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
62 1 0.01
63 43 0.60
64 1 0.01
65 2 0.03
66 1 0.01
68 23 0.32
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACATAGTACCACCCATGCGACCTAGCCAGTTTATCTCGTA
Found at i:19262171 original size:30 final size:30
Alignment explanation
Indices: 19262137--19262197 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
19262127 TCCTTAACTC
19262137 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
19262167 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
19262197 A
1 A
19262198 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:19270441 original size:12 final size:12
Alignment explanation
Indices: 19270424--19270453 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19270414 CATGTTATGG
19270424 CACACGGCCTAC
1 CACACGGCCTAC
*
19270436 CACACGGCCTAT
1 CACACGGCCTAC
19270448 CACACG
1 CACACG
19270454 ACCGTGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.47, G:0.17, T:0.10
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:19274942 original size:44 final size:42
Alignment explanation
Indices: 19274889--19274998 Score: 112
Period size: 42 Copynumber: 2.5 Consensus size: 42
19274879 GCCACGTCTT
* * * * *
19274889 GGACGTTGGCATCGATTTGTGATTTATGTGTAACACCATGTTTG
1 GGACATTGGCATCG-TATATGATTT-CGTGTAACACCATGTTAG
* *
19274933 GGACATTGGCATCGTATATGATTTCGTGTAAGACCCTGTTAG
1 GGACATTGGCATCGTATATGATTTCGTGTAACACCATGTTAG
* *
19274975 GGACAGTGGCATTGATATATGATT
1 GGACATTGGCATCG-TATATGATT
19274999 ACATGTAAGA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
42 26 0.46
43 17 0.30
44 13 0.23
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (42 bp):
GGACATTGGCATCGTATATGATTTCGTGTAACACCATGTTAG
Found at i:19274994 original size:43 final size:42
Alignment explanation
Indices: 19274916--19275011 Score: 120
Period size: 42 Copynumber: 2.3 Consensus size: 42
19274906 TGTGATTTAT
* * * *
19274916 GTGTAACACCATGTTTGGGACATTGGCATCGTATATGATTTC
1 GTGTAAGACCATGTTAGGGACAGTGGCATCGTATATGATTAC
* *
19274958 GTGTAAGACCCTGTTAGGGACAGTGGCATTGATATATGATTAC
1 GTGTAAGACCATGTTAGGGACAGTGGCATCG-TATATGATTAC
*
19275001 ATGTAAGACCA
1 GTGTAAGACCA
19275012 CGTCTGGGAC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 26 0.58
43 19 0.42
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTTAGGGACAGTGGCATCGTATATGATTAC
Found at i:19275021 original size:43 final size:43
Alignment explanation
Indices: 19274872--19275027 Score: 131
Period size: 43 Copynumber: 3.6 Consensus size: 43
19274862 TTGTGTTATT
* * * * *
19274872 GTGTAAGGCCACGTCTTGGAC-GTTGGCATCGATTTGTGATTTAT
1 GTGTAAGACCACGTCTGGGACAG-TGGCATCGATATATGA-TTAC
* * * * *
19274916 GTGTAACACCATGTTTGGGACATTGGCATCG-TATATGATTTC
1 GTGTAAGACCACGTCTGGGACAGTGGCATCGATATATGATTAC
*
19274958 GTGTAAGACC-CTGT-TAGGGACAGTGGCATTGATATATGATTAC
1 GTGTAAGACCAC-GTCT-GGGACAGTGGCATCGATATATGATTAC
* *
19275001 ATGTAAGACCACGTCTGGGACACTGGC
1 GTGTAAGACCACGTCTGGGACAGTGGC
19275028 TGTAACAACC
Statistics
Matches: 89, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 36 0.40
44 26 0.29
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACAGTGGCATCGATATATGATTAC
Found at i:19280075 original size:28 final size:27
Alignment explanation
Indices: 19279962--19280092 Score: 124
Period size: 27 Copynumber: 4.9 Consensus size: 27
19279952 ACACCACTGA
* * *
19279962 ATTTGTAGCATGGCTGCCAGAACAGAT
1 ATTTGTGGCATAGCTACCAGAACAGAT
* * *
19279989 A-TTGTGACAGAG-TCACCAGATATAGAT
1 ATTTGTGGCATAGCT-ACCAGA-ACAGAT
* *
19280016 A-TTGTGGCAGAGCCACCAGAACAGAT
1 ATTTGTGGCATAGCTACCAGAACAGAT
19280042 ATTTGTGGCATAGCTACCAGAAACAGAT
1 ATTTGTGGCATAGCTACCAG-AACAGAT
* *
19280070 ATTTGTGGCATAGCCACTAGAAC
1 ATTTGTGGCATAGCTACCAGAAC
19280093 GCTTCCTCCA
Statistics
Matches: 86, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.01
26 18 0.21
27 42 0.49
28 25 0.29
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (27 bp):
ATTTGTGGCATAGCTACCAGAACAGAT
Found at i:19280092 original size:55 final size:53
Alignment explanation
Indices: 19279978--19280092 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 53
19279968 AGCATGGCTG
* *
19279978 CCAGAACAGATATTGTGACAGAGTCACCAGATATAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGTCACCAGAAACAGATATTGTGGCAGAGCCA
* * *
19280031 CCAGAACAGATATTTGTGGCATAG-CTACCAGAAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGTC-ACCAGAAACAGATA-TTGTGGCAGAGCCA
*
19280086 CTAGAAC
1 CCAGAAC
19280093 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 13 0.25
54 21 0.40
55 19 0.36
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGTCACCAGAAACAGATATTGTGGCAGAGCCA
Found at i:19280598 original size:27 final size:27
Alignment explanation
Indices: 19280563--19280701 Score: 140
Period size: 27 Copynumber: 5.1 Consensus size: 27
19280553 GAAAAATAAA
* * *
19280563 AATTTTACCCCACAAGGGTATCTCAGT
1 AATTCTACCCTACAAGGGTATTTCAGT
*
19280590 AATTCTACCCTAC-AGAGGTATTT-TGAT
1 AATTCTACCCTACAAG-GGTATTTCAG-T
*
19280617 ATTTCTACCCTACAAGGGTATTTCAGT
1 AATTCTACCCTACAAGGGTATTTCAGT
* * *
19280644 AATTCTACCCTATAGGGGTATTTCAAT
1 AATTCTACCCTACAAGGGTATTTCAGT
* *
19280671 AATTCTACCATAC-AGAGGTATTTCAAT
1 AATTCTACCCTACAAG-GGTATTTCAGT
19280698 AATT
1 AATT
19280702 TTGTAAATCG
Statistics
Matches: 94, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
26 4 0.04
27 87 0.93
28 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCAGT
Found at i:19280650 original size:54 final size:54
Alignment explanation
Indices: 19280564--19280701 Score: 172
Period size: 54 Copynumber: 2.6 Consensus size: 54
19280554 AAAAATAAAA
* * **
19280564 ATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGAGGTATTTTGAT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGAGGTATTTCAAT
* *
19280617 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAAT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGAGGTATTTCAAT
* * *
19280671 AATTCTACCATAC-AGAGGTATTTCAATAATT
1 ATTTCTACCCTACAAG-GGTATTTCAGTAATT
19280702 TTGTAAATCG
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
53 6 0.08
54 68 0.92
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGAGGTATTTCAAT
Found at i:19280717 original size:27 final size:26
Alignment explanation
Indices: 19280687--19280789 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 26
19280677 ACCATACAGA
*
19280687 GGTATTTCAATAATTTTGTAAATCGAG
1 GGTATTT-AGTAATTTTGTAAATCGAG
** * *
19280714 GGTAAAATGGTAATTTTGTAAATTGAG
1 GGT-ATTTAGTAATTTTGTAAATCGAG
* * **
19280741 GGTACTTTGGTGATTTTACAAATCGAG
1 GGTA-TTTAGTAATTTTGTAAATCGAG
19280768 GGTATTTTAGTAATTTTGTAAA
1 GGTA-TTTAGTAATTTTGTAAA
19280790 CTAAAGTATT
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
26 1 0.02
27 55 0.95
28 2 0.03
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (26 bp):
GGTATTTAGTAATTTTGTAAATCGAG
Found at i:19283346 original size:8 final size:8
Alignment explanation
Indices: 19283333--19283535 Score: 72
Period size: 8 Copynumber: 25.6 Consensus size: 8
19283323 ATGTAAAATG
19283333 ATATAATA
1 ATATAATA
*
19283341 ATATAAAA
1 ATATAATA
19283349 ATAT-ATA
1 ATATAATA
19283356 A-ATATATA
1 ATATA-ATA
*
19283364 A-ATATTA
1 ATATAATA
*
19283371 TGTGATAA-A
1 -AT-ATAATA
19283380 A-AT-ATA
1 ATATAATA
19283386 ATATAATA
1 ATATAATA
19283394 A-ATAATA
1 ATATAATA
* *
19283401 A-GTAATG
1 ATATAATA
*
19283408 ATAT-ATG
1 ATATAATA
* *
19283415 TTAAAAT-
1 ATATAATA
*
19283422 ATATATTA
1 ATATAATA
*
19283430 ATATGATA
1 ATATAATA
* *
19283438 ATAGAAAA
1 ATATAATA
19283446 ATATGAAGTA
1 ATAT-AA-TA
19283456 ATATAAT-
1 ATATAATA
19283463 ATAATAA-A
1 AT-ATAATA
19283471 ATATAAGTA
1 ATATAA-TA
19283480 A-ATAATA
1 ATATAATA
*
19283487 ATATAAAA
1 ATATAATA
19283495 TATATAATA
1 -ATATAATA
19283504 CATATATATA
1 -ATATA-ATA
* *
19283514 TTAAAATA
1 ATATAATA
*
19283522 AAATAATA
1 ATATAATA
19283530 TATATA
1 -ATATA
19283536 CAATTTAAAA
Statistics
Matches: 144, Mismatches: 30, Indels: 41
0.67 0.14 0.19
Matches are distributed among these distances:
5 1 0.01
6 6 0.04
7 37 0.26
8 63 0.44
9 26 0.18
10 11 0.08
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (8 bp):
ATATAATA
Found at i:19283448 original size:51 final size:47
Alignment explanation
Indices: 19283383--19283521 Score: 131
Period size: 51 Copynumber: 2.9 Consensus size: 47
19283373 TGATAAAAAT
* * *
19283383 ATAAT-ATAATAAATAATAAGTAATGATATATGTTAAAATATATATTAA
1 ATAATAATAAAAAATAATAAGTAAT-ATATATATTAAAATATA-AGTAA
* *
19283431 TATGATAATAGAAAAAT-ATGAAGTAATATAATATAATAAAATATAAGTAA
1 -ATAATAATA-AAAAATAAT-AAGTAATAT-ATATATTAAAATATAAGTAA
*
19283481 ATAATAATATAAAATATATAA-TACATATATATATTAAAATA
1 ATAATAATAAAAAATA-ATAAGTA-ATATATATATTAAAATA
19283522 AAATAATATA
Statistics
Matches: 75, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
48 19 0.25
49 18 0.24
50 13 0.17
51 25 0.33
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.35
Consensus pattern (47 bp):
ATAATAATAAAAAATAATAAGTAATATATATATTAAAATATAAGTAA
Found at i:19283464 original size:5 final size:5
Alignment explanation
Indices: 19283454--19283535 Score: 55
Period size: 5 Copynumber: 16.4 Consensus size: 5
19283444 AAATATGAAG
* *
19283454 TAATA TAATA TAATA AAATA TAAGTA -AATAA TAATA TAAAA T-ATA TAATA
1 TAATA TAATA TAATA TAATA TAA-TA TAAT-A TAATA TAATA TAATA TAATA
* * *
19283504 -CATA TATATA TTAAAA TAAAA TAATA T-ATA TA
1 TAATA TA-ATA -TAATA TAATA TAATA TAATA TA
19283536 CAATTTAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
4 11 0.18
5 38 0.62
6 10 0.16
7 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (5 bp):
TAATA
Found at i:19283534 original size:26 final size:26
Alignment explanation
Indices: 19283456--19283549 Score: 76
Period size: 26 Copynumber: 3.8 Consensus size: 26
19283446 ATATGAAGTA
* *
19283456 ATATA-ATATAATAAAATATAAGTAA-
1 ATATATATATATTAAAATA-AAATAAT
*
19283481 ATA-ATA-ATA-TAAAAT-ATATAAT
1 ATATATATATATTAAAATAAAATAAT
*
19283503 ACATATATATATTAAAATAAAATAAT
1 ATATATATATATTAAAATAAAATAAT
*
19283529 ATATATACA-ATTTAAAATAAA
1 ATATATATATA-TTAAAATAAA
19283550 TAAGTTATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
21 4 0.07
22 2 0.04
23 9 0.16
24 7 0.12
25 11 0.20
26 23 0.41
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (26 bp):
ATATATATATATTAAAATAAAATAAT
Found at i:19283565 original size:25 final size:27
Alignment explanation
Indices: 19283514--19283571 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
19283504 CATATATATA
*
19283514 TTAAAATAAAATAATATATATACAA-T
1 TTAAAATAAAATAATATATAAACAATT
*
19283540 TTAAAAT-AAATAAGT-TATAAATAATT
1 TTAAAATAAAATAA-TATATAAACAATT
19283566 TTAAAA
1 TTAAAA
19283572 GGGATAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
TTAAAATAAAATAATATATAAACAATT
Found at i:19285230 original size:206 final size:207
Alignment explanation
Indices: 19284946--19285325 Score: 611
Period size: 206 Copynumber: 1.8 Consensus size: 207
19284936 AAATCTGCTT
* *
19284946 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCGTAGACTTGCTTCAGCGTAAGCAC
* *
19285011 GCGAAAACCAAATCAGCTATGTCTTCGATTT-TCTCCTTGTAAGCACAAGGATACCAAACCATCT
66 GCGAAAACCAAATCAACTATGTCTTCGATTTGT-TCCTTGTAAGCACAAGGATACCAAACCATAT
* * **
19285075 TGGATC-TGCTTCAGTGTAATCATCTGAAGGTTAGATCTGCTATGTGTCTACCCTCCATCGAATA
130 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTACCCTCCATCGAATA
19285139 TGGAGACGCCAAA
195 TGGAGACGCCAAA
*
19285152 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCGTAGACTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCGTAGACTTGCTTCAGCGTAAGCAC
* * * *
19285217 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCGAACCATATT
66 GCGAAAACCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATATT
*
19285282 GGATCTTGCTTCCGTATAAACATCTGAAGGCCAGATCTGCTATG
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATG
19285326 CTGCGGCCTA
Statistics
Matches: 158, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
206 124 0.78
207 34 0.22
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCGTAGACTTGCTTCAGCGTAAGCAC
GCGAAAACCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATATT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTACCCTCCATCGAATAT
GGAGACGCCAAA
Found at i:19315539 original size:40 final size:40
Alignment explanation
Indices: 19315479--19315587 Score: 159
Period size: 40 Copynumber: 2.7 Consensus size: 40
19315469 TATTCGAATG
*
19315479 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
* *
19315519 A-ATTCCGGGCTAAG-CTCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTGACT
19315559 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
19315588 AGCAAGTAGT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
39 2 0.03
40 57 0.93
41 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACT
Found at i:19315887 original size:22 final size:21
Alignment explanation
Indices: 19315846--19315889 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
19315836 GAATGTGCAT
19315846 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
19315868 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
19315890 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:19337442 original size:46 final size:47
Alignment explanation
Indices: 19337353--19337445 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 47
19337343 CATGAATTAT
* * **
19337353 TCCTGTCTCCAATGCCATATACATCTAATATGGGCTTACATGGCTCAA
1 TCCTATCTCCAAAGCCATATA-ATCTAATATGCACTTACATGGCTCAA
*
19337401 TCCTATCTCCAAAGCCATAT-ATCTGATATGCACTTACATGGCTCA
1 TCCTATCTCCAAAGCCATATAATCTAATATGCACTTACATGGCTCA
19337446 TTTCTGTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 22 0.55
48 18 0.45
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (47 bp):
TCCTATCTCCAAAGCCATATAATCTAATATGCACTTACATGGCTCAA
Found at i:19344576 original size:46 final size:47
Alignment explanation
Indices: 19344491--19344583 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 47
19344481 CCTGAATTAT
* * *
19344491 TCCTGTCTCCAATGCCATATATATCTAATATGGGCTTACATGGCTCAA
1 TCCTATCTCCAAAGCCA-ATATATCTAATATGGACTTACATGGCTCAA
*
19344539 TCCTATCTCCAAAGCC-ATATATCTGATATGGACTTACATGGCTCA
1 TCCTATCTCCAAAGCCAATATATCTAATATGGACTTACATGGCTCA
19344584 TTTCTGTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 27 0.66
48 14 0.34
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (47 bp):
TCCTATCTCCAAAGCCAATATATCTAATATGGACTTACATGGCTCAA
Found at i:19356741 original size:49 final size:49
Alignment explanation
Indices: 19356688--19356919 Score: 320
Period size: 49 Copynumber: 4.7 Consensus size: 49
19356678 CTGGTACGCA
* * *
19356688 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
19356737 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
** * *
19356786 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * * *
19356836 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
*
19356887 TAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
19356920 TCACAATAGA
Statistics
Matches: 164, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
49 80 0.49
50 44 0.27
51 39 0.24
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:19356919 original size:101 final size:99
Alignment explanation
Indices: 19356675--19356920 Score: 350
Period size: 101 Copynumber: 2.5 Consensus size: 99
19356665 TAGCCAAAGC
* * * ** *
19356675 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCGGTACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACGTA
19356739 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
66 GTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * *
19356773 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACGTA
*
19356838 GTAGCCTGCACTTAGTACTACACACGTGATCACAGT
66 GTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* *
19356874 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCT
19356921 CACAATAGAT
Statistics
Matches: 129, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
98 40 0.31
99 43 0.33
100 1 0.01
101 45 0.35
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (99 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCCGATACACGTA
GTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:19360477 original size:43 final size:43
Alignment explanation
Indices: 19360424--19360664 Score: 355
Period size: 43 Copynumber: 5.6 Consensus size: 43
19360414 CCAACGTCCT
* *
19360424 AGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCC
1 AGACGTGGTCTTACACGTAATCACATATCGATGCCACTATCCC
19360467 AGACAG-GGTCTTACACGTAATCACATATCGATGCCAAC-ATCCC
1 AGAC-GTGGTCTTACACGTAATCACATATCGATGCC-ACTATCCC
*
19360510 AGACGTGGTCTTACACATAATCACATATCGATGCCAAC-ATCCC
1 AGACGTGGTCTTACACGTAATCACATATCGATGCC-ACTATCCC
*
19360553 AGACGTGGTCTTACACATAATCACATATCGATGCCACTATCCC
1 AGACGTGGTCTTACACGTAATCACATATCGATGCCACTATCCC
* *
19360596 AGACAG-GGTCTTACACGTAATCACATATCGATGCCAATGTCCC
1 AGAC-GTGGTCTTACACGTAATCACATATCGATGCCACTATCCC
*
19360639 AAACGTGGTCTTACACGTAATCACAT
1 AGACGTGGTCTTACACGTAATCACAT
19360665 GTAACACCCC
Statistics
Matches: 185, Mismatches: 7, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
42 4 0.02
43 177 0.96
44 4 0.02
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
AGACGTGGTCTTACACGTAATCACATATCGATGCCACTATCCC
Found at i:19360645 original size:129 final size:129
Alignment explanation
Indices: 19360411--19360664 Score: 427
Period size: 129 Copynumber: 2.0 Consensus size: 129
19360401 ATATCGTACA
* * ** *
19360411 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACATCCCAGACGTGGTCTTACACATAATCACATATCGATGCCACTATCCCAGACAGGGT
*
19360476 CTTACACGTAATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACATAATCACATATCG
66 CTTACACGTAATCACATATCGATGCCAACATCCCAAACGTGGTCTTACACATAATCACATATCG
19360540 ATGCCAACATCCCAGACGTGGTCTTACACATAATCACATATCGATGCCACTATCCCAGACAGGGT
1 ATGCCAACATCCCAGACGTGGTCTTACACATAATCACATATCGATGCCACTATCCCAGACAGGGT
** *
19360605 CTTACACGTAATCACATATCGATGCCAATGTCCCAAACGTGGTCTTACACGTAATCACAT
66 CTTACACGTAATCACATATCGATGCCAACATCCCAAACGTGGTCTTACACATAATCACAT
19360665 GTAACACCCC
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 116 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (129 bp):
ATGCCAACATCCCAGACGTGGTCTTACACATAATCACATATCGATGCCACTATCCCAGACAGGGT
CTTACACGTAATCACATATCGATGCCAACATCCCAAACGTGGTCTTACACATAATCACATATCG
Found at i:19362337 original size:68 final size:64
Alignment explanation
Indices: 19362196--19362346 Score: 162
Period size: 68 Copynumber: 2.3 Consensus size: 64
19362186 TGGAACCACG
* * * * * *
19362196 CATGCAACCTAGCAACATATATTCTGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCATC
1 CATGCGACCTAGCTACATATATTCTGTAGCTCTCTTGTCTACATGATGTACACATAGCACCATA
*
19362260 CATGCGACCTAGCTACATCATAATGTCTCGTAGCTCTCTTGTAC-ACATGATGTGCAC-TCAGCA
1 CATGCGACCTAGCTACAT-AT-AT-TCT-GTAGCTCTCTTGT-CTACATGATGTACACAT-AGCA
19362323 CCATA
60 CCATA
*
19362328 CATGTGACCTAGCTACATA
1 CATGCGACCTAGCTACATA
19362347 CCATCTATAT
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
64 16 0.22
65 2 0.03
66 2 0.03
67 5 0.07
68 47 0.64
69 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (64 bp):
CATGCGACCTAGCTACATATATTCTGTAGCTCTCTTGTCTACATGATGTACACATAGCACCATA
Found at i:19363108 original size:31 final size:30
Alignment explanation
Indices: 19363068--19363130 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
19363058 GTCATTAACT
19363068 TAAAATTTTGGCAAAATT-ACAATTTTTCCCC
1 TAAAATTTT-GC-AAATTCACAATTTTTCCCC
* * *
19363099 TAAACTTTTGCATATTCACACTTTTTCCCC
1 TAAAATTTTGCAAATTCACAATTTTTCCCC
19363129 TA
1 TA
19363131 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 4 0.14
30 16 0.57
31 8 0.29
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
TAAAATTTTGCAAATTCACAATTTTTCCCC
Found at i:19366706 original size:48 final size:48
Alignment explanation
Indices: 19366654--19366860 Score: 188
Period size: 48 Copynumber: 4.3 Consensus size: 48
19366644 ACTATATATG
* * *
19366654 GGATATGGCATCAGCATCGAAATGAGATCCCGTGTAAGACCATTTCTA
1 GGATATGGCATCGGCATCGATATGAGATCCCGTATAAGACCATTTCTA
* * * *
19366702 GGATATGGCATCGGCATCGAGATGAGATCCCGTGA-AA-ACCATATATG
1 GGATATGGCATCGGCATCGATATGAGATCCCGT-ATAAGACCATTTCTA
* * * *
19366749 GGATATGACATTGGCATC-AGTATGAGATCCCCTATAAGACCATATT-TG
1 GGATATGGCATCGGCATCGA-TATGAGATCCCGTATAAGACCAT-TTCTA
* * * * * * *
19366797 GGATATAGAATTGGCATTGATATGAGGTCCCGTATAAGGCCATGTCTA
1 GGATATGGCATCGGCATCGATATGAGATCCCGTATAAGACCATTTCTA
*
19366845 GGACATGGCATCGGCA
1 GGATATGGCATCGGCA
19366861 CCATTATGAG
Statistics
Matches: 128, Mismatches: 24, Indels: 14
0.77 0.14 0.08
Matches are distributed among these distances:
46 2 0.02
47 37 0.29
48 87 0.68
49 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
GGATATGGCATCGGCATCGATATGAGATCCCGTATAAGACCATTTCTA
Found at i:19366813 original size:95 final size:95
Alignment explanation
Indices: 19366647--19366829 Score: 217
Period size: 95 Copynumber: 1.9 Consensus size: 95
19366637 ATATAAGACT
* * * * *
19366647 ATATATGGGATATGGCATCAGCATCGAAATGAGATCCCGTGTAAGACCATTTCTAGGATATGGCA
1 ATATATGGGATATGACATCAGCATCGAAATGAGATCCCCTATAAGACCATTTCTAGGATATAGAA
19366712 TCGGCATCGAGATGAGATCCCGTGAAAACC
66 TCGGCATCGAGATGAGATCCCGTGAAAACC
** * *
19366742 ATATATGGGATATGACATTGGCATC-AGTATGAGATCCCCTATAAGACCATATT-TGGGATATAG
1 ATATATGGGATATGACATCAGCATCGA-AATGAGATCCCCTATAAGACCAT-TTCTAGGATATAG
* * * *
19366805 AATTGGCATTGATATGAGGTCCCGT
64 AATCGGCATCGAGATGAGATCCCGT
19366830 ATAAGGCCAT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
94 1 0.01
95 70 0.96
96 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (95 bp):
ATATATGGGATATGACATCAGCATCGAAATGAGATCCCCTATAAGACCATTTCTAGGATATAGAA
TCGGCATCGAGATGAGATCCCGTGAAAACC
Found at i:19371900 original size:40 final size:40
Alignment explanation
Indices: 19371863--19372048 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
19371853 GCTACTCGTT
* *
19371863 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
19371903 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
19371943 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * * *
19371983 CCAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
19372024 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
19372049 CATCATTCAA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:19382852 original size:53 final size:53
Alignment explanation
Indices: 19382724--19382978 Score: 216
Period size: 55 Copynumber: 4.8 Consensus size: 53
19382714 ACACGGGTAC
* ** * *
19382724 CTTACCATTGCCATGATTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
19382773 CTTACCATTGCCATGTCTTGACATGGTCTGACATGGTAGCCTTGCCTTACG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* ** * *
19382826 CTCACCAATGCCATGCCTTGGGATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * * * *
19382881 CTTATCAATGCCGTGTCTTGACATTGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
19382934 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
19382979 AACCCCTAAT
Statistics
Matches: 162, Mismatches: 32, Indels: 18
0.76 0.15 0.08
Matches are distributed among these distances:
49 37 0.23
52 4 0.02
53 43 0.27
54 11 0.07
55 65 0.40
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:19382915 original size:108 final size:110
Alignment explanation
Indices: 19382771--19382968 Score: 276
Period size: 108 Copynumber: 1.8 Consensus size: 110
19382761 ATCCTTTTGA
* *
19382771 AACTTACCATTGCCATGTCTTGACATGGTCTGACATGGTAGCCTTGCCTTACG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTA-GAAACCTCACCAA
*
19382834 -TGCCATGCCTTGGGATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * ** *
19382879 AACTTATCAATGCCGTGTCTTGACATTGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTAGAAACCTCACCAAT
19382944 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
19382969 CGGTATCCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 45 0.58
109 7 0.09
110 24 0.31
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:19383951 original size:192 final size:193
Alignment explanation
Indices: 19383619--19384005 Score: 713
Period size: 192 Copynumber: 2.0 Consensus size: 193
19383609 ATGGGTATTT
19383619 TTCCAAATATGAACCCTAGGTTGAATTATTGCTAGAATAAGCTTAACCAAGTTATCGGGACTCCA
1 TTCCAAATATGAACCCTAGGTTGAATTATTGCTAGAATAAGCTTAACCAAGTTATCGGGACTCCA
*
19383684 AAAACGTAAAGATCATTAAAAACGAGGCTTGGAATCACTTACTATGGAGTTTGAAAGCTTGAAAC
66 AAAACATAAAGATCATTAAAAACGAGGCTTGGAATCACTTACTATGGAGTTTGAAAGCTTGAAAC
* *
19383749 AAACCCTAGCTATGGAGAACCCTTGAAATTTGGTCCTAATGAATAAGATGGAC-AAAATTGGC
131 AAACCCTAGCTATGGAGAACCCTTGAAATTTCGTCCTAATGAAGAAGATGGACAAAAATTGGC
*
19383811 TTCCAAATATGAACCCTAGGTTGAATTATTGCTAGAATAAGCTTAATCAAGTTATCGGGACTCCA
1 TTCCAAATATGAACCCTAGGTTGAATTATTGCTAGAATAAGCTTAACCAAGTTATCGGGACTCCA
*
19383876 AAAACATAAAGATCATTAAAAACGGGGCTTGGAATCACTTACTATGGAGTTTGAAAGCTTGAAAC
66 AAAACATAAAGATCATTAAAAACGAGGCTTGGAATCACTTACTATGGAGTTTGAAAGCTTGAAAC
*
19383941 AAATCCTAGCTATGGAGAACCCTTGAAATTTCGTCCTAATGAAGAAGATGGACAAAAATTGGC
131 AAACCCTAGCTATGGAGAACCCTTGAAATTTCGTCCTAATGAAGAAGATGGACAAAAATTGGC
19384004 TT
1 TT
19384006 TTAATTTTGT
Statistics
Matches: 188, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
192 177 0.94
193 11 0.06
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (193 bp):
TTCCAAATATGAACCCTAGGTTGAATTATTGCTAGAATAAGCTTAACCAAGTTATCGGGACTCCA
AAAACATAAAGATCATTAAAAACGAGGCTTGGAATCACTTACTATGGAGTTTGAAAGCTTGAAAC
AAACCCTAGCTATGGAGAACCCTTGAAATTTCGTCCTAATGAAGAAGATGGACAAAAATTGGC
Found at i:19390020 original size:16 final size:16
Alignment explanation
Indices: 19390001--19390031 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19389991 CTTCTTCACT
19390001 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
19390017 TACTTACTTACTTAA
1 TACTCACTTACTTAA
19390032 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:19390037 original size:20 final size:20
Alignment explanation
Indices: 19389998--19390037 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19389988 AAACTTCTTC
* *
19389998 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
19390018 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
19390038 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:19390419 original size:108 final size:110
Alignment explanation
Indices: 19390275--19390472 Score: 276
Period size: 108 Copynumber: 1.8 Consensus size: 110
19390265 ATCCTTTTGA
* *
19390275 AACTTACCATTGCCATGTCTTGACATGGTCTGACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTA-GAAACCTCACCAA
* *
19390338 -TGCCATGCGTTGGGATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * ** *
19390383 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTAGAAACCTCACCAAT
*
19390448 TTCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
19390473 CGGTATCCTT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.61
109 7 0.09
110 22 0.29
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTGACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:19390482 original size:55 final size:54
Alignment explanation
Indices: 19390228--19390482 Score: 224
Period size: 55 Copynumber: 4.8 Consensus size: 54
19390218 ACACAGGTAC
* * *
19390228 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
19390277 CTTACC-ATTGCCATGTCTTGACATGGTCTGACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * ** * *
19390330 CTCACCAA-TGCCATGCGTTGGGATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * *
19390385 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
19390438 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
19390483 AAACCCTAAT
Statistics
Matches: 164, Mismatches: 29, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
49 38 0.23
52 4 0.02
53 41 0.25
54 12 0.07
55 67 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:19392617 original size:45 final size:45
Alignment explanation
Indices: 19392503--19392856 Score: 489
Period size: 45 Copynumber: 7.8 Consensus size: 45
19392493 GGAAAGAACT
*
19392503 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAC
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATG-C-----C
*
19392554 GGTGAGATGTTATTCGGGCCTTTGAGACTAGCAGGCTATAATGCC
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
**
19392599 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTT
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* *
19392644 GGTGAGATGTTATTCGAGCCTTTGAGCCTAGCAGGCTATAATGAC
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
19392689 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGATATAATGCC
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
19392734 GGTGAGATATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
** * *
19392779 GGTGAGATACTATTCGGG-CTTTCGAGCCTAACAGGCTATAATACC
1 GGTGAGATGTTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCC
* * *
19392824 GGTGAAATGATA-TCGGGCC-TCGAGCCTAGCAGG
1 GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGG
19392857 TGAAATGCCA
Statistics
Matches: 280, Mismatches: 21, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
43 11 0.04
44 10 0.04
45 217 0.77
50 1 0.00
51 41 0.15
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (45 bp):
GGTGAGATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
Found at i:19395147 original size:22 final size:22
Alignment explanation
Indices: 19395119--19395169 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
19395109 GGACTGTTTT
19395119 GATAAATGTGAATATTAAATAA
1 GATAAATGTGAATATTAAATAA
19395141 GATAAATGTGAATATTAAATAA
1 GATAAATGTGAATATTAAATAA
*
19395163 GTTAAAT
1 GATAAAT
19395170 TTTCTATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (22 bp):
GATAAATGTGAATATTAAATAA
Found at i:19431295 original size:27 final size:27
Alignment explanation
Indices: 19431265--19431442 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
19431255 ATATTGAGTC
* * * *
19431265 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
19431292 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19431319 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
19431347 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
19431374 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
19431401 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
19431428 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19431443 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:19431404 original size:82 final size:81
Alignment explanation
Indices: 19431286--19431441 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
19431276 TGCTATATAA
* *
19431286 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
19431351 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
19431368 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
19431432 CACTTAGTGC
65 CACTTAGTGC
19431442 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:19433132 original size:72 final size:72
Alignment explanation
Indices: 19433015--19433158 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
19433005 CGAATCCTTC
19433015 ACATATAATTTCACCGACAGAAGTTGAACTACGACCGGATATGACTTATGAAGAAGAACAGATTA
1 ACATATAATTTCACCGACAGAAGTTGAACTACGACCGGATATGACTTATGAAGAAGAACAGATTA
19433080 AGATTTT
66 AGATTTT
*
19433087 ACATATAATTTCACCGACAGAAGTTGAACTACGACCGGATATGACTTATGAAGAAGAACCGATTA
1 ACATATAATTTCACCGACAGAAGTTGAACTACGACCGGATATGACTTATGAAGAAGAACAGATTA
19433152 AGATTTT
66 AGATTTT
19433159 CGCTCGAGAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (72 bp):
ACATATAATTTCACCGACAGAAGTTGAACTACGACCGGATATGACTTATGAAGAAGAACAGATTA
AGATTTT
Done.