Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 134 of 199
Found at i:39029874 original size:24 final size:23
Alignment explanation
Indices: 39029847--39029916 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 23
39029837 TTCAAAAATA
* *
39029847 AATAATAAAAGGCTTCAAATAAAC
1 AATAATAAAA-ACTTAAAATAAAC
*
39029871 AATATATAAAAACTTAAAATAAAT
1 AATA-ATAAAAACTTAAAATAAAC
* **
39029895 AATAATAACAGTTTAAAATAAA
1 AATAATAAAAACTTAAAATAAA
39029917 TAAATAAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
23 15 0.38
24 18 0.46
25 6 0.15
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (23 bp):
AATAATAAAAACTTAAAATAAAC
Found at i:39029910 original size:23 final size:22
Alignment explanation
Indices: 39029841--39029919 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 22
39029831 GAACAATTCA
*
39029841 AAAATAAATAATAA-AAGGCTT
1 AAAATAAATAATAATAAAGCTT
* * *
39029862 CAAATAAACAATATATAAAAACTT
1 AAAATAAATAATA-AT-AAAGCTT
*
39029886 AAAATAAATAATAATAACAGTTT
1 AAAATAAATAATAATAA-AGCTT
39029909 AAAATAAATAA
1 AAAATAAATAA
39029920 ATAAACATAC
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 11 0.24
22 3 0.07
23 16 0.35
24 16 0.35
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (22 bp):
AAAATAAATAATAATAAAGCTT
Found at i:39036277 original size:104 final size:104
Alignment explanation
Indices: 39036157--39036376 Score: 313
Period size: 104 Copynumber: 2.1 Consensus size: 104
39036147 ATTATGGATA
**
39036157 AAAATAA-AA-AATAAATT-AGGAGTGTGTTGGGCTAAGTAACTGGGGTGGAGTGCTTGGGTTGT
1 AAAATAATAATAATAAATTCA-GAGTGTGTTGGGCTAAGTAACAAGGGTGGAGTGCTTGGGTTGT
* **
39036219 CATTCCACTTTGCGTCAAAAGGGCCAATACATTCTTAAAC
65 CATTCCACTTCGCGTCAAAAAAGCCAATACATTCTTAAAC
* *
39036259 AAAATAATAATAATAAATTCAGAGTGTGTTGGGCTGAGTAACAAGGGTGGGGTGCTTGGGTTGTC
1 AAAATAATAATAATAAATTCAGAGTGTGTTGGGCTAAGTAACAAGGGTGGAGTGCTTGGGTTGTC
* *
39036324 ATTCCACTTCGTGTCAAAAAAGCCAATACATTCTTAAAT
66 ATTCCACTTCGCGTCAAAAAAGCCAATACATTCTTAAAC
39036363 AAAAT-ATATATAAT
1 AAAATAATA-ATAAT
39036377 TTGACAAAAT
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
102 7 0.07
103 5 0.05
104 92 0.88
105 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.30
Consensus pattern (104 bp):
AAAATAATAATAATAAATTCAGAGTGTGTTGGGCTAAGTAACAAGGGTGGAGTGCTTGGGTTGTC
ATTCCACTTCGCGTCAAAAAAGCCAATACATTCTTAAAC
Found at i:39039627 original size:20 final size:18
Alignment explanation
Indices: 39039577--39039628 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
39039567 CTAAAAGATA
39039577 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
*
39039594 AAAATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
39039614 AATATTAAATTAATA
1 AATATTAAATTAATA
39039629 AAATACTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 10 0.36
18 1 0.04
19 3 0.11
20 14 0.50
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:39044915 original size:23 final size:23
Alignment explanation
Indices: 39044873--39044916 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
39044863 CGATTGTAAA
39044873 TTGAGTTATAAGTATAATGTTAG
1 TTGAGTTATAAGTATAATGTTAG
39044896 TTGAGTATATAAGTAT-ATGTT
1 TTGAGT-TATAAGTATAATGTT
39044917 TGTGTTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (23 bp):
TTGAGTTATAAGTATAATGTTAG
Found at i:39047625 original size:47 final size:47
Alignment explanation
Indices: 39047574--39048080 Score: 849
Period size: 47 Copynumber: 10.7 Consensus size: 47
39047564 TTAGGATTCT
* * *
39047574 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
39047621 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
39047668 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
39047717 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
39047766 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
39047813 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
39047860 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
39047907 ATGTGATGAATGTGAAA--GTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
39047952 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
39047999 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
39048046 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
39048081 TCCCGAAGGG
Statistics
Matches: 442, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
45 45 0.10
46 1 0.00
47 300 0.68
49 96 0.22
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:39048016 original size:186 final size:188
Alignment explanation
Indices: 39047574--39048080 Score: 849
Period size: 186 Copynumber: 2.7 Consensus size: 188
39047564 TTAGGATTCT
* * *
39047574 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
39047638 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATA
39047703 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
128 AGGCCTAATGGCCGATGTGATGAATGTGAAAG-G-ATATATATGTGATAAGGCCTAATGGCCG
39047766 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
39047831 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
39047896 CCTAATGGCCGATGTGATGAATGTGAAA-G-TATATATGTGATAAGGCCTAATGGCCG
131 CCTAATGGCCGATGTGATGAATGTGAAAGGATATATATGTGATAAGGCCTAATGGCCG
39047952 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * * * * * * *
39048017 TGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
39048081 TCCCGAAGGG
Statistics
Matches: 303, Mismatches: 11, Indels: 8
0.94 0.03 0.02
Matches are distributed among these distances:
186 148 0.49
188 1 0.00
190 44 0.15
191 1 0.00
192 109 0.36
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (188 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
CCTAATGGCCGATGTGATGAATGTGAAAGGATATATATGTGATAAGGCCTAATGGCCG
Found at i:39048255 original size:37 final size:37
Alignment explanation
Indices: 39048199--39048277 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
39048189 CCGAGCTCTA
* * * *
39048199 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCAGGGT
*
39048236 AAGACCCGATAACTTCGTGTGGAGATTATGTCAGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCAGGGT
39048273 AAGAC
1 AAGAC
39048278 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCAGGGT
Found at i:39049947 original size:33 final size:33
Alignment explanation
Indices: 39049910--39049979 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
39049900 ACTCTTTATT
39049910 TGGTGTGTTGGTTGGACTAGCTCTTATGAGCAC
1 TGGTGTGTTGGTTGGACTAGCTCTTATGAGCAC
* * *
39049943 TGGTGTGTTGGTTGGATTAGCTCTTCTGAGCAT
1 TGGTGTGTTGGTTGGACTAGCTCTTATGAGCAC
39049976 TGGT
1 TGGT
39049980 ATGCTGGAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.13, C:0.13, G:0.34, T:0.40
Consensus pattern (33 bp):
TGGTGTGTTGGTTGGACTAGCTCTTATGAGCAC
Found at i:39049993 original size:33 final size:33
Alignment explanation
Indices: 39049927--39049998 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
39049917 TTGGTTGGAC
* * **
39049927 TAGCTCTTATGAGCACTGGTGTGTTGGTTGGAT
1 TAGCTCTTATGAGCACTGGTATGCTGGAGGGAT
* *
39049960 TAGCTCTTCTGAGCATTGGTATGCTGGAGGGAT
1 TAGCTCTTATGAGCACTGGTATGCTGGAGGGAT
*
39049993 TGGCTC
1 TAGCTC
39049999 GTGTGAGTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.36
Consensus pattern (33 bp):
TAGCTCTTATGAGCACTGGTATGCTGGAGGGAT
Found at i:39057931 original size:421 final size:426
Alignment explanation
Indices: 39057110--39057955 Score: 1084
Period size: 421 Copynumber: 2.0 Consensus size: 426
39057100 TTAATCAAAC
* * *
39057110 GATTATGCTTCCAATAGCTAAAATGTGGATACAGTTTATTTGCACTAGAATTACACAAGCTTTAA
1 GATTATGCTTCCAATAGCAAAAATGTGGATACAGTTTATTTGCACTAAAATTACACAAGCTCTAA
* *
39057175 ATATCTCTAATGTCAATACTTTTCGAGCTATGTTTCTATGTGGAATTTTGCAAAAAAAAAAAACA
66 ATATCTCTAATGCCAATACTTTTCGAGCTATGTTTCTATATGGAATTTT--AAAAAAAAAAAACA
* * * *
39057240 ACTATGCATTGTAGAATGGATCTATCAAAATATGAAACAATGAGTTCGCATCCAGAAGCTCGAGA
129 ACTATGCATTGGAGAATGGATCCATCAAAATATGAAACAATGACTTCGCAGCCAGAAGCTCGAGA
* * * *
39057305 TTTTCTTTCCCCATCTTGTGACGACATCATGCAAATAGGCTAGAGTCCCTATGGAAGAGAATGAA
194 TTTTCTTTCACCATCTTGTGACAACATCATGCAAACAGGCTAGAGTCCCTATGGAAAAGAATGAA
** * * *
39057370 AAGTTTATGTGACCGACAAATAGCCTAATAGGCGACTCTATGTACACATAGTACGTAGAGCACAA
259 AAGTTTATACGACCGAAAAAGAGCCTAATAGGCGACTCTATGTACACACAGTACGTAGAGCACAA
* * * *
39057435 TTGGAAACAAATTAAAGATTGGAACCAAATGAGAAAAGTAAAGATGGACATTCCGACTTTGCTTA
324 TCGGAAACAAATTAAAGATTGGAACCAAAGGAGAAAAGAAAAGATGGACATTCCGACTTTGCATA
39057500 AACAAAAAGTAAGA-CTGACGCCTCAAAAAGAAATTAGT
389 AACAAAAAGTAAGATC-GACGCCTCAAAAAGAAATTAGT
* * * *
39057538 GATTAT-CTTCCAATAGCAAAAATGTGGATGCAGTTTGTTTGTACTAAAATTACACCAGCTCTAA
1 GATTATGCTTCCAATAGCAAAAATGTGGATACAGTTTATTTGCACTAAAATTACACAAGCTCTAA
* * * *
39057602 ATGTCTCTAATGCCAATACTTTTCGAGCTAT-TTTGCTATATGGGATTTT-ATAGAAAAAAA-AA
66 ATATCTCTAATGCCAATACTTTTCGAGCTATGTTT-CTATATGGAATTTTAAAAAAAAAAAACAA
* * * * *
39057664 -TATGTATTGGAGAATGGATCCATCAAAATATGCAACAATG-CTTCATCGGCCAGAAGGTCGA-A
130 CTATGCATTGGAGAATGGATCCATCAAAATATGAAACAATGACTTC-GCAGCCAGAAGCTCGAGA
* * *
39057726 TTTTCTTTCATCATCTTGTGACAACA-CTATGCAAACATGCTAGAGTTCCTATGGAAAAGAAT-A
194 TTTTCTTTCACCATCTTGTGACAACATC-ATGCAAACAGGCTAGAGTCCCTATGGAAAAGAATGA
* * *
39057789 AGCAGTTTATACGGCCGAAAAAGAGCCTAATAGGCGACTCTATGTACACACAGTACGTAGAGCTC
258 A-AAGTTTATACGACCGAAAAAGAGCCTAATAGGCGACTCTATGTACACACAGTACGTAGAGCAC
* * * * * *
39057854 AATCGGAAACATATTAAATATTGGTACTATAGGAGAAAAGAAAAGATGGACA-TCCTAGCTTTGC
322 AATCGGAAACAAATTAAAGATTGGAACCAAAGGAGAAAAGAAAAGATGGACATTCCGA-CTTTGC
** **
39057918 ATAAATGAAAAGTAAGATCGACGCCTTGAAAAGAAATT
386 ATAAACAAAAAGTAAGATCGACGCCTCAAAAAGAAATT
39057956 GGCGAGAGTA
Statistics
Matches: 361, Mismatches: 51, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
420 7 0.02
421 193 0.53
422 49 0.14
423 2 0.01
424 9 0.02
426 3 0.01
427 92 0.25
428 6 0.02
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (426 bp):
GATTATGCTTCCAATAGCAAAAATGTGGATACAGTTTATTTGCACTAAAATTACACAAGCTCTAA
ATATCTCTAATGCCAATACTTTTCGAGCTATGTTTCTATATGGAATTTTAAAAAAAAAAAACAAC
TATGCATTGGAGAATGGATCCATCAAAATATGAAACAATGACTTCGCAGCCAGAAGCTCGAGATT
TTCTTTCACCATCTTGTGACAACATCATGCAAACAGGCTAGAGTCCCTATGGAAAAGAATGAAAA
GTTTATACGACCGAAAAAGAGCCTAATAGGCGACTCTATGTACACACAGTACGTAGAGCACAATC
GGAAACAAATTAAAGATTGGAACCAAAGGAGAAAAGAAAAGATGGACATTCCGACTTTGCATAAA
CAAAAAGTAAGATCGACGCCTCAAAAAGAAATTAGT
Found at i:39062632 original size:15 final size:15
Alignment explanation
Indices: 39062608--39062655 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
39062598 CTAAATTTTG
*
39062608 AAATTTAAAAAATTA
1 AAATTAAAAAAATTA
39062623 AAATTAAAAAAATTA
1 AAATTAAAAAAATTA
39062638 AAATTAAAAAAATTA
1 AAATTAAAAAAATTA
39062653 AAA
1 AAA
39062656 AGACTAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATTAAAAAAATTA
Found at i:39062823 original size:25 final size:25
Alignment explanation
Indices: 39062789--39062837 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
39062779 TACATGGACA
39062789 ACTATTAAGCATAGATTAAATTTTC
1 ACTATTAAGCATAGATTAAATTTTC
39062814 ACTATTAAGCATAGATTAAATTTT
1 ACTATTAAGCATAGATTAAATTTT
39062838 TACTGTACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (25 bp):
ACTATTAAGCATAGATTAAATTTTC
Found at i:39064344 original size:24 final size:24
Alignment explanation
Indices: 39064308--39064353 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
39064298 GGTTTGTATC
39064308 ATTTTTAATATTT-TTTACTTTTG
1 ATTTTTAATATTTATTTACTTTTG
*
39064331 ATTTTTAATAATTTATTTGCTTT
1 ATTTTTAAT-ATTTATTTACTTT
39064354 GAACTAGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
25 7 0.35
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (24 bp):
ATTTTTAATATTTATTTACTTTTG
Found at i:39066380 original size:23 final size:23
Alignment explanation
Indices: 39066354--39066429 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
39066344 ATAAGTGCCA
39066354 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
* *
39066377 CACTAATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCTGAAGCTAC
*
39066400 CACTGAGATGTAG-TCGAAGCTAC
1 CACTGATATGTAGCT-GAAGCTAC
39066423 CACTGAT
1 CACTGAT
39066430 CAATAACACT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCTGAAGCTAC
Found at i:39067873 original size:59 final size:60
Alignment explanation
Indices: 39067801--39067934 Score: 155
Period size: 59 Copynumber: 2.2 Consensus size: 60
39067791 GATTATTATT
* * *
39067801 ATTAGATTTTAATAGGATAATTATCAAAAATAATTTAAT-AAAA-AACAATAAATAATTTA
1 ATTATATTTTAATAGAATAATTAT-AAAAATAATTTAATAAAAATAAAAATAAATAATTTA
* * * * *
39067860 ATTATATTTTAATATAATTATTATTAATATAATTTAATAAAAATAAAAATATATAATTTA
1 ATTATATTTTAATAGAATAATTATAAAAATAATTTAATAAAAATAAAAATAAATAATTTA
*
39067920 ATAATATTTTTAATA
1 ATTATA-TTTTAATA
39067935 TAATTATTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
58 12 0.19
59 24 0.38
60 19 0.30
61 8 0.13
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (60 bp):
ATTATATTTTAATAGAATAATTATAAAAATAATTTAATAAAAATAAAAATAAATAATTTA
Found at i:39067877 original size:16 final size:15
Alignment explanation
Indices: 39067853--39067893 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
39067843 AAACAATAAA
* *
39067853 TAATTTAATTATATTT
1 TAATATAATTAT-TAT
39067869 TAATATAATTATTAT
1 TAATATAATTATTAT
39067884 TAATATAATT
1 TAATATAATT
39067894 TAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATATAATTATTAT
Found at i:39067901 original size:58 final size:61
Alignment explanation
Indices: 39067830--39067942 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 61
39067820 ATTATCAAAA
* *
39067830 ATAATTTAAT-AAAA-AACAATAAATAATTTAATTATA-TTTTAATATAATTATTATTAAT
1 ATAATTTAATAAAAATAAAAATAAATAATTTAATAATATTTTTAATATAATTATTATTAAT
*
39067888 ATAATTTAATAAAAATAAAAATATATAATTTAATAATATTTTTAATATAATTATT
1 ATAATTTAATAAAAATAAAAATAAATAATTTAATAATATTTTTAATATAATTATT
39067943 TTTATATTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
58 10 0.20
59 4 0.08
60 19 0.39
61 16 0.33
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (61 bp):
ATAATTTAATAAAAATAAAAATAAATAATTTAATAATATTTTTAATATAATTATTATTAAT
Found at i:39067989 original size:20 final size:21
Alignment explanation
Indices: 39067954--39068001 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
39067944 TTATATTAAA
39067954 TTATATTAAAAAA-TTTAGTT
1 TTATATTAAAAAATTTTAGTT
** *
39067974 TTATATTAAAGTATTTTATTT
1 TTATATTAAAAAATTTTAGTT
39067995 TTATATT
1 TTATATT
39068002 TTCTAAGTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
TTATATTAAAAAATTTTAGTT
Found at i:39074665 original size:19 final size:18
Alignment explanation
Indices: 39074623--39074666 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
39074613 GGAAAAGGGA
39074623 AATGAGAGAGAGAATGAT
1 AATGAGAGAGAGAATGAT
39074641 AGATGAGAGA-ATGAATGAT
1 A-ATGAGAGAGA-GAATGAT
39074660 GAATGAG
1 -AATGAG
39074667 TGTTGAGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.09
19 20 0.87
20 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.34, T:0.18
Consensus pattern (18 bp):
AATGAGAGAGAGAATGAT
Found at i:39085905 original size:20 final size:21
Alignment explanation
Indices: 39085847--39085905 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
39085837 TTAGTTTCAT
* *
39085847 TGCTGTTTTGAATCGATTATT
1 TGCTATTTTGAATCGATTATC
* * * *
39085868 TGTTATTTTAAATTGATTCTC
1 TGCTATTTTGAATCGATTATC
39085889 TGCT-TTTTGAATCGATT
1 TGCTATTTTGAATCGATT
39085906 GTTTATTGTT
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.20, C:0.10, G:0.15, T:0.54
Consensus pattern (21 bp):
TGCTATTTTGAATCGATTATC
Found at i:39088853 original size:31 final size:29
Alignment explanation
Indices: 39088818--39088888 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
39088808 AACGGCTCAA
* *
39088818 TGACTAAAATGTTACAACATGATAACGTAAG
1 TGACTAAAATGTAAC-ACATGA-AACATAAG
* **
39088849 TGACTAAAACGTAACATTTGAAACATAAG
1 TGACTAAAATGTAACACATGAAACATAAG
39088878 TGACTAAAATG
1 TGACTAAAATG
39088889 CAACCTGGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 17 0.50
30 4 0.12
31 13 0.38
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (29 bp):
TGACTAAAATGTAACACATGAAACATAAG
Found at i:39090479 original size:35 final size:35
Alignment explanation
Indices: 39090425--39090540 Score: 169
Period size: 35 Copynumber: 3.3 Consensus size: 35
39090415 TGAATTGTTA
*
39090425 TGCTGGATGGTACTTGCTCTTATGAGCAACTGGTG
1 TGCTGGATGGTACTGGCTCTTATGAGCAACTGGTG
* *
39090460 TGCTAGATGGTAATGGCTCTTATGAGCAACTGGTG
1 TGCTGGATGGTACTGGCTCTTATGAGCAACTGGTG
* * *
39090495 TGCTGGATGGTACTGACTCTTATGAGTATCTGGTG
1 TGCTGGATGGTACTGGCTCTTATGAGCAACTGGTG
*
39090530 TGTTGGATGGT
1 TGCTGGATGGT
39090541 TAACCGTGTG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 72 1.00
ACGTcount: A:0.18, C:0.14, G:0.33, T:0.35
Consensus pattern (35 bp):
TGCTGGATGGTACTGGCTCTTATGAGCAACTGGTG
Found at i:39090851 original size:60 final size:60
Alignment explanation
Indices: 39090757--39090878 Score: 226
Period size: 60 Copynumber: 2.0 Consensus size: 60
39090747 TTATTAATCG
*
39090757 AATTATTATGCGTAATTTAGTAAGATTTAGTATTTAATCGATGAACTTACTAAGCTTTAT
1 AATTATTATGCGTAATTTAGTAAGATTTACTATTTAATCGATGAACTTACTAAGCTTTAT
*
39090817 AATTATTATGCGTAATTTAGTAAGATTTACTATTTAATTGATGAACTTACTAAGCTTTAT
1 AATTATTATGCGTAATTTAGTAAGATTTACTATTTAATCGATGAACTTACTAAGCTTTAT
39090877 AA
1 AA
39090879 AAGCTTACTC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.43
Consensus pattern (60 bp):
AATTATTATGCGTAATTTAGTAAGATTTACTATTTAATCGATGAACTTACTAAGCTTTAT
Found at i:39094525 original size:20 final size:20
Alignment explanation
Indices: 39094491--39094528 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
39094481 CTCAATTGGG
**
39094491 GATAATTAATTATTTAATTA
1 GATAATTAAAGATTTAATTA
39094511 GATAATTAAAGATTTAAT
1 GATAATTAAAGATTTAAT
39094529 CGATCACAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (20 bp):
GATAATTAAAGATTTAATTA
Found at i:39096254 original size:6 final size:6
Alignment explanation
Indices: 39096243--39096267 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
39096233 ACTGCCACAA
39096243 CCATCC CCATCC CCATCC CCATCC C
1 CCATCC CCATCC CCATCC CCATCC C
39096268 TAAGGTGGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.68, G:0.00, T:0.16
Consensus pattern (6 bp):
CCATCC
Found at i:39098742 original size:57 final size:57
Alignment explanation
Indices: 39098657--39098780 Score: 153
Period size: 57 Copynumber: 2.2 Consensus size: 57
39098647 AAATGAATAG
* *
39098657 AAATGGAGAAATTGAAAATATTTGGAAATG-ATTAAGGTTTTCTCCAAATTGAAAATGA
1 AAATGGA-AAAATGAAAATATTTGGAAATGAATT-AGGTTTTCTCCAAAATGAAAATGA
* * * *
39098715 AAATGGAAAAATG-AAATCATTTTGAAATGAATTTGGTTTTCTCCAAAATGGAAATGG
1 AAATGGAAAAATGAAAAT-ATTTGGAAATGAATTAGGTTTTCTCCAAAATGAAAATGA
39098772 AAATGGAAA
1 AAATGGAAA
39098781 TGAATGCGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
56 4 0.07
57 44 0.76
58 10 0.17
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (57 bp):
AAATGGAAAAATGAAAATATTTGGAAATGAATTAGGTTTTCTCCAAAATGAAAATGA
Found at i:39119459 original size:17 final size:18
Alignment explanation
Indices: 39119432--39119466 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
39119422 TAAGAGAACT
39119432 TAAATAAATAAAAATAAA
1 TAAATAAATAAAAATAAA
39119450 TAAA-AAATAAAAATAAA
1 TAAATAAATAAAAATAAA
39119467 AAAGGACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (18 bp):
TAAATAAATAAAAATAAA
Found at i:39126100 original size:27 final size:27
Alignment explanation
Indices: 39125860--39126089 Score: 327
Period size: 27 Copynumber: 8.6 Consensus size: 27
39125850 ATACCCTAAA
*
39125860 ATAGGGTAAAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
39125887 ATAGGATAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
* * *
39125914 ATAGGATAAAATGACCGAAATACTCTC
1 ATAGGGTAAAATGACCGAAATACCCCC
**
39125941 ATAGGGTAAAATGACTAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
39125968 ATAGGGTAAAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
**
39125995 ATAGGGTAAAATGACAAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
** *
39126022 ATAGGGTAAAATGACAAAAATA-TCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
39126048 ATAGGGTAAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCCCC
*
39126075 ATAAGGTAAAATGAC
1 ATAGGGTAAAATGAC
39126090 TGTTATACCC
Statistics
Matches: 182, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 23 0.13
27 159 0.87
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.18
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCCCC
Found at i:39141417 original size:6 final size:6
Alignment explanation
Indices: 39141401--39141453 Score: 70
Period size: 6 Copynumber: 8.8 Consensus size: 6
39141391 AAGGCTTCCA
* * *
39141401 AAAATG GAAATG AAAATG AAAATG AAAATG AAAATG GAAATG GAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
*
39141449 GAAAT
1 AAAAT
39141454 TTGCAATCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:39141424 original size:18 final size:18
Alignment explanation
Indices: 39141401--39141453 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
39141391 AAGGCTTCCA
39141401 AAAATGGAAATGAAAATG
1 AAAATGGAAATGAAAATG
*
39141419 AAAATGAAAATGAAAATG
1 AAAATGGAAATGAAAATG
* *
39141437 GAAATGGAAATGGAAAT
1 AAAATGGAAATGAAAAT
39141454 TTGCAATCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
AAAATGGAAATGAAAATG
Found at i:39148254 original size:252 final size:252
Alignment explanation
Indices: 39147809--39148299 Score: 745
Period size: 252 Copynumber: 1.9 Consensus size: 252
39147799 AAGTATGTAT
* * *
39147809 ACCTTATGCACCACAAGAGTGAAACCTTCAATAAGTTCTAAAAGTTTTGTGCAAAAGTTGAGAAA
1 ACCTTATGCACCACAAGAGTGAAACCTTCAATAAGTTCAAAAAGTTTTGTGCAAAAGTGGAAAAA
*
39147874 CAACTAGGTTTAACCATAAAGACACTTCAGTCTGGTCGAGGTGGGGAATATTTATCTAATTAGTT
66 CAACTAGGTTTAACCATAAAGACACTTCAGTCTGGTCGAGGTGGGGAATATTGATCTAATTAGTT
* *
39147939 CTTAGGATACCTCATAGAGAATGTGATTCTATCCCAGTTGATTGCACTGGGCACTCCACAATAGA
131 CTTAGGATACCTCATAGAGAATGTGATTCTATCCCAGTTGACTGCACTAGGCACTCCACAATAGA
* * *
39148004 ATGGCATGGAAGAGAGAAGGAATCAAATGTTATTAGACATGGTACGTTTGATGTTAA
196 ATGACATGGAAGAGAGAAAGAATCAAATGTTATTAAACATGGTACGTTTGATGTTAA
* * * *
39148061 ACCTTATGCACTACAATAGTGAAACC-TCTGATTAGTTCAAAAAGTTTTGTGCAGAAA-TGGAAA
1 ACCTTATGCACCACAAGAGTGAAACCTTC-AATAAGTTCAAAAAGTTTTGTGCA-AAAGTGGAAA
* * * *
39148124 AACAACTAGGTTTACCCATAAAGATACTTCGGTCTGGTTGAGGTGGGGAATATTGATCTAATTAG
64 AACAACTAGGTTTAACCATAAAGACACTTCAGTCTGGTCGAGGTGGGGAATATTGATCTAATTAG
* *
39148189 TTTTTAGGGTACCTCATAGAGAATCG-GATTCTATCCCAGTTGACTGCACTAGGCACTCCACAAT
129 TTCTTAGGATACCTCATAGAGAAT-GTGATTCTATCCCAGTTGACTGCACTAGGCACTCCACAAT
**
39148253 AGAATGATGTGGAAGAGAGAAAGAATCAAATGTTATTAAACATGGTA
193 AGAATGACATGGAAGAGAGAAAGAATCAAATGTTATTAAACATGGTA
39148300 TGTTCAATGT
Statistics
Matches: 215, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
251 2 0.01
252 209 0.97
253 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (252 bp):
ACCTTATGCACCACAAGAGTGAAACCTTCAATAAGTTCAAAAAGTTTTGTGCAAAAGTGGAAAAA
CAACTAGGTTTAACCATAAAGACACTTCAGTCTGGTCGAGGTGGGGAATATTGATCTAATTAGTT
CTTAGGATACCTCATAGAGAATGTGATTCTATCCCAGTTGACTGCACTAGGCACTCCACAATAGA
ATGACATGGAAGAGAGAAAGAATCAAATGTTATTAAACATGGTACGTTTGATGTTAA
Found at i:39153513 original size:27 final size:26
Alignment explanation
Indices: 39153483--39153593 Score: 105
Period size: 28 Copynumber: 4.0 Consensus size: 26
39153473 GATTCAAAAG
*
39153483 TATATATAAAGTCCGCACACTCAGTGC
1 TATATATAAACT-CGCACACTCAGTGC
* *
39153510 TATATAATCAACTCGCACACTTAGTGC
1 TATAT-ATAAACTCGCACACTCAGTGC
* *
39153537 TATATAATCAAACTCGCACAATTAGTGC
1 TATAT-AT-AAACTCGCACACTCAGTGC
* *
39153565 TACATAATCAAACTCGCACACTTAGTGC
1 TATAT-AT-AAACTCGCACACTCAGTGC
39153593 T
1 T
39153594 GTACAATTTA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 26 0.35
28 49 0.65
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (26 bp):
TATATATAAACTCGCACACTCAGTGC
Found at i:39153561 original size:28 final size:28
Alignment explanation
Indices: 39153496--39153618 Score: 167
Period size: 28 Copynumber: 4.4 Consensus size: 28
39153486 ATATAAAGTC
*
39153496 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
39153523 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
39153551 CGCACAATTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
39153579 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
39153608 CGCACACTTAG
1 CGCACACTTAG
39153619 CGCCAATCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 22 0.26
28 47 0.55
29 16 0.19
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:39164941 original size:25 final size:25
Alignment explanation
Indices: 39164886--39164977 Score: 73
Period size: 25 Copynumber: 3.7 Consensus size: 25
39164876 TCTAACCCAT
* * *
39164886 AGCTCATGTGAGCATACCGAGTT-AT
1 AGCTCGTGAGAGCATACCGA-TTCAC
* *
39164911 AACTCGTGAGAGCATACTGA-TCTAC
1 AGCTCGTGAGAGCATACCGATTC-AC
* *
39164936 AGCTCGAGTGAGCATACCGATTCAC
1 AGCTCGTGAGAGCATACCGATTCAC
39164961 AGCTCGT-ATGAGCATAC
1 AGCTCGTGA-GAGCATAC
39164978 ATGTACATGA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
23 1 0.02
25 49 0.94
26 2 0.04
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCGATTCAC
Found at i:39167984 original size:51 final size:51
Alignment explanation
Indices: 39167929--39168212 Score: 265
Period size: 51 Copynumber: 5.6 Consensus size: 51
39167919 GATGAACATG
* * * *
39167929 TGTGTAGTACTGTGTGGAGGCTACTACGTGAATCGATGAATGACGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGACGGTCACA
* * * * * * ** **
39167980 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGACGGTCACA
* * *
39168031 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGACGGTCACA
* * * ***
39168082 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGTTTTGGTCA-A
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA-TGACGGTCACA
*
39168132 GTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA--ACTTGATCACA
1 -TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGAC--GGTCACA
39168183 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
39168213 TATCTAATGA
Statistics
Matches: 187, Mismatches: 38, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
50 39 0.21
51 147 0.79
52 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGACGGTCACA
Found at i:39168101 original size:102 final size:102
Alignment explanation
Indices: 39167925--39168206 Score: 431
Period size: 102 Copynumber: 2.8 Consensus size: 102
39167915 TATCGATGAA
* * *
39167925 CATGTGTGTAGTACTGTGTGGAGGCTACTACGTGAATCGATGAATGACGGTCACATGTGTAGTAC
1 CATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
39167990 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
39168027 CATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
39168092 TAAGTGAAGGCTACTATGTGTACCGAAAAGTTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
* * * *** *
39168129 CAAGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACATGTGTAGTAC
1 CATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
39168193 TATGTGAAGGCTAC
66 TAAGTGAAGGCTAC
39168207 TACGTGTATC
Statistics
Matches: 166, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
101 34 0.20
102 132 0.80
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (102 bp):
CATGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGT
Found at i:39168241 original size:101 final size:102
Alignment explanation
Indices: 39167932--39168251 Score: 288
Period size: 102 Copynumber: 3.1 Consensus size: 102
39167922 GAACATGTGT
* * * ** * *
39167932 GTAGTACTGTGTGGAGGCTACTACGTGAATCGATGAATGACGGTCACATGTGTAGTACTAAGTGA
1 GTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAGTGA
* * * *** ** *
39167997 AGGCTACAATGTGTACCGAGAAGCT-TTGGTCATGTGT
66 AGGCTACTACGTGTACCGAAAAG-TAAAAGTCAAATGG
* ** *
39168034 GTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAGTGA
1 GTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAGTGA
* **** * *
39168099 AGGCTACTATGTGTACCGAAAAGTTTTGGTCAAGTGT
66 AGGCTACTACGTGTACCGAAAAGTAAAAGTCAAATGG
* * *
39168136 GTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACATGTGTAGTACTATGTGA
1 GTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAGTGA
* * *
39168200 AGGCTACTACGTGTATC-TAATGATAAAAGT-AACATGG
66 AGGCTACTACGTGTACCGAAAAG-TAAAAGTCAA-ATGG
39168237 GTAGTACTGTGTGAA
1 GTAGTACTGTGTGAA
39168252 AAACCCCAAA
Statistics
Matches: 191, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
100 5 0.03
101 62 0.32
102 124 0.65
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (102 bp):
GTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAGTGA
AGGCTACTACGTGTACCGAAAAGTAAAAGTCAAATGG
Found at i:39168478 original size:37 final size:38
Alignment explanation
Indices: 39168409--39168481 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
39168399 ATGTGTGGAA
* **
39168409 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
39168447 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
39168482 ATTATTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:39186411 original size:17 final size:17
Alignment explanation
Indices: 39186389--39186421 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39186379 TAGGGGTCGC
39186389 TTGAATTAAATTAATTA
1 TTGAATTAAATTAATTA
*
39186406 TTGAATTAATTTAATT
1 TTGAATTAAATTAATT
39186422 CGATAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
TTGAATTAAATTAATTA
Found at i:39193953 original size:15 final size:16
Alignment explanation
Indices: 39193933--39193962 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39193923 TAACAACTAA
39193933 TATATAAT-TATATTT
1 TATATAATATATATTT
39193948 TATATAATATATATT
1 TATATAATATATATT
39193963 AATTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:39194131 original size:130 final size:130
Alignment explanation
Indices: 39193898--39194140 Score: 273
Period size: 130 Copynumber: 1.9 Consensus size: 130
39193888 AGGTTTTTAA
* ** *
39193898 TTTTTATTTTTAATAAATAGGATACTAACAACTAATATATAATTATATTTTATATAATATATATT
1 TTTTTATTTTTAATAAATAAGATAAAAACAAATAATATATAATTATATTTTATAT-ATATATATT
* *
39193963 AATTGTTATTAACCTTTTATAATATTAGAATTGTTAA-TTATT-TTATCATTATTCTACCTAAGA
65 AATTGTTATTAACCTTTTATAACATTAGAATAGTTAATTTATTATTATCATTATTCTACCTAAGA
39194026 G
130 G
* *
39194027 TTTTTATTTTTAAATAAATAAGATAAAAATAAATAATATATTAA-TATATTTT-TAT-TCTATAT
1 TTTTTATTTTT-AATAAATAAGATAAAAACAAATAATATA-TAATTATATTTTATATATATATAT
** * *
39194089 TAATTGTTATT-TTCTTTATATAGCATTAAGAGTAGTACTAATTTATTATTAT
64 TAATTGTTATTAACCTTT-TATAACATT-AGAATAGT--TAATTTATTATTAT
39194141 TTTCCTTTAG
Statistics
Matches: 94, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
126 4 0.04
127 24 0.26
128 6 0.06
129 14 0.15
130 34 0.36
131 8 0.09
132 4 0.04
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (130 bp):
TTTTTATTTTTAATAAATAAGATAAAAACAAATAATATATAATTATATTTTATATATATATATTA
ATTGTTATTAACCTTTTATAACATTAGAATAGTTAATTTATTATTATCATTATTCTACCTAAGAG
Found at i:39207880 original size:45 final size:45
Alignment explanation
Indices: 39207802--39207935 Score: 173
Period size: 45 Copynumber: 3.0 Consensus size: 45
39207792 TATTCGTCCG
* *
39207802 ATTCATGATGCCATTAAAGTCTTTTAGCTATGGTCTTACTCGTTACA
1 ATTCATGATGCCA-TAACGTCTTTCAGCTATGGTCTTACTCGTTA-A
* * *
39207849 A-TCATGATACCATAACGTCTTTCAGTTATGGTCTTACTCATTAA
1 ATTCATGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTTAA
*
39207893 ATTCATGATGCCATAACGTTTTTC-GACTATGGTCTTACTCGTT
1 ATTCATGATGCCATAACGTCTTTCAG-CTATGGTCTTACTCGTT
39207936 TTTGGTATGA
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
44 3 0.04
45 62 0.82
46 10 0.13
47 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.40
Consensus pattern (45 bp):
ATTCATGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGTTAA
Found at i:39209445 original size:24 final size:24
Alignment explanation
Indices: 39209418--39209466 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
39209408 GGAACACATT
39209418 GCCTTTATTTAAATGTTTTTTTAG
1 GCCTTTATTTAAATGTTTTTTTAG
39209442 GCCTTTATTTAAATGTTTTTTTAG
1 GCCTTTATTTAAATGTTTTTTTAG
39209466 G
1 G
39209467 AACATGCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.57
Consensus pattern (24 bp):
GCCTTTATTTAAATGTTTTTTTAG
Found at i:39213164 original size:13 final size:13
Alignment explanation
Indices: 39213143--39213177 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
39213133 CTCAAATTTT
*
39213143 TCAACAGCACTTC
1 TCAAAAGCACTTC
*
39213156 TCAAAAGCACTTT
1 TCAAAAGCACTTC
39213169 TCAAAAGCA
1 TCAAAAGCA
39213178 ATAAAGAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.23
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:39214845 original size:5 final size:5
Alignment explanation
Indices: 39214835--39214865 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
39214825 GTTATAACTT
39214835 ATATA ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA A
39214866 GTGTAGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:39215540 original size:5 final size:5
Alignment explanation
Indices: 39215530--39215580 Score: 102
Period size: 5 Copynumber: 10.2 Consensus size: 5
39215520 GAGATGGAAT
39215530 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA
39215580 T
1 T
39215581 ATATTTGTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (5 bp):
TCGAA
Found at i:39216411 original size:30 final size:31
Alignment explanation
Indices: 39216351--39216411 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
39216341 GGGAGGGGAG
* * *
39216351 GGGAGGGGAGTAAAAGTTTTGGGGGTAAAGT
1 GGGAGGGGAGTAAAAATTTTGGGAGAAAAGT
39216382 GGGA-GGGAGTAAAAATTTTGGGAGAAAAGT
1 GGGAGGGGAGTAAAAATTTTGGGAGAAAAGT
39216412 AAAAAGGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.44, T:0.21
Consensus pattern (31 bp):
GGGAGGGGAGTAAAAATTTTGGGAGAAAAGT
Found at i:39216475 original size:9 final size:9
Alignment explanation
Indices: 39216461--39216497 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
39216451 TATAATTTGA
39216461 TATTCGAAT
1 TATTCGAAT
39216470 TATTCGAAT
1 TATTCGAAT
*
39216479 TATTTGAAT
1 TATTCGAAT
39216488 TATTCGAAT
1 TATTCGAAT
39216497 T
1 T
39216498 CAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:39225987 original size:61 final size:59
Alignment explanation
Indices: 39225917--39226094 Score: 155
Period size: 61 Copynumber: 2.9 Consensus size: 59
39225907 TTGTTAAATT
39225917 ATATTTAATAATAATTATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGA
1 ATATTTAATAATAA-TATTTTATA-TATTATATATTATGATTTTAGTAAATTCATATAAGA
* * * * ** * * * *
39225978 ATATTTAATACTAAGAATTTTATTAAATTATATATTTTTG-TTAAATTATATTTA-ATAATA
1 ATATTTAATAATAA-TATTTTA-TATATTATATA-TTATGATTTTAGTAAATTCATATAAGA
* * *
39226038 ATTATTTTA-AATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCATATA
1 A-TATTTAATAATAATATTTTAT-ATATTATATATTATGATTTTAGTAAATTCATATA
39226095 TTTTATCAAA
Statistics
Matches: 88, Mismatches: 23, Indels: 13
0.71 0.19 0.10
Matches are distributed among these distances:
58 4 0.05
59 24 0.27
60 12 0.14
61 42 0.48
62 6 0.07
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (59 bp):
ATATTTAATAATAATATTTTATATATTATATATTATGATTTTAGTAAATTCATATAAGA
Found at i:39226047 original size:26 final size:25
Alignment explanation
Indices: 39226009--39226067 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
39225999 ATTAAATTAT
*
39226009 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
39226035 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
39226061 ATATTAT
1 ATATTAT
39226068 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:39226066 original size:15 final size:15
Alignment explanation
Indices: 39226022--39226077 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
39226012 TTTTTGTTAA
*
39226022 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
39226037 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
39226048 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
39226063 ATTATATATTATAAT
1 ATTATATTTTATAAT
39226078 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:39226095 original size:41 final size:40
Alignment explanation
Indices: 39225932--39226117 Score: 122
Period size: 41 Copynumber: 4.6 Consensus size: 40
39225922 TAATAATAAT
* *
39225932 TATTTTATAGTATTATATATTATGATTTTAGTAAATTCATA
1 TATTTTATAATATTATATATTATAATTTTAGTAAATT-ATA
* * * *
39225973 TA----AGAATATT-TAATACTAAGAATTTTATTAAATTATA
1 TATTTTATAATATTAT-ATA-TTATAATTTTAGTAAATTATA
* **
39226010 TATTTTTGTTAA-ATTATAT-TTAATAATAATTATTTTAAA-T-TA
1 TA-TTTT-ATAATATTATATATT-ATAAT--TT-TAGTAAATTATA
39226052 TATTTTATAATATTATATATTATAATTTTAGTAAATTCATA
1 TATTTTATAATATTATATATTATAATTTTAGTAAATT-ATA
39226093 TATTTTATCAA-ATTATATATTATAA
1 TATTTTAT-AATATTATATATTATAA
39226118 AAAATATATA
Statistics
Matches: 112, Mismatches: 14, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
36 1 0.01
37 14 0.12
38 19 0.17
39 3 0.03
40 4 0.04
41 46 0.41
42 13 0.12
43 6 0.05
44 6 0.05
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (40 bp):
TATTTTATAATATTATATATTATAATTTTAGTAAATTATA
Found at i:39226099 original size:18 final size:17
Alignment explanation
Indices: 39226070--39226113 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
39226060 AATATTATAT
39226070 ATTATA-ATTTTAGT-AA
1 ATTATATATTTTA-TCAA
39226086 ATTCATATATTTTATCAA
1 ATT-ATATATTTTATCAA
39226104 ATTATATATT
1 ATTATATATT
39226114 ATAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 11 0.44
18 11 0.44
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (17 bp):
ATTATATATTTTATCAA
Found at i:39226318 original size:39 final size:40
Alignment explanation
Indices: 39226275--39226379 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
39226265 TTCCATTATG
39226275 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
39226314 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
39226359 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
39226380 ACACCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:39226373 original size:45 final size:44
Alignment explanation
Indices: 39226273--39226382 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
39226263 TTTTCCATTA
39226273 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
39226312 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
39226357 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
39226383 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:39226382 original size:16 final size:16
Alignment explanation
Indices: 39226361--39226430 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
39226351 TTGATTTGCT
*
39226361 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
39226377 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
*
39226393 ATTACACCTTTAATCC
1 ATTACACCTCTAATCC
*
39226409 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
39226425 AATACA
1 ATTACA
39226431 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.33, C:0.34, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:39241901 original size:40 final size:40
Alignment explanation
Indices: 39241871--39242080 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
39241861 GGACTAAGAT
* * * **
39241871 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
39241911 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
39241951 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
39241991 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
39242031 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
39242070 CCGAAGGCATT
1 CCGAAGGCATT
39242081 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:39249847 original size:40 final size:40
Alignment explanation
Indices: 39249817--39250026 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
39249807 GGACTAAGAT
* * * **
39249817 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
39249857 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
39249897 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
39249937 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
* ** * * *
39249977 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
39250016 CCGAAGGCATT
1 CCGAAGGCATT
39250027 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
Found at i:39255750 original size:19 final size:19
Alignment explanation
Indices: 39255726--39255769 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
39255716 ATTTTGAAGT
*
39255726 TGAAAATACA-TGTTTGTTA
1 TGAAAA-ACAGTGTTTATTA
*
39255745 TGAAAAACAGTGTTTATTG
1 TGAAAAACAGTGTTTATTA
39255764 TGAAAA
1 TGAAAA
39255770 CTTATTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (19 bp):
TGAAAAACAGTGTTTATTA
Found at i:39256341 original size:27 final size:27
Alignment explanation
Indices: 39256309--39256387 Score: 149
Period size: 27 Copynumber: 2.9 Consensus size: 27
39256299 GTACAATATA
39256309 TGTGGCAAAGCCACCAGTAACAGTAAT
1 TGTGGCAAAGCCACCAGTAACAGTAAT
39256336 TGTGGCAAAGCCACCAGTAACAGTAAT
1 TGTGGCAAAGCCACCAGTAACAGTAAT
*
39256363 TGTGGCAAAACCACCAGTAACAGTA
1 TGTGGCAAAGCCACCAGTAACAGTA
39256388 CTTTCTCCAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.18
Consensus pattern (27 bp):
TGTGGCAAAGCCACCAGTAACAGTAAT
Found at i:39256586 original size:26 final size:26
Alignment explanation
Indices: 39256557--39256608 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
39256547 ACGGTCATTC
* *
39256557 TACCCTTCGGGGGTATTTCGATAATT
1 TACCCATCGAGGGTATTTCGATAATT
39256583 TACCCATCGAGGGTATTTCGATAATT
1 TACCCATCGAGGGTATTTCGATAATT
39256609 AAGGCCCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (26 bp):
TACCCATCGAGGGTATTTCGATAATT
Found at i:39263016 original size:20 final size:19
Alignment explanation
Indices: 39262991--39263032 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
39262981 TTTAAAGTTG
39262991 AAAATACGTGTTTGTTATGA
1 AAAATA-GTGTTTGTTATGA
*
39263011 AAAATAGTGTTTGTTGTGA
1 AAAATAGTGTTTGTTATGA
39263030 AAA
1 AAA
39263033 CTTATTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.21, T:0.38
Consensus pattern (19 bp):
AAAATAGTGTTTGTTATGA
Found at i:39263387 original size:33 final size:34
Alignment explanation
Indices: 39263315--39263387 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 34
39263305 CGACCCCTTT
* *
39263315 CAGTATCAGTGTGGGCCTCAGCCCAATATAATTTA
1 CAGTATCAGTGCGGGCCTCAGCCCAATATAA-TAA
*
39263350 -AGTAT-AGTGCGGGCCTTAGCCCAATATAGA-AA
1 CAGTATCAGTGCGGGCCTCAGCCCAATATA-ATAA
39263382 CAGTAT
1 CAGTAT
39263388 GGGCCTAAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
32 1 0.03
33 26 0.79
34 6 0.18
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTGCGGGCCTCAGCCCAATATAATAA
Found at i:39263552 original size:26 final size:26
Alignment explanation
Indices: 39263517--39263566 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
39263507 TCCACACACC
* *
39263517 AATATTGCAGCAGAGTTGCCAGTAAT
1 AATATCGCAGCAGAGCTGCCAGTAAT
*
39263543 AATATCGCAGTAGAGCTGCCAGTA
1 AATATCGCAGCAGAGCTGCCAGTA
39263567 GAGTATGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (26 bp):
AATATCGCAGCAGAGCTGCCAGTAAT
Found at i:39267461 original size:28 final size:28
Alignment explanation
Indices: 39267429--39267484 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
39267419 TAACACAGAG
39267429 TAAGCATTTAAGCTTAGTAAGTTCATAT
1 TAAGCATTTAAGCTTAGTAAGTTCATAT
*
39267457 TAAGCATTTAGGCTTAGTAAGTTCATAT
1 TAAGCATTTAAGCTTAGTAAGTTCATAT
39267485 AACATAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (28 bp):
TAAGCATTTAAGCTTAGTAAGTTCATAT
Found at i:39267908 original size:25 final size:25
Alignment explanation
Indices: 39267880--39267952 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
39267870 GTTTGCTCTC
**
39267880 CCAAGCTGAATAATGGTAAGCTCCT
1 CCAAGCTGAATAACAGTAAGCTCCT
*
39267905 CCAAGCTGAATAACAGTAAGCTCAT
1 CCAAGCTGAATAACAGTAAGCTCCT
* * * *
39267930 ACGAGCTGAGTATCAGTAAGCTC
1 CCAAGCTGAATAACAGTAAGCTC
39267953 ATAAGAGCTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (25 bp):
CCAAGCTGAATAACAGTAAGCTCCT
Found at i:39267953 original size:25 final size:25
Alignment explanation
Indices: 39267908--39267964 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
39267898 AGCTCCTCCA
*
39267908 AGCTGAATAACAGTAAGCTCATACG
1 AGCTGAATAACAGTAAGCTCATAAG
* *
39267933 AGCTGAGTATCAGTAAGCTCATAAG
1 AGCTGAATAACAGTAAGCTCATAAG
39267958 AGCTGAA
1 AGCTGAA
39267965 ATCGGTAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.21
Consensus pattern (25 bp):
AGCTGAATAACAGTAAGCTCATAAG
Found at i:39273837 original size:39 final size:40
Alignment explanation
Indices: 39273633--39273853 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
39273623 TTGAATGCTG
* * * * * *
39273633 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
39273673 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
39273713 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
39273753 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
39273793 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
39273832 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
39273854 CTTGAACGAG
Statistics
Matches: 159, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:39273875 original size:79 final size:80
Alignment explanation
Indices: 39273708--39273890 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 80
39273698 GTGCGAGATA
* * *
39273708 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
39273773 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
39273788 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
39273852 CACTT-GAACGAGGAG
66 CA-TTCGAACGAGGAG
* * *
39273867 CTATATCC-GGTTAAATTCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
39273891 TACGTGATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 13 0.15
79 44 0.51
80 29 0.34
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:39281706 original size:39 final size:40
Alignment explanation
Indices: 39281502--39281722 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
39281492 TTGAATGCTG
* * * * * *
39281502 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
39281542 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
39281582 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
39281622 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
39281662 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
39281701 ACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
39281723 CTTGAACGAG
Statistics
Matches: 159, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:39281744 original size:79 final size:80
Alignment explanation
Indices: 39281577--39281759 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 80
39281567 GTGCGAGATA
* * *
39281577 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
39281642 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
39281657 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
39281721 CACTT-GAACGAGGAG
66 CA-TTCGAACGAGGAG
* * *
39281736 CTATATCC-GGTTAAATTCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
39281760 TACGTGATTT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
78 13 0.15
79 44 0.51
80 29 0.34
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:39288354 original size:26 final size:28
Alignment explanation
Indices: 39288318--39288371 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
39288308 CAGTAACAGT
39288318 ACAATGTGGG-CTTAG-CCAATACAATA
1 ACAATGTGGGCCTTAGCCCAATACAATA
39288344 ACAATGTGGGCCTTAGCCCAATACAATA
1 ACAATGTGGGCCTTAGCCCAATACAATA
39288372 TCAGTACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 10 0.38
27 5 0.19
28 11 0.42
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (28 bp):
ACAATGTGGGCCTTAGCCCAATACAATA
Found at i:39288381 original size:33 final size:29
Alignment explanation
Indices: 39288314--39288383 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 29
39288304 TATTCAGTAA
39288314 CAGTACAATGTGGGCTTAGCCAATACAAT
1 CAGTACAATGTGGGCTTAGCCAATACAAT
39288343 -A--ACAATGTGGGCCTTAGCCCAATACAATAT
1 CAGTACAATGTGGG-CTTAG-CCAATAC-A-AT
39288373 CAGTACAATGT
1 CAGTACAATGT
39288384 AGTAATGCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
26 10 0.29
27 5 0.15
28 8 0.24
29 1 0.03
30 2 0.06
31 1 0.03
33 7 0.21
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (29 bp):
CAGTACAATGTGGGCTTAGCCAATACAAT
Found at i:39289961 original size:16 final size:17
Alignment explanation
Indices: 39289927--39289962 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
39289917 TTTACACAAA
39289927 ACCAAAATGAAGAGTAT
1 ACCAAAATGAAGAGTAT
*
39289944 ACCAAAATG-AGCGTAT
1 ACCAAAATGAAGAGTAT
39289960 ACC
1 ACC
39289963 CCTCTGGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (17 bp):
ACCAAAATGAAGAGTAT
Found at i:39302461 original size:40 final size:40
Alignment explanation
Indices: 39302431--39302600 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
39302421 GGACTAAGAT
* *
39302431 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
39302471 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
39302511 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * * *
39302551 CCAAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
39302590 CCGAAGGCATT
1 CCGAAGGCATT
39302601 TAAACGAGGA
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.28
40 84 0.72
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:39302515 original size:80 final size:79
Alignment explanation
Indices: 39302378--39302600 Score: 241
Period size: 80 Copynumber: 2.8 Consensus size: 79
39302368 TTGAATGCTG
* * * * * * *
39302378 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
*
39302442 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* *
39302458 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTC
* **
39302523 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * * * * *
39302538 TCCGGGTTATGTCCCAAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATT
39302601 TAAACGAGGA
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 35 0.29
80 82 0.68
81 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:39302620 original size:79 final size:80
Alignment explanation
Indices: 39302455--39302635 Score: 188
Period size: 79 Copynumber: 2.3 Consensus size: 80
39302445 GCGAGATACT
* * * *
39302455 AAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCA
1 AAATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA
*** ** *
39302520 TTCGTGCGAGTTGTT
66 TTCAAACGAGGAGTC
* * *
39302535 AAATCCGGGTTATGTCCCAAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 AAATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA
*
39302599 TTTAAACGAGGAG-C
66 TTCAAACGAGGAGTC
* *
39302613 AATATCC-GGTTAAATCCCGAAGG
1 AA-ATCCGGGTTAAGTCCCAAAGG
39302636 TACGTGATTT
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.18
79 43 0.52
80 25 0.30
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (80 bp):
AAATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA
TTCAAACGAGGAGTC
Found at i:39310451 original size:39 final size:39
Alignment explanation
Indices: 39310247--39310470 Score: 234
Period size: 40 Copynumber: 5.6 Consensus size: 39
39310237 TTGAATGCTG
* * * * * *
39310247 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
39310287 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
*
39310327 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
**
39310367 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
39310407 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
39310446 ACCGGGCTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTG
39310471 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
39 39 0.24
40 114 0.70
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:39317103 original size:33 final size:30
Alignment explanation
Indices: 39317078--39317152 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 30
39317068 CCCTATTCAG
39317078 TAACAGTACAATGTGGGCCTTAGCCCA--A
1 TAACAGTACAATGTGGGCCTTAGCCCATCA
*
39317106 T-ACAATAACAATGTGGGCCTTAGCCCAATACAA
1 TAACAGT-ACAATGTGGGCCTTAGCCC-AT-C-A
*
39317139 TATCAGTACAATGT
1 TAACAGTACAATGT
39317153 AGTAATGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
27 4 0.11
28 20 0.54
29 1 0.03
33 9 0.24
34 3 0.08
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (30 bp):
TAACAGTACAATGTGGGCCTTAGCCCATCA
Found at i:39317125 original size:28 final size:28
Alignment explanation
Indices: 39317085--39317140 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
39317075 CAGTAACAGT
39317085 ACAATGTGGGCCTTAGCCCAATACAATA
1 ACAATGTGGGCCTTAGCCCAATACAATA
39317113 ACAATGTGGGCCTTAGCCCAATACAATA
1 ACAATGTGGGCCTTAGCCCAATACAATA
39317141 TCAGTACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (28 bp):
ACAATGTGGGCCTTAGCCCAATACAATA
Found at i:39317277 original size:26 final size:26
Alignment explanation
Indices: 39317248--39317298 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
39317238 AACACACCAA
*
39317248 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGCAACAG
*
39317274 TATCGTAGCAAAGCTGCCAGCAACA
1 TATCGCAGCAAAGCTGCCAGCAACA
39317299 TTATACTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGCAACAG
Found at i:39318737 original size:17 final size:17
Alignment explanation
Indices: 39318715--39318751 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
39318705 TTTACACAAA
39318715 ACCAAAATGAAG-AGTAT
1 ACCAAAATG-AGCAGTAT
39318732 ACCAAAATGAGCAGTAT
1 ACCAAAATGAGCAGTAT
39318749 ACC
1 ACC
39318752 CCTCTGGTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.49, C:0.19, G:0.16, T:0.16
Consensus pattern (17 bp):
ACCAAAATGAGCAGTAT
Found at i:39324975 original size:17 final size:17
Alignment explanation
Indices: 39324943--39324977 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
39324933 AGACATAATC
* *
39324943 TAAAAATTTTAGGGTTT
1 TAAAAATTTAAAGGTTT
39324960 TAAAAATTTAAAGGTTT
1 TAAAAATTTAAAGGTTT
39324977 T
1 T
39324978 GAAAGGTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (17 bp):
TAAAAATTTAAAGGTTT
Found at i:39335223 original size:17 final size:17
Alignment explanation
Indices: 39335198--39335234 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
39335188 TTCATTTTTG
39335198 TTTTATTTTCTTTTATCA
1 TTTTATTTTCTTTT-TCA
39335216 TTTT-TTTTCTTTTTCA
1 TTTTATTTTCTTTTTCA
39335232 TTT
1 TTT
39335235 CGAAATAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 9 0.47
18 4 0.21
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATTTTCTTTTTCA
Found at i:39341448 original size:6 final size:6
Alignment explanation
Indices: 39341439--39341481 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
39341429 AAAAGGAACG
* *
39341439 AAGAGA AAG-AA AAGAAA GA-AAA AAGAAA AAGAAA AAGAAA AAG
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAG
39341482 GAGAGGCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 8 0.25
6 24 0.75
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:39341808 original size:143 final size:143
Alignment explanation
Indices: 39341549--39341872 Score: 434
Period size: 143 Copynumber: 2.3 Consensus size: 143
39341539 GAAAACCCAA
* * * *
39341549 CCTTATCTCCCTAAAGTTGTAGCAGAGCAAACTGAAGACAGCGAATCTTATTTCCCCGGCATTAC
1 CCTTATCTCCCTAAAGTTGCAGCGGAGCAAACTGAAGACAGCGAATATTAGTTCCCCGGCATTAC
* * * * * **
39341614 AATCGAACAGATTAAAGCTACAAGTTATGACAGATTTTATCTTCCTGAAGTTGTAGTGGATTAGA
66 AATCGAACAGATTAAAGCTACAAATTATGACAAATATTATCTTCCTAAAGTTGCAGTGGAGCAGA
39341679 TTGAAGCCACCAG
131 TTGAAGCCACCAG
* * * * *
39341692 CCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATATTAGTTCCCTGGCGTTGC
1 CCTTATCTCCCTAAAGTTGCAGCGGAGCAAACTGAAGACAGCGAATATTAGTTCCCCGGCATTAC
* * * *
39341757 AGTGGAATACG-TTAAAGCTACAAATTATGGCAAATATTATCTTCCTAAAGTTGCAGTGGAGCAG
66 AATCGAACA-GATTAAAGCTACAAATTATGACAAATATTATCTTCCTAAAGTTGCAGTGGAGCAG
*
39341821 ATTGAAGCCACTAG
130 ATTGAAGCCACCAG
*
39341835 CCTTATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGA
1 CCTTATCTCCCTAAAGTTGCAGCGGAGCAAACTGAAGA
39341873 TAGTGAATCT
Statistics
Matches: 156, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
143 155 0.99
144 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (143 bp):
CCTTATCTCCCTAAAGTTGCAGCGGAGCAAACTGAAGACAGCGAATATTAGTTCCCCGGCATTAC
AATCGAACAGATTAAAGCTACAAATTATGACAAATATTATCTTCCTAAAGTTGCAGTGGAGCAGA
TTGAAGCCACCAG
Found at i:39342583 original size:12 final size:12
Alignment explanation
Indices: 39342566--39342591 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39342556 TGATACTTCA
39342566 TTTTATTTTATT
1 TTTTATTTTATT
39342578 TTTTATTTTATT
1 TTTTATTTTATT
39342590 TT
1 TT
39342592 ATCATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:39342611 original size:15 final size:16
Alignment explanation
Indices: 39342566--39342613 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 16
39342556 TGATACTTCA
**
39342566 TTTTATTTTATTTTTT
1 TTTTATTTTATCATTT
39342582 ATTTTATTTTATCATTT
1 -TTTTATTTTATCATTT
*
39342599 TTTTCTTTT-TCATTT
1 TTTTATTTTATCATTT
39342614 CTGAATAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 6 0.21
16 8 0.29
17 14 0.50
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTATTTTATCATTT
Found at i:39345435 original size:19 final size:19
Alignment explanation
Indices: 39345392--39345450 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
39345382 AGTGAAATAT
* *
39345392 AATGTTATTTACTTCAATAA
1 AATGTTATTTAATT-AATTA
39345412 AATGTTATTTAATTAATTA
1 AATGTTATTTAATTAATTA
39345431 AATGTTATTTAATTAATTA
1 AATGTTATTTAATTAATTA
39345450 A
1 A
39345451 TTTGTGAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
19 24 0.65
20 13 0.35
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (19 bp):
AATGTTATTTAATTAATTA
Found at i:39349854 original size:13 final size:13
Alignment explanation
Indices: 39349836--39349866 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
39349826 TTGCGAAGCT
*
39349836 TACTTTGCCTATG
1 TACTTTGCATATG
39349849 TACTTTGCATATG
1 TACTTTGCATATG
39349862 TACTT
1 TACTT
39349867 GATAGTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.48
Consensus pattern (13 bp):
TACTTTGCATATG
Found at i:39350467 original size:11 final size:11
Alignment explanation
Indices: 39350434--39350466 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
39350424 GTTAAGTTCC
39350434 AGTGTCAGAAA
1 AGTGTCAGAAA
*
39350445 AGTTTCAGAAA
1 AGTGTCAGAAA
39350456 AGTGTCA-AAA
1 AGTGTCAGAAA
39350466 A
1 A
39350467 ATATTCGATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.48, C:0.09, G:0.21, T:0.21
Consensus pattern (11 bp):
AGTGTCAGAAA
Found at i:39352762 original size:27 final size:27
Alignment explanation
Indices: 39352731--39352908 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
39352721 TAAATTGTAC
39352731 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39352758 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
39352784 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39352811 CGACACTAAGTGTGCGAGTTTGACTATGT
1 AG-CACTAAGTGTGCGA-TTTGACTATGT
* *
39352840 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39352867 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39352894 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39352909 GACTCAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 105 0.81
28 22 0.17
29 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39352845 original size:82 final size:81
Alignment explanation
Indices: 39352733--39352887 Score: 231
Period size: 82 Copynumber: 1.9 Consensus size: 81
39352723 AATTGTACAG
* *
39352733 CACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGT
1 CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGT
39352797 GCGAATTGACCATGCGA
65 GCGAATTGACCATGCGA
** *
39352814 CACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGT
1 CACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
*
39352879 GCGAGTTGA
65 GCGAATTGA
39352888 TTATATAGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
CGAATTGACCATGCGA
Found at i:39377103 original size:17 final size:18
Alignment explanation
Indices: 39377081--39377121 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
39377071 CGTTTCTTTT
39377081 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
39377098 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
39377116 T-TTTTG
1 TCTTTTG
39377122 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:39377105 original size:24 final size:25
Alignment explanation
Indices: 39377052--39377105 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
39377042 AACAAATTCT
* *
39377052 TTTTTTCATTTTCATCACTCGTTTC
1 TTTTTTCATTTTAATCACTCGTCTC
39377077 -TTTTTC-TTTTGAATCACTC-TCTC
1 TTTTTTCATTTT-AATCACTCGTCTC
39377100 TTTTTT
1 TTTTTT
39377106 ATCACTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTTTCATTTTAATCACTCGTCTC
Found at i:39379379 original size:14 final size:14
Alignment explanation
Indices: 39379360--39379386 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39379350 CTAGACCGTA
39379360 TGCAATTTTTTTTT
1 TGCAATTTTTTTTT
39379374 TGCAATTTTTTTT
1 TGCAATTTTTTTT
39379387 CCTTCTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.70
Consensus pattern (14 bp):
TGCAATTTTTTTTT
Found at i:39379384 original size:13 final size:14
Alignment explanation
Indices: 39379360--39379440 Score: 57
Period size: 12 Copynumber: 6.1 Consensus size: 14
39379350 CTAGACCGTA
*
39379360 TGCAATTTTTTTTT
1 TGCAACTTTTTTTT
39379374 TGCAA--TTTTTTT
1 TGCAACTTTTTTTT
* **
39379386 TCCTTCTTTTTTTT
1 TGCAACTTTTTTTT
39379400 T-CAGA-TTTTTTTT
1 TGCA-ACTTTTTTTT
*
39379413 TCGAAACTTTTTTTT
1 T-GCAACTTTTTTTT
39379428 T--AACTTTTTTTT
1 TGCAACTTTTTTTT
39379440 T
1 T
39379441 TCGAAGCTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
12 21 0.38
13 10 0.18
14 14 0.25
15 10 0.18
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.70
Consensus pattern (14 bp):
TGCAACTTTTTTTT
Found at i:39379422 original size:28 final size:28
Alignment explanation
Indices: 39379391--39379445 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
39379381 TTTTTTCCTT
* *
39379391 CTTTTTTTTTCAGATTTTTTTTTCGAAA
1 CTTTTTTTTTAACATTTTTTTTTCGAAA
*
39379419 CTTTTTTTTTAACTTTTTTTTTTCGAA
1 CTTTTTTTTTAACATTTTTTTTTCGAA
39379446 GCTACGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.67
Consensus pattern (28 bp):
CTTTTTTTTTAACATTTTTTTTTCGAAA
Found at i:39381517 original size:18 final size:18
Alignment explanation
Indices: 39381496--39381530 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
39381486 TTTTTCTTTT
39381496 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
39381514 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
39381531 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:39385318 original size:19 final size:18
Alignment explanation
Indices: 39385282--39385321 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
39385272 TTTCCACTCG
*
39385282 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
39385300 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
39385319 TTT
1 TTT
39385322 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:39386394 original size:14 final size:14
Alignment explanation
Indices: 39386375--39386426 Score: 90
Period size: 13 Copynumber: 3.9 Consensus size: 14
39386365 TAGCTCTCTC
39386375 TTTTTTTCACAATT
1 TTTTTTTCACAATT
39386389 TTTTTTTCACAA-T
1 TTTTTTTCACAATT
39386402 TTTTTTTCA-AATT
1 TTTTTTTCACAATT
39386415 TTTTTTTCACAA
1 TTTTTTTCACAA
39386427 CTTGATATCC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
12 2 0.06
13 20 0.56
14 14 0.39
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTTTCACAATT
Found at i:39386484 original size:12 final size:12
Alignment explanation
Indices: 39386467--39386510 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
39386457 AAACCAAAAT
39386467 TTTTTTTTTGAA
1 TTTTTTTTTGAA
39386479 TTTTTTTTTGAA
1 TTTTTTTTTGAA
* *
39386491 TTTTTTTTCGAG
1 TTTTTTTTTGAA
39386503 TTTTTTTT
1 TTTTTTTT
39386511 CGAGAAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.77
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:39386664 original size:66 final size:66
Alignment explanation
Indices: 39386582--39386713 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
39386572 GATACCAATT
*
39386582 TGATACGAACTCGTTTTGTGATTGATTCGAGTCGTTAGTGTTTGCTCGATCGTGAATTTGAGTAA
1 TGATACAAACTCGTTTTGTGATTGATTCGAGTCGTTAGTGTTTGCTCGATCGTGAATTTGAGTAA
39386647 G
66 G
39386648 TGATACAAACTCGTTTTGTGATTGATTCGAGTCGTTAGTGTTTGCTCGATCGTGAATTTGAGTAA
1 TGATACAAACTCGTTTTGTGATTGATTCGAGTCGTTAGTGTTTGCTCGATCGTGAATTTGAGTAA
39386713 G
66 G
39386714 GCTAAGTTTG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.22, C:0.12, G:0.27, T:0.39
Consensus pattern (66 bp):
TGATACAAACTCGTTTTGTGATTGATTCGAGTCGTTAGTGTTTGCTCGATCGTGAATTTGAGTAA
G
Found at i:39390247 original size:11 final size:11
Alignment explanation
Indices: 39390233--39390284 Score: 79
Period size: 11 Copynumber: 4.8 Consensus size: 11
39390223 CAACTTGAAT
39390233 TTTTTTTTCGA
1 TTTTTTTTCGA
*
39390244 TTTTTTTTTGA
1 TTTTTTTTCGA
*
39390255 ATTTTTTTCGA
1 TTTTTTTTCGA
39390266 -TTTTTTTCGA
1 TTTTTTTTCGA
39390276 TTTTTTTTC
1 TTTTTTTTC
39390285 ACCAACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
10 10 0.27
11 27 0.73
ACGTcount: A:0.10, C:0.08, G:0.08, T:0.75
Consensus pattern (11 bp):
TTTTTTTTCGA
Found at i:39390249 original size:10 final size:10
Alignment explanation
Indices: 39390234--39390282 Score: 71
Period size: 10 Copynumber: 4.7 Consensus size: 10
39390224 AACTTGAATT
39390234 TTTTTTTCGA
1 TTTTTTTCGA
*
39390244 TTTTTTTTTGAA
1 -TTTTTTTCG-A
39390256 TTTTTTTCGA
1 TTTTTTTCGA
39390266 TTTTTTTCGA
1 TTTTTTTCGA
39390276 TTTTTTT
1 TTTTTTT
39390283 TCACCAACCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
10 18 0.51
11 16 0.46
12 1 0.03
ACGTcount: A:0.10, C:0.06, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTTTCGA
Found at i:39395384 original size:23 final size:22
Alignment explanation
Indices: 39395333--39395384 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
39395323 TCTCGTCTTT
*
39395333 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
39395355 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
39395378 TTCTTTT
1 TTCTTTT
39395385 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:39401099 original size:13 final size:13
Alignment explanation
Indices: 39401029--39401156 Score: 55
Period size: 13 Copynumber: 9.2 Consensus size: 13
39401019 TTGGAGTAAC
*
39401029 AAAAAAAAA-TCA
1 AAAAAAAAAGTGA
**
39401041 AAAAAAAATTTGA
1 AAAAAAAAAGTGA
39401054 AAAAAAAAATTGATTGA
1 AAAAAAAAA--G--TGA
*
39401071 AAAAAAAAA-T-T
1 AAAAAAAAAGTGA
*
39401082 CAAAAAAAAGTGA
1 AAAAAAAAAGTGA
* *
39401095 AAAAAAAATCGAGA
1 AAAAAAAA-AGTGA
39401109 AAAAAAAAAGGTGA
1 AAAAAAAAA-GTGA
* *
39401123 GCAAAAAAAAAATCA
1 --AAAAAAAAAGTGA
39401138 AGTTAAAAAAAAGTGA
1 A---AAAAAAAAGTGA
39401154 AAA
1 AAA
39401157 GTCTTGCGAG
Statistics
Matches: 86, Mismatches: 16, Indels: 27
0.67 0.12 0.21
Matches are distributed among these distances:
11 8 0.09
12 10 0.12
13 20 0.23
14 14 0.16
15 2 0.02
16 20 0.23
17 12 0.14
ACGTcount: A:0.72, C:0.04, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAAAAAAGTGA
Found at i:39401113 original size:16 final size:16
Alignment explanation
Indices: 39401094--39401136 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
39401084 AAAAAAAGTG
39401094 AAAAAAAAATCGAGAA
1 AAAAAAAAATCGAGAA
* *
39401110 AAAAAAAAGGT-GAGCA
1 AAAAAAAA-ATCGAGAA
39401126 AAAAAAAAATC
1 AAAAAAAAATC
39401137 AAGTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.72, C:0.07, G:0.14, T:0.07
Consensus pattern (16 bp):
AAAAAAAAATCGAGAA
Found at i:39402086 original size:15 final size:16
Alignment explanation
Indices: 39402066--39402097 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
39402056 AGAAAATGAA
39402066 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
39402081 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
39402097 A
1 A
39402098 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:39402212 original size:17 final size:18
Alignment explanation
Indices: 39402180--39402213 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39402170 AAAAGAGAGT
*
39402180 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
39402198 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
39402214 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:39404910 original size:11 final size:12
Alignment explanation
Indices: 39404894--39404983 Score: 56
Period size: 12 Copynumber: 6.8 Consensus size: 12
39404884 ATTGGAGTAA
39404894 CAAAAAAAAA-T
1 CAAAAAAAAATT
39404905 CAAAAAAAAATT
1 CAAAAAAAAATT
39404917 CGAAAAAAAAAATTGATT
1 C---AAAAAAAA---ATT
*
39404935 GAAAAAAAAAATT
1 -CAAAAAAAAATT
*
39404948 CAAAAAAAAAGT
1 CAAAAAAAAATT
* *
39404960 GAAAAAAAAAAT
1 CAAAAAAAAATT
39404972 CGAGAAAAAAAA
1 C-A-AAAAAAAA
39404984 AGGTGAGCAA
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
11 10 0.16
12 22 0.35
13 4 0.06
14 8 0.13
15 8 0.13
16 8 0.13
18 3 0.05
ACGTcount: A:0.74, C:0.06, G:0.08, T:0.12
Consensus pattern (12 bp):
CAAAAAAAAATT
Found at i:39404953 original size:42 final size:39
Alignment explanation
Indices: 39404895--39404984 Score: 126
Period size: 42 Copynumber: 2.2 Consensus size: 39
39404885 TTGGAGTAAC
* *
39404895 AAAAAAAAATCAAAAAAAAATTCGAAAAAAAAAATTGATTGA
1 AAAAAAAAATCAAAAAAAAAGT-GAAAAAAAAAATCGA--GA
39404937 AAAAAAAAATTCAAAAAAAAAGTGAAAAAAAAAATCGAGA
1 AAAAAAAAA-TCAAAAAAAAAGTGAAAAAAAAAATCGAGA
39404977 AAAAAAAA
1 AAAAAAAA
39404985 GGTGAGCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
40 10 0.22
42 23 0.51
43 12 0.27
ACGTcount: A:0.76, C:0.04, G:0.08, T:0.12
Consensus pattern (39 bp):
AAAAAAAAATCAAAAAAAAAGTGAAAAAAAAAATCGAGA
Found at i:39404995 original size:15 final size:14
Alignment explanation
Indices: 39404950--39404999 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
39404940 AAAAAATTCA
39404950 AAAAAAAAGTGA--
1 AAAAAAAAGTGAGC
* *
39404962 AAAAAAAAATCGAGA
1 AAAAAAAAGT-GAGC
39404977 AAAAAAAAGGTGAGC
1 AAAAAAAA-GTGAGC
39404992 AAAAAAAA
1 AAAAAAAA
39405000 ATCAAGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 9 0.29
13 2 0.06
15 19 0.61
16 1 0.03
ACGTcount: A:0.74, C:0.04, G:0.16, T:0.06
Consensus pattern (14 bp):
AAAAAAAAGTGAGC
Found at i:39405953 original size:15 final size:16
Alignment explanation
Indices: 39405933--39405964 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
39405923 AGAAAATGAA
39405933 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
39405948 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
39405964 A
1 A
39405965 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:39406079 original size:17 final size:18
Alignment explanation
Indices: 39406047--39406080 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39406037 AAAAGAGAGT
*
39406047 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
39406065 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
39406081 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:39409610 original size:52 final size:52
Alignment explanation
Indices: 39409532--39409632 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
39409522 CATGCACATA
* *
39409532 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTACTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTACTGTCCATTATTG
*
39409584 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTACTGTCCATTA
39409633 CGTTGCCTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTACTGTCCATTATTG
Found at i:39415254 original size:17 final size:18
Alignment explanation
Indices: 39415232--39415265 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39415222 ACAACACTCC
*
39415232 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
39415249 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
39415266 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.35, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTTCCTTCAATCTCG
Found at i:39416302 original size:10 final size:9
Alignment explanation
Indices: 39416289--39416324 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
39416279 CTTTTCACTT
39416289 TTTTTTGTTC
1 TTTTTT-TTC
39416299 TTTTTTTTAC
1 TTTTTTTT-C
39416309 TTTTTTTTC
1 TTTTTTTTC
39416318 TTTTTTT
1 TTTTTTT
39416325 GCTCACTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.40
10 15 0.60
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:39416310 original size:22 final size:21
Alignment explanation
Indices: 39416280--39416344 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
39416270 CTCACAAGAC
*
39416280 TTTTCACTTTTTTTTGTTCTTT
1 TTTTCACTTTTTTTTCTT-TTT
*
39416302 TTTTTACTTTTTTTTCTTTTT
1 TTTTCACTTTTTTTTCTTTTT
* *
39416323 TTGCTCACTTCTTTTT-TTTTT
1 TT-TTCACTTTTTTTTCTTTTT
39416344 T
1 T
39416345 GAATTTCGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 11 0.30
22 26 0.70
ACGTcount: A:0.05, C:0.14, G:0.03, T:0.78
Consensus pattern (21 bp):
TTTTCACTTTTTTTTCTTTTT
Done.