Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 163 of 226
Found at i:50393324 original size:88 final size:88
Alignment explanation
Indices: 50393198--50393851 Score: 801
Period size: 88 Copynumber: 7.4 Consensus size: 88
50393188 GTTGGGGTTA
*
50393198 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
50393263 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTAGTGTCT
* *
50393286 TCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTGAACCTACTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
50393351 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTAGTGTCT
**
50393374 TCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
50393439 CCAGGGAGGCAAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTAGTGTCT
* * * * * * * *
50393462 TCAATCAGCTTCACTGTCAGTACAGGAAGGCAAGATTTGCTATCTTTAACCTGCTCCGCTGCCAT
1 TCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* * * *
50393527 CGAGAGAGGCAAGGCTACTGCCT
66 CCAGGGAGGCAAGGCTAGTGTCT
* * * * ** * * * *
50393550 TCAATCTACTTCACTGTTAGTATAGGAAGGCAAGATTTGCTATCTTTAACCTGCTTCGCTGCCAC
1 TCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
* *
50393615 CTAGGGAGGCAAGGTTAGTGTCT
66 CCAGGGAGGCAAGGCTAGTGTCT
* ** * * ** * * * *
50393638 TCGATCTAC-TC-CACT-ACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCTGCTGCA
1 TCGATCTGCTTCGCTGTCAGTGC--AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCA
*
50393700 ACCCAGGGAGGCAAGGCTGGTGTCT
64 ACCCAGGGAGGCAAGGCTAGTGTCT
* * * *
50393725 TTGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGTAAC
1 TCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
*
50393790 CTAGGGAGGCAAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTAGTGTCT
* * * *
50393813 TCGATCTACTTCACTGTCGGTGTAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTG
50393852 TTATCTTCAC
Statistics
Matches: 486, Mismatches: 75, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
85 2 0.00
86 2 0.00
87 60 0.12
88 418 0.86
89 2 0.00
90 2 0.00
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
CCAGGGAGGCAAGGCTAGTGTCT
Found at i:50393733 original size:351 final size:352
Alignment explanation
Indices: 50393221--50393858 Score: 969
Period size: 351 Copynumber: 1.8 Consensus size: 352
50393211 CTGTCGGTGC
* *
50393221 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCT
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCT
* ** * * * *
50393286 TCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTGAACCTACTCCGCTGCAAC
66 TCGATCTACTTCGCACTCACTGCAGGAAGACAAGATCTGCAATTTTCAACCTACTCCGCTGCAAC
* *
50393351 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTGGTGCAGGAAGGCAAGATCTGCTA
131 CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTA
50393416 TTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATC-AGCTTCACTGTC
196 TTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTA-CTTCACTGTC
*
50393480 AGTACAGGAAGGCAAGATTTGCTATCTTTAACCTGCTCCGCTGCCATCGAGAGAGGCAAGGCTAC
260 AGTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCATCGAGAGAGGCAAGGCTAC
50393545 TGCCTTCAATCTACTTCACTGTTAGTAT
325 TGCCTTCAATCTACTTCACTGTTAGTAT
* * * * *
50393573 AGGAAGGCAAGATTTGCTATCTTTAACCTGCTTCGCTGCCACCTAGGGAGGCAAGGTTAGTGTCT
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCT
* * *
50393638 TCGATCTAC-TC-CACT-ACTGCTTAGGGAGATAAGATCTGCAATTTTCAACCTACTCTGCTGCA
66 TCGATCTACTTCGCACTCACTGC--AGGAAGACAAGATCTGCAATTTTCAACCTACTCCGCTGCA
*
50393700 ACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGC
129 ACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGC
* * *
50393765 TATTTTTAACCTGCTCCGCTGTAACCTAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTCACTGT
194 TATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTACTTCACTGT
* ** *
50393830 CGGTGTAGGAAGGCAAGATCTGTTATCTT
259 CAGTACAGGAAGGCAAGATCTGCTATCTT
50393859 CACTGATCTA
Statistics
Matches: 255, Mismatches: 28, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
349 4 0.02
350 2 0.01
351 182 0.71
352 67 0.26
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (352 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCT
TCGATCTACTTCGCACTCACTGCAGGAAGACAAGATCTGCAATTTTCAACCTACTCCGCTGCAAC
CCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTA
TTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCAATCTACTTCACTGTCA
GTACAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCGCTGCCATCGAGAGAGGCAAGGCTACT
GCCTTCAATCTACTTCACTGTTAGTAT
Found at i:50414099 original size:19 final size:18
Alignment explanation
Indices: 50414064--50414099 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
50414054 TCTTACTACA
*
50414064 GTTTTCAGTTTCACTATT
1 GTTTTCAGTTACACTATT
50414082 GTTTTCAGTATACACTAT
1 GTTTTCAGT-TACACTAT
50414100 CTACAGTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (18 bp):
GTTTTCAGTTACACTATT
Found at i:50420452 original size:18 final size:21
Alignment explanation
Indices: 50420423--50420466 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
50420413 AAAAATAATA
50420423 AAAATAATTTTT-AAAATTC-
1 AAAATAATTTTTAAAAATTCT
50420442 AAAAT-ATTTTTAAAAATTCT
1 AAAATAATTTTTAAAAATTCT
50420462 AAAAT
1 AAAAT
50420467 TTATATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.26
19 12 0.52
20 5 0.22
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAATAATTTTTAAAAATTCT
Found at i:50420468 original size:18 final size:17
Alignment explanation
Indices: 50420428--50420468 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
50420418 TAATAAAAAT
50420428 AATTTTTAAAATTCAAA
1 AATTTTTAAAATTCAAA
*
50420445 ATATTTTTAAAAATTCTAA
1 A-ATTTTT-AAAATTCAAA
50420464 AATTT
1 AATTT
50420469 ATATTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 10 0.48
19 10 0.48
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTTTAAAATTCAAA
Found at i:50423778 original size:57 final size:57
Alignment explanation
Indices: 50423690--50423797 Score: 207
Period size: 57 Copynumber: 1.9 Consensus size: 57
50423680 TTCAATCAAG
*
50423690 CCAAACCCTAACTTGTGGATGATGAAGGTGATTGTGGGAATGGTCTCAGACATCGAA
1 CCAAACCCTAACTTGTGGATGATGAAGGTGATGGTGGGAATGGTCTCAGACATCGAA
50423747 CCAAACCCTAACTTGTGGATGATGAAGGTGATGGTGGGAATGGTCTCAGAC
1 CCAAACCCTAACTTGTGGATGATGAAGGTGATGGTGGGAATGGTCTCAGAC
50423798 GAAGTTTTTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (57 bp):
CCAAACCCTAACTTGTGGATGATGAAGGTGATGGTGGGAATGGTCTCAGACATCGAA
Found at i:50429351 original size:29 final size:30
Alignment explanation
Indices: 50429319--50429385 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
50429309 GAAAAATGCC
*
50429319 TCAATTGAACCCTCA-A-TAATGAAAATAA
1 TCAATTGAACCCTCATATTAATAAAAATAA
**
50429347 TTCAATTGGCCCCTCATATTAATAAAAATAA
1 -TCAATTGAACCCTCATATTAATAAAAATAA
50429378 TCAATTGA
1 TCAATTGA
50429386 CCAATTTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 13 0.41
30 8 0.25
31 11 0.34
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (30 bp):
TCAATTGAACCCTCATATTAATAAAAATAA
Found at i:50429378 original size:31 final size:28
Alignment explanation
Indices: 50429280--50429385 Score: 81
Period size: 29 Copynumber: 3.6 Consensus size: 28
50429270 TGTCTTCGGT
*
50429280 ATAAAAAAAATCAATT-AAGCCCTC-ATA
1 ATAAAAATAATCAATTGAA-CCCTCAATA
* **
50429307 AGGAAAAATGCCTCAATTGAACCCTCAATA
1 A-TAAAAAT-AATCAATTGAACCCTCAATA
* **
50429337 ATGAAAATAATTCAATTGGCCCCTCATATTA
1 ATAAAAATAA-TCAATTGAACCCTCA-A-TA
50429368 ATAAAAATAATCAATTGA
1 ATAAAAATAATCAATTGA
50429386 CCAATTTGAT
Statistics
Matches: 60, Mismatches: 12, Indels: 11
0.72 0.14 0.13
Matches are distributed among these distances:
27 1 0.02
28 5 0.08
29 29 0.48
30 14 0.23
31 11 0.18
ACGTcount: A:0.48, C:0.18, G:0.08, T:0.25
Consensus pattern (28 bp):
ATAAAAATAATCAATTGAACCCTCAATA
Found at i:50432022 original size:21 final size:21
Alignment explanation
Indices: 50431996--50432036 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50431986 ATCTGCTCAA
* *
50431996 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
50432017 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
50432037 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:50440646 original size:7 final size:8
Alignment explanation
Indices: 50440627--50440654 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
50440617 ATTATTCTAT
50440627 TTTTTTAA
1 TTTTTTAA
50440635 TTTTTTAA
1 TTTTTTAA
50440643 TTTTTTAA
1 TTTTTTAA
50440651 TTTT
1 TTTT
50440655 ATTTATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTAA
Found at i:50440666 original size:21 final size:20
Alignment explanation
Indices: 50440624--50440692 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
50440614 ATTATTATTC
*
50440624 TATTTTTTTAAT-TTTT-TA
1 TATTTTTTAAATCTTTTATA
* *
50440642 -ATTTTTTAATTTTATTTATA
1 TATTTTTTAAATCT-TTTATA
50440662 TATTTTTTAGAATCTTTTATA
1 TATTTTTTA-AATCTTTTATA
50440683 T-TTTTTTAAA
1 TATTTTTTAAA
50440693 ATATAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
17 9 0.21
18 1 0.02
19 5 0.12
20 9 0.21
21 15 0.36
22 3 0.07
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.70
Consensus pattern (20 bp):
TATTTTTTAAATCTTTTATA
Found at i:50440872 original size:16 final size:16
Alignment explanation
Indices: 50440851--50440881 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50440841 AATTGTAAAA
50440851 TTCAACTCAATTCAAC
1 TTCAACTCAATTCAAC
50440867 TTCAACTCAATTCAA
1 TTCAACTCAATTCAA
50440882 ACTCGAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.29, G:0.00, T:0.32
Consensus pattern (16 bp):
TTCAACTCAATTCAAC
Found at i:50443780 original size:14 final size:14
Alignment explanation
Indices: 50443746--50443782 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
50443736 TTTAATTAAT
*
50443746 TATAATCAATTTAG
1 TATAATTAATTTAG
50443760 TATAATTAATTTAG
1 TATAATTAATTTAG
50443774 TATAATTAA
1 TATAATTAA
50443783 AGTATACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (14 bp):
TATAATTAATTTAG
Found at i:50445844 original size:21 final size:22
Alignment explanation
Indices: 50445809--50445861 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
50445799 ATTTGATCTG
50445809 AAAAGAAGAAA---AAAATAGT
1 AAAAGAAGAAATTGAAAATAGT
*
50445828 AATA-AAGAAATTGAAAATAGT
1 AAAAGAAGAAATTGAAAATAGT
50445849 AAAAGAAGAAATT
1 AAAAGAAGAAATT
50445862 TGAGATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 6 0.21
19 3 0.11
21 11 0.39
22 8 0.29
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (22 bp):
AAAAGAAGAAATTGAAAATAGT
Found at i:50447353 original size:39 final size:40
Alignment explanation
Indices: 50447251--50447358 Score: 116
Period size: 39 Copynumber: 2.7 Consensus size: 40
50447241 GCGTTTGTAC
* *
50447251 AAAAAGCGCCGCTAAAAATCGAGCATTAGCGGCGCCTTACG
1 AAAAAGCGCCGCT-AAAATCGAGCATTAGCAGCGCCTTACA
* * *
50447292 TAAAA-CG-CACTAAAGATCGAGCATTAGCAGCG-CTTTCA
1 AAAAAGCGCCGCTAAA-ATCGAGCATTAGCAGCGCCTTACA
50447330 AAAAAGCGCCGCTAAAA-CTGAGCATTAGC
1 AAAAAGCGCCGCTAAAATC-GAGCATTAGC
50447359 GGCGTTTTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
38 12 0.21
39 32 0.57
40 8 0.14
41 4 0.07
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (40 bp):
AAAAAGCGCCGCTAAAATCGAGCATTAGCAGCGCCTTACA
Found at i:50447499 original size:41 final size:41
Alignment explanation
Indices: 50447424--50447576 Score: 193
Period size: 41 Copynumber: 3.7 Consensus size: 41
50447414 CCTTTCGGGG
* * *
50447424 CTTTAGCGGCGTTTTTAAAAAAAGCGTCGCTAATGCTCAAAT
1 CTTTAGCGGCGTTTTT-TAAAAAGCGCCGCTAATGCTCAGAT
*
50447466 CTTTAGTGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGAT
* * * *
50447507 CTTTAGCGTCG-TTTCTAGAAAAGCGCCGCTAATGCTCGGGGT
1 CTTTAGCGGCGTTTTTTA-AAAAGCGCCGCTAATGCTC-AGAT
50447549 -TTTAGCGGCGTTTTTTAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTTAAAAAGCGCCGC
50447577 AAAATCATTT
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
40 5 0.05
41 70 0.72
42 22 0.23
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGAT
Found at i:50448009 original size:14 final size:15
Alignment explanation
Indices: 50447977--50448009 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
50447967 AAGGTTTATA
*
50447977 GATTATGGAATTGGG
1 GATTATGGAATTAGG
50447992 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
50448006 GATT
1 GATT
50448010 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.36, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:50448851 original size:108 final size:109
Alignment explanation
Indices: 50448737--50448932 Score: 315
Period size: 108 Copynumber: 1.8 Consensus size: 109
50448727 TTTTTAACAG
*
50448737 AAAAAATAAAAGAT-TTTTAGCATAGCAAAACAGTGTCGTTTTATTCGAAATGAAATAA-TTTTT
1 AAAAAAT-AAAGATATTTTAGCATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTT
50448800 TGCGGCGTTTTTATGAAAAACGCCACAAAAAATAATTTTACTTTA
65 TGCGGCGTTTTTATGAAAAACGCCACAAAAAATAATTTTACTTTA
**** *
50448845 AAAAAATAGCTCTATTTTAGCATAGCAAAACATTGTCGTTTTATTCCAAATGAAATAATTTTTTT
1 AAAAAATAAAGATATTTTAGCATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTT
50448910 GCGGCGTTTTTATGAAAAACGCC
66 GCGGCGTTTTTATGAAAAACGCC
50448933 GTAAAAGGTA
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
107 2 0.03
108 49 0.61
109 29 0.36
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (109 bp):
AAAAAATAAAGATATTTTAGCATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTT
GCGGCGTTTTTATGAAAAACGCCACAAAAAATAATTTTACTTTA
Found at i:50448980 original size:149 final size:149
Alignment explanation
Indices: 50448801--50449098 Score: 413
Period size: 149 Copynumber: 2.0 Consensus size: 149
50448791 ATAATTTTTT
* * * * *
50448801 GCGGCGTTTTTATGAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAGCTCTATTTTAGC
1 GCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTAATTTAAAAAAATAACGCCATTTTAGC
* * * *
50448866 ATAGCAAAACATTGTCGTTTTATTCCAAATGAAATAA-TTTTTTTGCGGCGTTTTTATGAAAAAC
66 ATAACAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTTTGCGGCATTTTTAT-AAAAAC
*
50448930 GCCGT-AAAAGGTAAGCAATA
130 GCC-TCAAAAGATAAGCAATA
*
50448950 GCGGTGTTTTTATAAAAAAACGCCAC-AAAAATAATTTTAATTTAAAAAAATAACGCCATTTTAG
1 GCGGCGTTTTTAT-AAAAAACGCCACAAAAAATAATTTTAATTTAAAAAAATAACGCCATTTTAG
* * * *
50449014 CGTAACAAAACAGTGTCGTTTTATTCTAAATAAAATAATTTTTTTTGCGTCATTTTTGTAAAAAC
65 CATAACAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTTTGCGGCATTTTTATAAAAAC
50449079 GCCTCAAAAGATAAGCAATA
130 GCCTCAAAAGATAAGCAATA
50449099 TAAAAACGCT
Statistics
Matches: 131, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
148 1 0.01
149 102 0.78
150 28 0.21
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (149 bp):
GCGGCGTTTTTATAAAAAACGCCACAAAAAATAATTTTAATTTAAAAAAATAACGCCATTTTAGC
ATAACAAAACAGTGTCGTTTTATTCCAAATAAAATAATTTTTTTTGCGGCATTTTTATAAAAACG
CCTCAAAAGATAAGCAATA
Found at i:50453735 original size:43 final size:43
Alignment explanation
Indices: 50453683--50453867 Score: 246
Period size: 43 Copynumber: 4.3 Consensus size: 43
50453673 AGATTATGTT
* * *
50453683 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTGATAGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
50453726 -TAAGGCGGCGTTTGTGGGAAAAGTGCCGTTAAAGGTCATGGTC
1 TTTA-GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
50453769 TTTAGCGGCTTTTGTGGGAAAAGCGCCGCTAAAGATCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * *
50453812 TTTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCTTGGTT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
50453855 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
50453868 ATTTCTAAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 2 0.02
43 120 0.97
44 2 0.02
ACGTcount: A:0.21, C:0.15, G:0.34, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:50453988 original size:22 final size:22
Alignment explanation
Indices: 50453962--50454003 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
50453952 AGCGGCACTG
*
50453962 AAAAGCGCCGCTAAAGGCCTAA
1 AAAAGCGCCGCTAAAAGCCTAA
50453984 AAAAGCGCCGCTAAAAGCCT
1 AAAAGCGCCGCTAAAAGCCT
50454004 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.29, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAAGCGCCGCTAAAAGCCTAA
Found at i:50454648 original size:17 final size:16
Alignment explanation
Indices: 50454619--50454661 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
50454609 CATAAAAAAT
*
50454619 TTAAAAATAATATTAA
1 TTAAAAATTATATTAA
*
50454635 CTTAATAATTATATTAA
1 -TTAAAAATTATATTAA
50454652 TTAAAAATTA
1 TTAAAAATTA
50454662 AATAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAAAATTATATTAA
Found at i:50467494 original size:22 final size:20
Alignment explanation
Indices: 50467443--50467499 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
50467433 GCTCACAAAC
*
50467443 AAACATACAAATAAATGAAA
1 AAACATAAAAATAAATGAAA
*
50467463 AATA-ACAAAAATAACTATGAAA
1 AA-ACATAAAAATAA--ATGAAA
50467485 AAACATAAAAA-AAAT
1 AAACATAAAAATAAAT
50467500 TTGAAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
19 2 0.07
20 10 0.33
21 4 0.13
22 14 0.47
ACGTcount: A:0.72, C:0.09, G:0.04, T:0.16
Consensus pattern (20 bp):
AAACATAAAAATAAATGAAA
Found at i:50467768 original size:16 final size:16
Alignment explanation
Indices: 50467749--50467783 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
50467739 CCAAAAAATT
*
50467749 AAAAATTACAAGTCCC
1 AAAAATTAAAAGTCCC
*
50467765 AAAAATTAAAAGTTCC
1 AAAAATTAAAAGTCCC
50467781 AAA
1 AAA
50467784 GTTTTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.17, G:0.06, T:0.20
Consensus pattern (16 bp):
AAAAATTAAAAGTCCC
Found at i:50472504 original size:18 final size:20
Alignment explanation
Indices: 50472460--50472505 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
50472450 CTCAAATAAA
50472460 ATTTTTTTTGATATATTTTT
1 ATTTTTTTTGATATATTTTT
* *
50472480 -TTCTTTTTTTATGT-TTTTT
1 ATT-TTTTTTGATATATTTTT
50472499 ATTTTTT
1 ATTTTTT
50472506 CCCCTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.80
Consensus pattern (20 bp):
ATTTTTTTTGATATATTTTT
Found at i:50475994 original size:61 final size:61
Alignment explanation
Indices: 50475885--50476015 Score: 171
Period size: 63 Copynumber: 2.1 Consensus size: 61
50475875 GATCGCTTTG
* *
50475885 TTTCTATTTTTTTTCAAAAAAAATTTCAAGTAATAAAAAATAAAAATG-ATTTTTTTGAAGT
1 TTTCT-TTTTTTTTCAAAAAAAAATTCAAGTAATAAAAAAAAAAAATGAATTTTTTTGAAGT
50475946 TTTCTTTTTTTTT-AAAAAAAAATT-AAGTAATAAAAATAAAAATGAATGAAATTTTTTTGAAGT
1 TTTCTTTTTTTTTCAAAAAAAAATTCAAGTAATAAAAA-AAAAA--AATG-AATTTTTTTGAAGT
50476009 TTT-TTTT
1 TTTCTTTT
50476016 CAATTTTTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
58 12 0.19
59 14 0.22
60 8 0.13
61 9 0.14
62 4 0.06
63 16 0.25
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.47
Consensus pattern (61 bp):
TTTCTTTTTTTTTCAAAAAAAAATTCAAGTAATAAAAAAAAAAAATGAATTTTTTTGAAGT
Found at i:50476012 original size:58 final size:55
Alignment explanation
Indices: 50475891--50476015 Score: 135
Period size: 59 Copynumber: 2.1 Consensus size: 55
50475881 TTTGTTTCTA
* *
50475891 TTTTTTTTCAAAAAAAATTTCAAGTAATAAAAAATAAAAATGATTTTTTTGAAGTTTT
1 TTTTTTTTCAAAAAAAAATTCAAGTAATAAAAAAAAAAAATGATTTTTTTGAAG---T
*
50475949 CTTTTTTTTTAAAAAAAAATT-AAGTAATAAAAATAAAAATGAATGAAATTTTTTTGAAGT
1 -TTTTTTTTCAAAAAAAAATTCAAGTAATAAAAA-AAAAA--AATG--ATTTTTTTGAAGT
50476009 TTTTTTT
1 TTTTTTT
50476016 CAATTTTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
58 12 0.21
59 29 0.50
60 1 0.02
61 4 0.07
63 12 0.21
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (55 bp):
TTTTTTTTCAAAAAAAAATTCAAGTAATAAAAAAAAAAAATGATTTTTTTGAAGT
Found at i:50479930 original size:24 final size:23
Alignment explanation
Indices: 50479898--50479949 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
50479888 GCAAACAAAC
*
50479898 AAAAA-ATTAGAATA-TAAAATTTA
1 AAAAATATTAAAATATTAAAA--TA
50479921 AAAAATATTAAAATATTAAAATA
1 AAAAATATTAAAATATTAAAATA
50479944 AAAAAT
1 AAAAAT
50479950 GGCTAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 13 0.50
24 8 0.31
25 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAAATATTAAAATATTAAAATA
Found at i:50481825 original size:16 final size:16
Alignment explanation
Indices: 50481801--50481831 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50481791 AATTAACTAA
*
50481801 TTAACCTAAAAATTAT
1 TTAAACTAAAAATTAT
50481817 TTAAACTAAAAATTA
1 TTAAACTAAAAATTA
50481832 ACCAATTTAA
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:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAACTAAAAATTAT
Found at i:50491474 original size:18 final size:20
Alignment explanation
Indices: 50491436--50491474 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
50491426 AAGATGTAAG
*
50491436 TTGAACTTTAGAAATAGAAT
1 TTGAACCTTAGAAATAGAAT
50491456 TTGAACCTT-GAAA-AGAAT
1 TTGAACCTTAGAAATAGAAT
50491474 T
1 T
50491475 AGACATTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (20 bp):
TTGAACCTTAGAAATAGAAT
Found at i:50508952 original size:12 final size:12
Alignment explanation
Indices: 50508935--50508967 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
50508925 CAGCCCGCCC
50508935 ATATTAATTTTT
1 ATATTAATTTTT
50508947 ATATT-ATTTTT
1 ATATTAATTTTT
50508958 ATA-TAATTTT
1 ATATTAATTTT
50508968 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:50521311 original size:26 final size:26
Alignment explanation
Indices: 50521281--50521330 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
50521271 CCACTTAATC
*
50521281 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACATAGCAACCCCTT
50521307 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
50521331 CTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTT
Found at i:50521477 original size:104 final size:102
Alignment explanation
Indices: 50521248--50521511 Score: 397
Period size: 104 Copynumber: 2.6 Consensus size: 102
50521238 AACCGTTATT
* * * *
50521248 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGAA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
* *
50521313 TCAGCACATAGCAACCCCCTTTTTATTTCAGAGATAC
66 TCAGCACATAGCAACCCCCTTTCTATTTCAAAGATAC
50521350 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCT-GGGGG
50521414 AATCAGCACATAGCAACCCCCTTTC-ACTTTTCAAAGATAC
64 AATCAGCACATAGCAACCCCCTTTCTA--TTTCAAAGATAC
* **
50521454 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
50521512 TTATGTACAA
Statistics
Matches: 148, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
101 1 0.01
102 54 0.36
103 28 0.19
104 64 0.43
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (102 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
TCAGCACATAGCAACCCCCTTTCTATTTCAAAGATAC
Found at i:50521873 original size:30 final size:29
Alignment explanation
Indices: 50521839--50521903 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
50521829 TAATCCACCA
50521839 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
50521869 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
50521899 CCCAA
1 CCCAA
50521904 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:50521877 original size:31 final size:30
Alignment explanation
Indices: 50521846--50521903 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50521836 CCACCCAACT
50521846 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
50521876 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
50521904 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:50528349 original size:43 final size:43
Alignment explanation
Indices: 50528297--50528386 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
50528287 TTTTTCACAT
* * * *
50528297 AAACGCCGCTAAAGAACATGATTTTTAGCGGCGCTTTTATCAC
1 AAACCCCGCTAAAGAACATGATCTTTAACGACGCTTTTATCAC
50528340 AAACCCCGCTAAAGAACATGATCTTTAACGACGCTTTTATCAC
1 AAACCCCGCTAAAGAACATGATCTTTAACGACGCTTTTATCAC
50528383 AAAC
1 AAAC
50528387 GTCACTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
AAACCCCGCTAAAGAACATGATCTTTAACGACGCTTTTATCAC
Found at i:50528395 original size:43 final size:43
Alignment explanation
Indices: 50528305--50528402 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
50528295 ATAAACGCCG
* * * *
50528305 CTAAAGAACATGATTTTTAGCGGCGCTTTTATCACAAACCCCG
1 CTAAAGAACATGATCTTTAACGACGCTTTTATCACAAACCCCA
**
50528348 CTAAAGAACATGATCTTTAACGACGCTTTTATCACAAACGTCA
1 CTAAAGAACATGATCTTTAACGACGCTTTTATCACAAACCCCA
50528391 CTAAA-AACATGA
1 CTAAAGAACATGA
50528403 CCTTATGCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
42 7 0.14
43 42 0.86
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (43 bp):
CTAAAGAACATGATCTTTAACGACGCTTTTATCACAAACCCCA
Found at i:50529141 original size:42 final size:43
Alignment explanation
Indices: 50529040--50529173 Score: 189
Period size: 43 Copynumber: 3.1 Consensus size: 43
50529030 TTTTTCACAT
* * *
50529040 AAACGCCGCTAAAGAACATGATCTTTAACGACACTTTTACCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
* *
50529083 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTT-TCGC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
** *
50529125 AAACGCCGCTAAAGAACATGATCTTTAGCGGTGCTTTTGTCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
50529168 AAACGC
1 AAACGC
50529174 TGCAAAAAGT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
42 37 0.46
43 44 0.54
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
Found at i:50532409 original size:21 final size:22
Alignment explanation
Indices: 50532379--50532423 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
50532369 GAACAAATTG
50532379 TTGATTCTATTTCTTTCTTG-AT
1 TTGATTCTA-TTCTTTCTTGTAT
*
50532401 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCTTTCTTGTAT
50532422 TT
1 TT
50532424 CTTTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCTTTCTTGTAT
Found at i:50536748 original size:14 final size:12
Alignment explanation
Indices: 50536728--50536798 Score: 51
Period size: 13 Copynumber: 5.8 Consensus size: 12
50536718 GATATATTTG
50536728 TAATTTGAAAGCT
1 TAATTTGAAA-CT
*
50536741 TAAGTTTGGAAACA
1 TAA-TTT-GAAACT
*
50536755 AAATTTGAAAACT
1 TAATTTG-AAACT
50536768 TAATTTG-AA--
1 TAATTTGAAACT
50536777 -AATTTGGAAACT
1 TAATTT-GAAACT
50536789 TAATTTGAAA
1 TAATTTGAAA
50536799 ATTTGGAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
8 5 0.11
9 1 0.02
10 2 0.04
11 2 0.04
12 5 0.11
13 21 0.46
14 6 0.13
15 4 0.09
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (12 bp):
TAATTTGAAACT
Found at i:50536780 original size:21 final size:21
Alignment explanation
Indices: 50536754--50536812 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
50536744 GTTTGGAAAC
*
50536754 AAAATTTGAAAACTTAATTTG
1 AAAATTTGGAAACTTAATTTG
50536775 AAAATTTGGAAACTTAATTTG
1 AAAATTTGGAAACTTAATTTG
50536796 AAAATTTGGAAACTTAA
1 AAAATTTGGAAACTTAA
50536813 AAATTAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (21 bp):
AAAATTTGGAAACTTAATTTG
Found at i:50536821 original size:21 final size:21
Alignment explanation
Indices: 50536754--50536833 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 21
50536744 GTTTGGAAAC
* *
50536754 AAAATTTGAAAACTT-AATTT
1 AAAATTTGGAAACTTAAAATT
*
50536774 GAAAATTTGGAAACTT-AATTT
1 -AAAATTTGGAAACTTAAAATT
50536795 GAAAATTTGGAAACTTAAAAATT
1 -AAAATTTGGAAACTT-AAAATT
* *
50536818 AAATTTTGTAAACTTA
1 AAAATTTGGAAACTTA
50536834 GAAGTTTTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
21 36 0.68
22 13 0.25
23 4 0.08
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (21 bp):
AAAATTTGGAAACTTAAAATT
Found at i:50537250 original size:19 final size:19
Alignment explanation
Indices: 50537226--50537266 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
50537216 AATTATAATT
50537226 TTTTTGTATTTCATTTTTA
1 TTTTTGTATTTCATTTTTA
*
50537245 TTTTTGTATTTTATTTTTA
1 TTTTTGTATTTCATTTTTA
50537264 TTT
1 TTT
50537267 GTTATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTTTGTATTTCATTTTTA
Found at i:50537651 original size:7 final size:7
Alignment explanation
Indices: 50537641--50537718 Score: 61
Period size: 7 Copynumber: 11.0 Consensus size: 7
50537631 TCATAAAATA
50537641 TAAACCC
1 TAAACCC
50537648 TAAACCCC
1 TAAA-CCC
*
50537656 TAACCCC
1 TAAACCC
50537663 T-AACCTC
1 TAAACC-C
*
50537670 TAACCCC
1 TAAACCC
50537677 TAAACCC
1 TAAACCC
*
50537684 -CAACCC
1 TAAACCC
*
50537690 ATAAACCA
1 -TAAACCC
*
50537698 TAAACCA
1 TAAACCC
*
50537705 TAATCCC
1 TAAACCC
50537712 TAAACCC
1 TAAACCC
50537719 ATAATCCATA
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
6 8 0.14
7 35 0.62
8 13 0.23
ACGTcount: A:0.40, C:0.45, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:50537660 original size:14 final size:15
Alignment explanation
Indices: 50537645--50537696 Score: 72
Period size: 14 Copynumber: 3.6 Consensus size: 15
50537635 AAAATATAAA
50537645 CCCTAAACCCCTAAC
1 CCCTAAACCCCTAAC
*
50537660 CCCT-AACCTCTAAC
1 CCCTAAACCCCTAAC
50537674 CCCTAAACCCC-AAC
1 CCCTAAACCCCTAAC
*
50537688 CCATAAACC
1 CCCTAAACC
50537697 ATAAACCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
14 24 0.73
15 9 0.27
ACGTcount: A:0.35, C:0.52, G:0.00, T:0.13
Consensus pattern (15 bp):
CCCTAAACCCCTAAC
Found at i:50537720 original size:15 final size:15
Alignment explanation
Indices: 50537685--50537728 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
50537675 CCTAAACCCC
*
50537685 AACCCATAAACCATA
1 AACCCATAATCCATA
*
50537700 AA-CCATAATCCCTA
1 AACCCATAATCCATA
50537714 AACCCATAATCCATA
1 AACCCATAATCCATA
50537729 GACCTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.18
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:50537766 original size:14 final size:14
Alignment explanation
Indices: 50537747--50537788 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
50537737 AATAGTAACT
50537747 CCTAAACCTTAAAC
1 CCTAAACCTTAAAC
*
50537761 CCTAAA-CTATATAC
1 CCTAAACCT-TAAAC
50537775 CCTAAACCTTAAAC
1 CCTAAACCTTAAAC
50537789 TATAATGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 2 0.08
14 20 0.83
15 2 0.08
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (14 bp):
CCTAAACCTTAAAC
Found at i:50537962 original size:7 final size:7
Alignment explanation
Indices: 50537936--50538026 Score: 78
Period size: 7 Copynumber: 12.9 Consensus size: 7
50537926 TCATAAAACA
50537936 TAAACCC
1 TAAACCC
50537943 TAAACCC
1 TAAACCC
50537950 TAAACCC
1 TAAACCC
*
50537957 TTAACCCC
1 -TAAACCC
50537965 T-AACCC
1 TAAACCC
50537971 TAAACCC
1 TAAACCC
*
50537978 -CAACCC
1 TAAACCC
*
50537984 ATAAACCA
1 -TAAACCC
*
50537992 TAAACCA
1 TAAACCC
*
50537999 TAATCCC
1 TAAACCC
50538006 TAAACCC
1 TAAACCC
* *
50538013 ATAATCCA
1 -TAAACCC
50538021 TAAACC
1 TAAACC
50538027 TTTAAATAGT
Statistics
Matches: 68, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
6 10 0.15
7 43 0.63
8 15 0.22
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:50537999 original size:14 final size:14
Alignment explanation
Indices: 50537929--50538066 Score: 77
Period size: 14 Copynumber: 9.7 Consensus size: 14
50537919 CCTTGAATCA
*
50537929 TAAAACATAAACCC
1 TAAACCATAAACCC
*
50537943 TAAACCCTAAACCC
1 TAAACCATAAACCC
* *
50537957 TTAACCCCT-AACCC
1 -TAAACCATAAACCC
**
50537971 TAAACC-CCAACCC
1 TAAACCATAAACCC
*
50537984 ATAAACCATAAACCA
1 -TAAACCATAAACCC
* *
50537999 TAATCCCTAAACCC
1 TAAACCATAAACCC
* *
50538013 ATAATCCATAAACCT
1 -TAAACCATAAACCC
*
50538028 TTAA--ATAGTAACTCC
1 TAAACCATA--AAC-CC
50538043 TAAACCATAAACCC
1 TAAACCATAAACCC
*
50538057 TAAACTATAA
1 TAAACCATAA
50538067 TGATAATTAA
Statistics
Matches: 96, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
12 3 0.03
13 10 0.10
14 50 0.52
15 30 0.31
17 3 0.03
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.20
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:50538018 original size:294 final size:294
Alignment explanation
Indices: 50537489--50538065 Score: 1032
Period size: 294 Copynumber: 2.0 Consensus size: 294
50537479 CTTAAATAAT
* *
50537489 TTAAACTATAATGATAATTTTAATATATTAAAATTAATATTATCTCTTTTATAATTATATAAGAA
1 TTAAACTATAATGATAATTTTAATATATTAAAATTAATATTACCTCTTTTACAATTATATAAGAA
*
50537554 ATTATTTAATATATAAATTAAAAAATACTAATTAATATAAACCGTAAACCCCTATCCCCTATCCC
66 ATTATTTAATATATAAATTAAAAAATACTAATTAATATAAACCCTAAACCCCTATCCCCTATCCC
* *
50537619 TTAAACCTTGAATCATAAAATATAAACCCTAAACCCCTAACCCCTAACCTCTAACCCCTAAACCC
131 TTAAACCTTGAATCATAAAACATAAACCCTAAACCCCTAACCCCTAACCCCTAACCCCTAAACCC
*
50537684 CAACCCATAAACCATAAACCATAATCCCTAAACCCATAATCCATAGACCTTAAAATAGTAACTCC
196 CAACCCATAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACCTTAAAATAGTAACTCC
*
50537749 TAAACCTTAAACCCTAAACTATATACCCTAAACC
261 TAAACCATAAACCCTAAACTATATACCCTAAACC
*
50537783 TTAAACTATAATGATAATTTTAATATATTAAAATTAATATTACCTCTTTTACAATTATATACGAA
1 TTAAACTATAATGATAATTTTAATATATTAAAATTAATATTACCTCTTTTACAATTATATAAGAA
50537848 ATTATTTAATATATAAATTAAAAAAATACTAATTAATATAAACCCTAAACCCCTATCCCCTATCC
66 ATTATTTAATATATAAATT-AAAAAATACTAATTAATATAAACCCTAAACCCCTATCCCCTATCC
*
50537913 CTTAAACCTTGAATCATAAAACATAAACCCTAAA-CCCTAAACCCTTAACCCCTAA-CCCTAAAC
130 CTTAAACCTTGAATCATAAAACATAAACCCTAAACCCCT-AACCCCTAACCCCTAACCCCTAAAC
*
50537976 CCCAACCCATAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACCTTTAAATAGTAACT
194 CCCAACCCATAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACCTTAAAATAGTAACT
50538041 CCTAAACCATAAACCCTAAACTATA
259 CCTAAACCATAAACCCTAAACTATA
50538066 ATGATAATTA
Statistics
Matches: 271, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
294 180 0.66
295 91 0.34
ACGTcount: A:0.44, C:0.25, G:0.02, T:0.29
Consensus pattern (294 bp):
TTAAACTATAATGATAATTTTAATATATTAAAATTAATATTACCTCTTTTACAATTATATAAGAA
ATTATTTAATATATAAATTAAAAAATACTAATTAATATAAACCCTAAACCCCTATCCCCTATCCC
TTAAACCTTGAATCATAAAACATAAACCCTAAACCCCTAACCCCTAACCCCTAACCCCTAAACCC
CAACCCATAAACCATAAACCATAATCCCTAAACCCATAATCCATAAACCTTAAAATAGTAACTCC
TAAACCATAAACCCTAAACTATATACCCTAAACC
Found at i:50538517 original size:41 final size:40
Alignment explanation
Indices: 50538455--50538575 Score: 129
Period size: 41 Copynumber: 3.0 Consensus size: 40
50538445 TTTTGCAGCG
* * *
50538455 TTTTTAAAAAAGCGTCGCTAATAG-TCGACCTATAGCGGC-A
1 TTTTT-AAAAAGCGCCACTAAT-GCTCGATCTATAGCGGCGA
* **
50538495 TTTTTTCAAAAAGCGCCACTAATGCTCGATCTGTAGCAACGA
1 -TTTTT-AAAAAGCGCCACTAATGCTCGATCTATAGCGGCGA
*
50538537 TTTTTAAAAAGCGCCTCTAATGCTCGATCTATAGCGGCG
1 TTTTTAAAAAGCGCCACTAATGCTCGATCTATAGCGGCG
50538576 TTTCCAGAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
40 31 0.46
41 35 0.52
42 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (40 bp):
TTTTTAAAAAGCGCCACTAATGCTCGATCTATAGCGGCGA
Found at i:50539740 original size:14 final size:14
Alignment explanation
Indices: 50539717--50539747 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
50539707 TTAATTATCA
50539717 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
50539731 TTATATTTTAGGGT
1 TTATAGTTTAGGGT
50539745 TTA
1 TTA
50539748 AGATTTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:50540647 original size:24 final size:23
Alignment explanation
Indices: 50540599--50540647 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
50540589 AAAATTACTT
* * *
50540599 AATTAATAATTTTTAGCAGAGAA
1 AATTAAAAAATTTTAGCAGACAA
50540622 AATTAAAAAATTTTAGCAGAACAA
1 AATTAAAAAATTTTAGCAG-ACAA
50540646 AA
1 AA
50540648 CGACATCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.55, C:0.06, G:0.10, T:0.29
Consensus pattern (23 bp):
AATTAAAAAATTTTAGCAGACAA
Found at i:50542660 original size:6 final size:6
Alignment explanation
Indices: 50542649--50542679 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
50542639 AACTACTTCA
50542649 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT T
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT T
50542680 GTGAAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTCTTT
Found at i:50545589 original size:43 final size:43
Alignment explanation
Indices: 50545529--50545618 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
50545519 CTTTGAGTTC
* *
50545529 ATTA-CAAGATTTCCTTGATTAAGTAAA-TGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAG-AAATTGAATTATATCTTTT
* *
50545571 ATTACCAAGATTTACTTGATTAAGAAATTGAATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAATTGAATTATATCTTTT
50545614 ATTAC
1 ATTAC
50545619 ATTGCAATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 7 0.17
43 35 0.83
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAATTGAATTATATCTTTT
Found at i:50546045 original size:43 final size:42
Alignment explanation
Indices: 50545964--50546045 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
50545954 AAAATATTTT
* * * * *
50545964 TTAAATGTTATGTTTTTAGCGGTGTTTTTGTGAGAAGCGTCG
1 TTAAAGGTCATGTTTTTAGCGGCGTTTGTGTGAAAAGCGTCG
*
50546006 TTAAAGGTCATGTTCTTTAGCGGCGTTTGTGTTAAAAGCG
1 TTAAAGGTCATGTT-TTTAGCGGCGTTTGTGTGAAAAGCG
50546046 CCACTAAAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 12 0.36
43 21 0.64
ACGTcount: A:0.21, C:0.10, G:0.28, T:0.41
Consensus pattern (42 bp):
TTAAAGGTCATGTTTTTAGCGGCGTTTGTGTGAAAAGCGTCG
Found at i:50546088 original size:16 final size:16
Alignment explanation
Indices: 50546044--50546088 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
50546034 GTGTTAAAAG
* *
50546044 CGCCACTAAAGGCAAA
1 CGCCGCTAAAGGTAAA
50546060 CGCCGCTAAAGGTAAA
1 CGCCGCTAAAGGTAAA
*
50546076 CGTCGCTAAAGGT
1 CGCCGCTAAAGGT
50546089 CATGGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.36, C:0.27, G:0.24, T:0.13
Consensus pattern (16 bp):
CGCCGCTAAAGGTAAA
Found at i:50547124 original size:36 final size:36
Alignment explanation
Indices: 50547079--50547150 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
50547069 ATTTTTCACT
* *
50547079 ATAATAAATAGAGATATATAAAT-ATATAAAAATTAA
1 ATAACAAATAGAGATATAAAAATAATAT-AAAATTAA
* **
50547115 ATAACAAATATATTTATAAAAATAATATAAAATTAA
1 ATAACAAATAGAGATATAAAAATAATATAAAATTAA
50547151 GATATTGCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
36 26 0.87
37 4 0.13
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (36 bp):
ATAACAAATAGAGATATAAAAATAATATAAAATTAA
Found at i:50550172 original size:3 final size:3
Alignment explanation
Indices: 50550161--50550222 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
50550151 CAATAATACC
* * *
50550161 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
50550206 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
50550223 AGTTAACAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
2 1 0.02
3 50 0.98
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:50551829 original size:43 final size:42
Alignment explanation
Indices: 50551781--50552031 Score: 155
Period size: 43 Copynumber: 5.4 Consensus size: 42
50551771 GATCTGAAAT
*
50551781 CTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGA
1 CTTCAATCTACTCCACTGCCAAC-AGGGAGATAGAATTATCGA
* * *
50551824 CTTCAATGTACTCCACTG-TAGTCACAGGGAGGTAGAATCTGTCATCTATGA
1 CTTCAATCTACTCCACTGCCA---ACAGGGAGATAGAA--T-T-ATC---GA
* *
50551875 TCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGG
1 -CTTCAATCTACTCCACTGCCAA-CAGGGAGATAGAATTATCGA
* * * *
50551919 CTTCAATGTACTCCACTG-TAGTCACAGGGAGGTAAAATCTGCCATCTATGA
1 CTTCAATCTACTCCACTGCCA---ACAGGGAGATAGAAT-T---ATC---GA
*
50551970 TCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGA
1 -CTTCAATCTACTCCACTGCCAAC-AGGGAGATAGAATTATCGA
*
50552014 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
50552032 TAGTCACAGG
Statistics
Matches: 160, Mismatches: 22, Indels: 52
0.68 0.09 0.22
Matches are distributed among these distances:
42 2 0.01
43 48 0.30
44 26 0.16
45 4 0.03
46 1 0.01
47 7 0.04
48 7 0.04
49 1 0.01
50 4 0.03
51 26 0.16
52 32 0.20
53 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (42 bp):
CTTCAATCTACTCCACTGCCAACAGGGAGATAGAATTATCGA
Found at i:50551942 original size:95 final size:94
Alignment explanation
Indices: 50551779--50552051 Score: 501
Period size: 95 Copynumber: 2.9 Consensus size: 94
50551769 AAGATCTGAA
50551779 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTA
*
50551844 GTCACAGGGAGGTAGAATCTGTCATCTATG
66 GTCACAGGGAGGTA-AATCTGCCATCTATG
* *
50551874 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTA
50551939 GTCACAGGGAGGTAAAATCTGCCATCTATG
66 GTCACAGGGAGGT-AAATCTGCCATCTATG
50551969 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTA
50552034 GTCACAGGGAGGTAAATC
66 GTCACAGGGAGGTAAATC
50552052 CTGATGCGAT
Statistics
Matches: 172, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
94 5 0.03
95 166 0.97
96 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (94 bp):
ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTACTCCACTGTA
GTCACAGGGAGGTAAATCTGCCATCTATG
Found at i:50552351 original size:44 final size:42
Alignment explanation
Indices: 50552209--50552352 Score: 110
Period size: 44 Copynumber: 3.3 Consensus size: 42
50552199 CCACTGTAAC
* *
50552209 CGAGAGAGGCAAGATTTGTGTCTCCGATCTGCTTCGCTGTCAA
1 CGAGA-AGGCAAGATTTGTGTCTTCAATCTGCTTCGCTGTCAA
* * * * * ** *
50552252 GGCAAGAAGGCAAGATCTGTTATCTTCAACCAGCTTTACT-ACAA
1 --CGAGAAGGCAAGATTTG-TGTCTTCAATCTGCTTCGCTGTCAA
*
50552296 CCGAGAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAA
1 -CGAGA-AGGCAAGATTTGTGTCTTCAATCTGCTTCGCTGTCAA
50552340 CGTAGGAAGGCAA
1 CG-A-GAAGGCAA
50552353 TATCTGTTAT
Statistics
Matches: 74, Mismatches: 20, Indels: 11
0.70 0.19 0.10
Matches are distributed among these distances:
43 21 0.28
44 34 0.46
45 19 0.26
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (42 bp):
CGAGAAGGCAAGATTTGTGTCTTCAATCTGCTTCGCTGTCAA
Found at i:50552539 original size:43 final size:43
Alignment explanation
Indices: 50552491--50552624 Score: 105
Period size: 44 Copynumber: 3.1 Consensus size: 43
50552481 CAAGATCTTT
50552491 TGTCTTCAACCAGCTCCATCACAACCGAGAGAGGAAATGTTTG
1 TGTCTTCAACCAGCTCCATCACAACCGAGAGAGGAAATGTTTG
* * * ** * * *
50552534 TGTCTTCGATCTGCTTCGC-TGTCAA-TGCAG-GAAGGCAAGATCTAT-
1 TGTCTTCAACCAGC-TC-CATCACAACCG-AGAG-AGG-AA-ATGTTTG
*
50552579 TGTCTTCAACCAGCTCCATCACAACCGAGAGAGGAAAGGTTTG
1 TGTCTTCAACCAGCTCCATCACAACCGAGAGAGGAAATGTTTG
50552622 TGT
1 TGT
50552625 TTTCGACCTG
Statistics
Matches: 64, Mismatches: 17, Indels: 20
0.63 0.17 0.20
Matches are distributed among these distances:
42 3 0.05
43 19 0.30
44 22 0.34
45 16 0.25
46 4 0.06
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (43 bp):
TGTCTTCAACCAGCTCCATCACAACCGAGAGAGGAAATGTTTG
Found at i:50552748 original size:84 final size:88
Alignment explanation
Indices: 50552371--50552758 Score: 527
Period size: 88 Copynumber: 4.5 Consensus size: 88
50552361 ATCTTTAGTT
* * * * *
50552371 TGCTCCGCTGTCATTACAGGAAGACAAAATCTTTTGTCTTCAACCAGCTCCATCACCACC--GAG
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
* *
50552434 AGGCAAGGTTTGTGTCTTGGACC
66 AGGAAAGGTTTGTGTCTTCGACC
* *
50552457 TGCTTCGCTATCAATATAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
* *
50552522 AGGAAATGTTTGTGTCTTCGATC
66 AGGAAAGGTTTGTGTCTTCGACC
* *
50552545 TGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGAGAG
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
*
50552610 AGGAAAGGTTTGTGTTTTCGACC
66 AGGAAAGGTTTGTGTCTTCGACC
50552633 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-C-C-ACCGAGAG
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
* * *
50552695 AGGCAAGGTTT-TGTTTTCGATC
66 AGGAAAGGTTTGTGTCTTCGACC
* ** * **
50552717 TGCTTCGCTGTTAACGCGGGAAGGCAAGATCTGCTGTCTTCA
1 TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCA
50552759 CTGATCTGTT
Statistics
Matches: 272, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
84 46 0.17
85 18 0.07
86 54 0.20
87 1 0.00
88 153 0.56
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (88 bp):
TGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAG
AGGAAAGGTTTGTGTCTTCGACC
Found at i:50554865 original size:9 final size:9
Alignment explanation
Indices: 50554853--50554882 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
50554843 ATATTTTGAC
50554853 TTTGATTTT
1 TTTGATTTT
50554862 TTTGATTTT
1 TTTGATTTT
50554871 TTTGATTTT
1 TTTGATTTT
50554880 TTT
1 TTT
50554883 TTTGAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (9 bp):
TTTGATTTT
Found at i:50557437 original size:19 final size:19
Alignment explanation
Indices: 50557408--50557455 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
50557398 CACTTCGTGA
*
50557408 AAATCTAATGCATATG-ATG
1 AAATGTAATGCA-ATGCATG
*
50557427 CAATGTAATGCAATGCATG
1 AAATGTAATGCAATGCATG
50557446 AAATG-AATGC
1 AAATGTAATGC
50557456 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (19 bp):
AAATGTAATGCAATGCATG
Found at i:50559951 original size:3 final size:3
Alignment explanation
Indices: 50559940--50560007 Score: 93
Period size: 3 Copynumber: 22.7 Consensus size: 3
50559930 CAATAATACC
* * *
50559940 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
50559985 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
50560008 AGTTAACAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 56 0.98
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:50563528 original size:3 final size:3
Alignment explanation
Indices: 50563520--50563551 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
50563510 ACTAAACCTT
50563520 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
50563552 GTACTTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:50563693 original size:20 final size:20
Alignment explanation
Indices: 50563668--50563718 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
50563658 CTTGACATTT
50563668 TTTTAAGTTATTTAATATAA
1 TTTTAAGTTATTTAATATAA
* * *
50563688 TTTTAAGATA-TTATTATTA
1 TTTTAAGTTATTTAATATAA
50563707 TTTT-AGTTATTT
1 TTTTAAGTTATTT
50563719 TTTTAATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 4 0.15
19 13 0.50
20 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (20 bp):
TTTTAAGTTATTTAATATAA
Found at i:50570790 original size:20 final size:21
Alignment explanation
Indices: 50570767--50570811 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
50570757 AGCGATACTA
* *
50570767 CCCT-CGATGTTGCGACATAG
1 CCCTCCGATGTCGCGACATAC
*
50570787 CCCTCCTATGTCGCGACATAC
1 CCCTCCGATGTCGCGACATAC
50570808 CCCT
1 CCCT
50570812 TGCGCAGCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.18, C:0.40, G:0.18, T:0.24
Consensus pattern (21 bp):
CCCTCCGATGTCGCGACATAC
Found at i:50571910 original size:9 final size:9
Alignment explanation
Indices: 50571896--50571927 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
50571886 TTTGGTTAAA
50571896 AATTAACCG
1 AATTAACCG
*
50571905 AATTAACTG
1 AATTAACCG
50571914 AATTAACCG
1 AATTAACCG
50571923 AATTA
1 AATTA
50571928 CCCAAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:50571935 original size:18 final size:18
Alignment explanation
Indices: 50571895--50571935 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
50571885 TTTTGGTTAA
*
50571895 AAATTAACCGAATTAACT
1 AAATTAACCGAATTAACC
* *
50571913 GAATTAACCGAATTACCC
1 AAATTAACCGAATTAACC
50571931 AAATT
1 AAATT
50571936 GAATCACTGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.27
Consensus pattern (18 bp):
AAATTAACCGAATTAACC
Found at i:50572064 original size:20 final size:20
Alignment explanation
Indices: 50571974--50572064 Score: 51
Period size: 21 Copynumber: 4.2 Consensus size: 20
50571964 TAAGTCTTTG
50571974 AATTTTATTTTTATTTATTA
1 AATTTTATTTTTATTTATTA
* *
50571994 AATTATT-TTCTTAGACTT-TTA
1 AATT-TTATT-TT-TATTTATTA
* *
50572015 AACTTTAGTTTTAGTTTTAGTTTTA
1 AATTTTATTTTTA--TTTA---TTA
50572040 GAATTTTATTTTTATTTATTA
1 -AATTTTATTTTTATTTATTA
50572061 AATT
1 AATT
50572065 ATTTGTAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 22
0.63 0.10 0.27
Matches are distributed among these distances:
19 1 0.02
20 14 0.27
21 16 0.31
22 3 0.06
24 4 0.08
25 3 0.06
26 11 0.21
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (20 bp):
AATTTTATTTTTATTTATTA
Found at i:50582242 original size:16 final size:16
Alignment explanation
Indices: 50582223--50582253 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50582213 GTTCCAAAAC
50582223 CAAAATGTTGTAGGCT
1 CAAAATGTTGTAGGCT
50582239 CAAAATGTTGTAGGC
1 CAAAATGTTGTAGGC
50582254 AAACTATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (16 bp):
CAAAATGTTGTAGGCT
Found at i:50588659 original size:4 final size:4
Alignment explanation
Indices: 50588650--50589052 Score: 369
Period size: 4 Copynumber: 100.8 Consensus size: 4
50588640 TTCCTAGTTA
*
50588650 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAAG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
50588698 TATG TATG TATG TATG TATG TATG TATG TATG TATA TATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
50588746 CATG TATG CATG TATG CATG TATG CATG TATG CATG CATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
50588794 TATG CATG TATG TATG TATG TGTG TATG TGTG TATG TGTG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
50588842 TGTG TATG TATG TGTG TCTG TCTG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
50588890 TATG TATG TATG TATG TATG CATG TGTG TGTG TGTG TGTG TGTGCG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT--G TATG
* * ** * * ** * * * *
50588940 TGTG TGTG CGTG TGTG TGTG TGCG TGTG TGTG TATG CATG --TG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* ** * * * * *
50588986 TCTG CGTG TGTG TGTC TGTG TATG TATG TGTG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
50589034 TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TAT
50589053 ATGATTTAAT
Statistics
Matches: 346, Mismatches: 49, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
2 2 0.01
4 340 0.98
6 4 0.01
ACGTcount: A:0.18, C:0.05, G:0.31, T:0.46
Consensus pattern (4 bp):
TATG
Found at i:50591622 original size:89 final size:84
Alignment explanation
Indices: 50591448--50591670 Score: 247
Period size: 88 Copynumber: 2.6 Consensus size: 84
50591438 CTTCAAAGCA
* ** * **
50591448 TTTTTTTGCACTCGATTAAGTACTTGAACTTTCAAAAGGCATAAAAAAGGTCCTCAAACTTTTTC
1 TTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTTTTC
50591513 AAAAAAAGCAATTAAGCCCTTGC
66 AAAAAAAGCAATTAAG-CC---C
* * *
50591536 TTTTTTTGCACTCAATTGGGTGCTTAAACTTTCAAAATGCATAAAAACATACCCTCAAACTTTTT
1 TTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAA-AGACCCTCAAACTTTTT
50591601 CAAAAATAA-CAATTGAA-CCC
65 CAAAAA-AAGCAATT-AAGCCC
* * *
50591621 -TTTTTTGCAATCAATTGGGTACTTGAA-TGTCAAAATGCATCAAAAAGACC
1 TTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAGACC
50591671 TTTAGATTGT
Statistics
Matches: 117, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
82 4 0.03
83 16 0.14
84 24 0.21
85 1 0.01
88 43 0.37
89 25 0.21
90 4 0.03
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (84 bp):
TTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTTTTC
AAAAAAAGCAATTAAGCCC
Found at i:50591829 original size:29 final size:29
Alignment explanation
Indices: 50591795--50591870 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
50591785 AATAAAAATC
* *
50591795 AATAAAAATTATAAAAATGGTTAAATTTT
1 AATAAAAATTAAAAAAATAGTTAAATTTT
* *
50591824 AATAAAAAATAAAAAAATATTTAAATTTT
1 AATAAAAATTAAAAAAATAGTTAAATTTT
*
50591853 ATTAAAAATTAGAAAAAA
1 AATAAAAATTA-AAAAAA
50591871 AATATTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 34 0.85
30 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (29 bp):
AATAAAAATTAAAAAAATAGTTAAATTTT
Found at i:50598077 original size:9 final size:9
Alignment explanation
Indices: 50598065--50598194 Score: 79
Period size: 9 Copynumber: 13.9 Consensus size: 9
50598055 AGTATGTCTA
50598065 TTATGTATG
1 TTATGTATG
*
50598074 TTATGTATA
1 TTATGTATG
*
50598083 TTA-CTAT-
1 TTATGTATG
50598090 TTATGTATG
1 TTATGTATG
50598099 TTATGTA-G
1 TTATGTATG
50598107 TATAT-TATTG
1 T-TATGTA-TG
50598117 TTTATGTATG
1 -TTATGTATG
*
50598127 TTATGTATA
1 TTATGTATG
*
50598136 TTACTGTTTATA
1 TTA-TG--TATG
*
50598148 TCATGTATG
1 TTATGTATG
* *
50598157 TTATGTTTA
1 TTATGTATG
*
50598166 TTATTGTTTATA
1 TTA-TG--TATG
50598178 TTATGTATG
1 TTATGTATG
50598187 TTATGTAT
1 TTATGTAT
50598195 ATTACAATTT
Statistics
Matches: 97, Mismatches: 11, Indels: 26
0.72 0.08 0.19
Matches are distributed among these distances:
7 3 0.03
8 10 0.10
9 55 0.57
10 10 0.10
11 7 0.07
12 12 0.12
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (9 bp):
TTATGTATG
Found at i:50598104 original size:30 final size:28
Alignment explanation
Indices: 50598063--50598273 Score: 202
Period size: 30 Copynumber: 7.4 Consensus size: 28
50598053 TTAGTATGTC
*
50598063 TATTATGTATGTTATGTATATTACTATT
1 TATTATGTATGTTATGTATATTACTGTT
*
50598091 TATGTATGTTATG-TA-GTATATTA-T-TG
1 TAT-TATG-TATGTTATGTATATTACTGTT
50598117 T-TTATGTATGTTATGTATATTACTGTT
1 TATTATGTATGTTATGTATATTACTGTT
* *
50598144 TATATCATGTATGTTATGTTTATTATTGTTT
1 TAT-T-ATGTATGTTATGTATATTACTG-TT
**
50598175 ATATTATGTATGTTATGTATATTACAATT
1 -TATTATGTATGTTATGTATATTACTGTT
**
50598204 TACATTATGTATGTTATGTATATTGTTGTTT
1 T--ATTATGTATGTTATGTATATTACTG-TT
*
50598235 ATATTATTTATGTTATGTATATTACTGTT
1 -TATTATGTATGTTATGTATATTACTGTT
50598264 TA-TAT-TATGT
1 TATTATGTATGT
50598274 ACCTGATTTT
Statistics
Matches: 153, Mismatches: 15, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
23 4 0.03
24 6 0.04
25 9 0.06
26 8 0.05
27 6 0.04
28 15 0.10
29 11 0.07
30 85 0.56
31 5 0.03
32 4 0.03
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (28 bp):
TATTATGTATGTTATGTATATTACTGTT
Found at i:50598130 original size:16 final size:16
Alignment explanation
Indices: 50598074--50598266 Score: 52
Period size: 16 Copynumber: 12.2 Consensus size: 16
50598064 ATTATGTATG
* *
50598074 TTATGTATATTACTAT
1 TTATGTATATTATTGT
*
50598090 TTATGTATGTTA-TG-
1 TTATGTATATTATTGT
50598104 -TA-GTATATTATTGT
1 TTATGTATATTATTGT
* *
50598118 TTATGTATGTTATGTAT
1 TTATGTATATTAT-TGT
* *
50598135 ATTACTGTTTATATCATGTAT
1 -TTA-TG--TATATTAT-TGT
*
50598156 GTTATGTTTATTATTGT
1 -TTATGTATATTATTGT
*
50598173 TTATAT-TATGTA-TG-
1 TTATGTATAT-TATTGT
***
50598187 TTATGTATATTACAAT
1 TTATGTATATTATTGT
**
50598203 TTACAT-TATGTA-TG-
1 TTATGTATAT-TATTGT
*
50598217 TTATGTATATTGTTGT
1 TTATGTATATTATTGT
*
50598233 TTATAT-TATT-TATG-
1 TTATGTATATTAT-TGT
*
50598247 TTATGTATATTACTGT
1 TTATGTATATTATTGT
50598263 TTAT
1 TTAT
50598267 ATTATGTACC
Statistics
Matches: 131, Mismatches: 25, Indels: 42
0.66 0.13 0.21
Matches are distributed among these distances:
12 7 0.05
13 4 0.03
14 18 0.14
15 31 0.24
16 41 0.31
17 4 0.03
18 9 0.07
19 2 0.02
20 2 0.02
21 13 0.10
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (16 bp):
TTATGTATATTATTGT
Found at i:50598158 original size:15 final size:15
Alignment explanation
Indices: 50598118--50598274 Score: 64
Period size: 15 Copynumber: 10.5 Consensus size: 15
50598108 ATATTATTGT
*
50598118 TTATGTATG-TTATG
1 TTATGTATGTTTATA
50598132 TATAT-TACTGTTTATA
1 T-TATGTA-TGTTTATA
* *
50598148 TCATGTATG-TTATGT
1 TTATGTATGTTTAT-A
50598163 TTAT-TATTGTTTATA
1 TTATGTA-TGTTTATA
*
50598178 TTATGTATG-TTATG
1 TTATGTATGTTTATA
** *
50598192 TATAT-TACAATTTACA
1 T-TATGTA-TGTTTATA
*
50598208 TTATGTATG-TTATG
1 TTATGTATGTTTATA
50598222 TATATTGT-TGTTTATA
1 T-TA-TGTATGTTTATA
* *
50598238 TTATTTATG-TTATG
1 TTATGTATGTTTATA
50598252 TATAT-TACTGTTTATA
1 T-TATGTA-TGTTTATA
50598268 TTATGTA
1 TTATGTA
50598275 CCTGATTTTA
Statistics
Matches: 105, Mismatches: 18, Indels: 38
0.65 0.11 0.24
Matches are distributed among these distances:
14 29 0.28
15 42 0.40
16 34 0.32
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (15 bp):
TTATGTATGTTTATA
Found at i:50598195 original size:60 final size:60
Alignment explanation
Indices: 50598063--50598274 Score: 278
Period size: 60 Copynumber: 3.6 Consensus size: 60
50598053 TTAGTATGTC
*
50598063 TATTATGTATGTTATGTATATTACTATTTAT-GTATGTTATG-TA-GTATATTATTG----
1 TATTATGTATGTTATGTATATTACTATTTATATTATG-TATGTTATGTATATTATTGTTTA
* * *
50598117 T-TTATGTATGTTATGTATATTACTGTTTATATCATGTATGTTATGTTTATTATTGTTTA
1 TATTATGTATGTTATGTATATTACTATTTATATTATGTATGTTATGTATATTATTGTTTA
* * *
50598176 TATTATGTATGTTATGTATATTACAATTTACATTATGTATGTTATGTATATTGTTGTTTA
1 TATTATGTATGTTATGTATATTACTATTTATATTATGTATGTTATGTATATTATTGTTTA
* *
50598236 TATTATTTATGTTATGTATATTACTGTTTATATTATGTA
1 TATTATGTATGTTATGTATATTACTATTTATATTATGTA
50598275 CCTGATTTTA
Statistics
Matches: 136, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
53 32 0.24
54 6 0.04
55 10 0.07
59 1 0.01
60 87 0.64
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (60 bp):
TATTATGTATGTTATGTATATTACTATTTATATTATGTATGTTATGTATATTATTGTTTA
Found at i:50602321 original size:27 final size:27
Alignment explanation
Indices: 50602263--50602430 Score: 209
Period size: 27 Copynumber: 6.3 Consensus size: 27
50602253 TATAACAGTT
* *
50602263 ATTTTACCCTATGGGGGTATTTTCGATC
1 ATTTTACCCTATGGGAGTA-TTTCGGTC
*
50602291 ATTTTACCCTATAGGAGTATTTCGGTC
1 ATTTTACCCTATGGGAGTATTTCGGTC
* *
50602318 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGGGAGTATTTCGGTC
*
50602345 ATTTTACCTTATGAGG-G---TTCGGTC
1 ATTTTACCCTATG-GGAGTATTTCGGTC
50602369 ATTTTACCCTATGGGAGTATTTCGGTC
1 ATTTTACCCTATGGGAGTATTTCGGTC
* * *
50602396 ATTTTACCCTATGGGTGTATTTTGGTT
1 ATTTTACCCTATGGGAGTATTTCGGTC
50602423 ATTTTACC
1 ATTTTACC
50602431 TATTTTGGAG
Statistics
Matches: 123, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
23 2 0.02
24 19 0.15
27 83 0.67
28 19 0.15
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATGGGAGTATTTCGGTC
Found at i:50602383 original size:51 final size:53
Alignment explanation
Indices: 50602263--50602408 Score: 217
Period size: 51 Copynumber: 2.8 Consensus size: 53
50602253 TATAACAGTT
50602263 ATTTTACCCTATGGGGGTATTTTCGATCATTTTACCCTAT-AGGAGTATTTCGGTC
1 ATTTTACCCTATGGGGGTA-TTTCGATCATTTTACCCTATGAGGAG--TTTCGGTC
*
50602318 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCTTATGAGG-G-TTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGAGTTTCGGTC
* *
50602369 ATTTTACCCTATGGGAGTATTTCGGTCATTTTACCCTATG
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATG
50602409 GGTGTATTTT
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
51 44 0.51
54 20 0.23
55 22 0.26
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (53 bp):
ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGAGGAGTTTCGGTC
Found at i:50602386 original size:78 final size:78
Alignment explanation
Indices: 50602284--50602431 Score: 242
Period size: 78 Copynumber: 1.9 Consensus size: 78
50602274 TGGGGGTATT
50602284 TTCGATCATTTTACCCTATAGGAGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTT
1 TTCGATCATTTTACCCTATAGGAGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTT
50602349 TACCTTATGAGGG
66 TACCTTATGAGGG
* * * * * *
50602362 TTCGGTCATTTTACCCTATGGGAGTATTTCGGTCATTTTACCCTATGGGTGTATTTTGGTTATTT
1 TTCGATCATTTTACCCTATAGGAGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTT
50602427 TACCT
66 TACCT
50602432 ATTTTGGAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.44
Consensus pattern (78 bp):
TTCGATCATTTTACCCTATAGGAGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTT
TACCTTATGAGGG
Found at i:50604758 original size:9 final size:9
Alignment explanation
Indices: 50604744--50604899 Score: 87
Period size: 9 Copynumber: 15.7 Consensus size: 9
50604734 ATATTATTAG
50604744 TATGTATAT
1 TATGTATAT
50604753 TATGTATAT
1 TATGTATAT
*
50604762 TACTTTTTATAT
1 TA---TGTATAT
* *
50604774 AATGTATGT
1 TATGTATAT
50604783 TATGTTTACTAT
1 TATG--TA-TAT
*
50604795 TATTTATAT
1 TATGTATAT
*
50604804 TATGTATGT
1 TATGTATAT
50604813 TATGTATAT
1 TATGTATAT
*
50604822 TACAATTTATAT
1 T---ATGTATAT
*
50604834 TATGTATGT
1 TATGTATAT
50604843 TATGTATAT
1 TATGTATAT
*
50604852 TGTTGTTTATAT
1 T-ATG--TATAT
* *
50604864 TATTTATGT
1 TATGTATAT
50604873 TATGTATAT
1 TATGTATAT
50604882 TACTGTTTATAT
1 TA-TG--TATAT
50604894 TATGTA
1 TATGTA
50604900 CCTGACTTTA
Statistics
Matches: 112, Mismatches: 20, Indels: 30
0.69 0.12 0.19
Matches are distributed among these distances:
9 68 0.61
10 6 0.05
11 5 0.04
12 33 0.29
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.58
Consensus pattern (9 bp):
TATGTATAT
Found at i:50604763 original size:21 final size:21
Alignment explanation
Indices: 50604738--50604899 Score: 97
Period size: 21 Copynumber: 8.0 Consensus size: 21
50604728 AAATTGATAT
* *
50604738 TATTAGTATGTATATTATGTA
1 TATTACTATTTATATTATGTA
* *
50604759 TATTACTTTTTATATAATGTA
1 TATTACTATTTATATTATGTA
* *
50604780 TGTTA-TGTTTACTATTAT-T-
1 TATTACTATTTA-TATTATGTA
* * *
50604799 TA-TATTATGTATGTTATGTA
1 TATTACTATTTATATTATGTA
*
50604819 TATTACAATTTATATTATGTA
1 TATTACTATTTATATTATGTA
* * * *
50604840 T-GT--TATGTATATTGTTGTT
1 TATTACTATTTATATT-ATGTA
* *
50604859 TA-TATTATTTATGTTATGTA
1 TATTACTATTTATATTATGTA
*
50604879 TATTACTGTTTATATTATGTA
1 TATTACTATTTATATTATGTA
50604900 CCTGACTTTA
Statistics
Matches: 104, Mismatches: 27, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
18 15 0.14
19 11 0.11
20 14 0.13
21 64 0.62
ACGTcount: A:0.29, C:0.02, G:0.11, T:0.57
Consensus pattern (21 bp):
TATTACTATTTATATTATGTA
Found at i:50604786 original size:30 final size:30
Alignment explanation
Indices: 50604744--50604899 Score: 199
Period size: 30 Copynumber: 5.2 Consensus size: 30
50604734 ATATTATTAG
*
50604744 TATGTATATTATGTATATTACTTTTTATAT
1 TATGTATGTTATGTATATTACTTTTTATAT
* * *
50604774 AATGTATGTTATGTTTACTA-TTATTTATAT
1 TATGTATGTTATGTATATTACTT-TTTATAT
**
50604804 TATGTATGTTATGTATATTACAATTTATAT
1 TATGTATGTTATGTATATTACTTTTTATAT
*
50604834 TATGTATGTTATGTATATT-GTTGTTTATAT
1 TATGTATGTTATGTATATTACTT-TTTATAT
* *
50604864 TATTTATGTTATGTATATTACTGTTTATAT
1 TATGTATGTTATGTATATTACTTTTTATAT
50604894 TATGTA
1 TATGTA
50604900 CCTGACTTTA
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
29 2 0.02
30 103 0.97
31 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.58
Consensus pattern (30 bp):
TATGTATGTTATGTATATTACTTTTTATAT
Found at i:50604810 original size:60 final size:60
Alignment explanation
Indices: 50604744--50604899 Score: 222
Period size: 60 Copynumber: 2.6 Consensus size: 60
50604734 ATATTATTAG
* * * *
50604744 TATGTATATTATGTATATTACTTTTTATATAATGTATGTTATGTTTACTATTATTTATAT
1 TATGTATGTTATGTATATTACTATTTATATTATGTATGTTATGTATACTATTATTTATAT
* * * *
50604804 TATGTATGTTATGTATATTACAATTTATATTATGTATGTTATGTATATTGTTGTTTATAT
1 TATGTATGTTATGTATATTACTATTTATATTATGTATGTTATGTATACTATTATTTATAT
* *
50604864 TATTTATGTTATGTATATTACTGTTTATATTATGTA
1 TATGTATGTTATGTATATTACTATTTATATTATGTA
50604900 CCTGACTTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 85 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.58
Consensus pattern (60 bp):
TATGTATGTTATGTATATTACTATTTATATTATGTATGTTATGTATACTATTATTTATAT
Found at i:50605281 original size:17 final size:17
Alignment explanation
Indices: 50605259--50605291 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
50605249 GACACACTTG
50605259 ATGTTATTGATGATACC
1 ATGTTATTGATGATACC
50605276 ATGTTATTGATGATAC
1 ATGTTATTGATGATAC
50605292 TTCCCAGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (17 bp):
ATGTTATTGATGATACC
Found at i:50607324 original size:70 final size:69
Alignment explanation
Indices: 50607201--50607346 Score: 256
Period size: 70 Copynumber: 2.1 Consensus size: 69
50607191 AATGTTTACA
* * *
50607201 CATTCTATCAATTTAATCCTAAATATAAAAAGTTTAACAAATTTAGTGCTCAATGTTTACAAAAT
1 CATTTTATCAATTTAATCCTAAATATAAAAAGTTCAACAAATTTAGCGCTCAATGTTTACAAAAT
50607266 TTGT
66 TTGT
50607270 CATTTTATCAATTTAATCCTAAATATAAAAAAGTTCAACAAATTTAGCGCTCAATGTTTACAAAA
1 CATTTTATCAATTTAATCCTAAATAT-AAAAAGTTCAACAAATTTAGCGCTCAATGTTTACAAAA
50607335 TTTGT
65 TTTGT
50607340 CATTTTA
1 CATTTTA
50607347 GTTCAAATTC
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
69 25 0.34
70 48 0.66
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (69 bp):
CATTTTATCAATTTAATCCTAAATATAAAAAGTTCAACAAATTTAGCGCTCAATGTTTACAAAAT
TTGT
Found at i:50608591 original size:60 final size:61
Alignment explanation
Indices: 50608493--50608645 Score: 168
Period size: 61 Copynumber: 2.5 Consensus size: 61
50608483 TAAATTTTGT
** *
50608493 AATTTTGTAAATGTTGAGGACTAAATTTATTGAA-TTTTTATAATTTAA-ACTAAAATGATA
1 AATTTTGTAAACATTAAGGACTAAATTTATTGAATTTTTTAT-ATTTAAGACTAAAATGATA
* * *
50608553 AATTTTGTAAACATTAAGG-CTAAATTTGTTGAACTTTTTTATATTTAAGATTAAATTGATA
1 AATTTTGTAAACATTAAGGACTAAATTTATTGAA-TTTTTTATATTTAAGACTAAAATGATA
* * * *
50608614 AAATATGTAAACATTAGAGAATTAAATTTATT
1 AATTTTGTAAACATTA-AGGACTAAATTTATT
50608646 ATTAGACTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
59 13 0.17
60 22 0.29
61 31 0.40
62 2 0.03
63 9 0.12
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (61 bp):
AATTTTGTAAACATTAAGGACTAAATTTATTGAATTTTTTATATTTAAGACTAAAATGATA
Found at i:50614012 original size:22 final size:21
Alignment explanation
Indices: 50613956--50614012 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
50613946 TTTAAATACT
50613956 TTTTAGAATTTTATAAAAAAATA
1 TTTTA-AATTTT-TAAAAAAATA
* *
50613979 TTTTAAACTTTT-AAAATATA
1 TTTTAAATTTTTAAAAAAATA
50613999 TATTTACAATTTTT
1 T-TTTA-AATTTTT
50614013 TCACAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 8 0.28
21 5 0.17
22 11 0.38
23 5 0.17
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTTAAATTTTTAAAAAAATA
Found at i:50625648 original size:30 final size:30
Alignment explanation
Indices: 50625593--50625649 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
50625583 ACAATTTAAC
* *
50625593 TTTTTTTAAAAGTTTAATGGTCAAATTCGA
1 TTTTTTTAAAAGGTTAATGGCCAAATTCGA
50625623 TTTTTTTAAAAGGTTAA-GCGCCAAATT
1 TTTTTTTAAAAGGTTAATG-GCCAAATT
50625650 TAATATTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (30 bp):
TTTTTTTAAAAGGTTAATGGCCAAATTCGA
Found at i:50636435 original size:27 final size:27
Alignment explanation
Indices: 50636397--50636453 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
50636387 CATAAAAAGG
50636397 TTATGTCGAATCATGATCTCTTGTGAC
1 TTATGTCGAATCATGATCTCTTGTGAC
50636424 TTATGTCGAATCATGATCTCTTGTGAC
1 TTATGTCGAATCATGATCTCTTGTGAC
50636451 TTA
1 TTA
50636454 GGTAGCAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
TTATGTCGAATCATGATCTCTTGTGAC
Found at i:50639266 original size:20 final size:22
Alignment explanation
Indices: 50639241--50639290 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
50639231 TGTACCAATT
*
50639241 TTCAAACAAATTAAAGT-A-CA
1 TTCAAACAAAATAAAGTCATCA
* *
50639261 TTCAAATAAAATAAATTCATCA
1 TTCAAACAAAATAAAGTCATCA
50639283 TTCAAACA
1 TTCAAACA
50639291 TATATATTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 14 0.58
21 1 0.04
22 9 0.38
ACGTcount: A:0.54, C:0.16, G:0.02, T:0.28
Consensus pattern (22 bp):
TTCAAACAAAATAAAGTCATCA
Found at i:50642560 original size:20 final size:22
Alignment explanation
Indices: 50642535--50642584 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
50642525 TGTACCAATT
*
50642535 TTCAAACAAATTAAAGT-A-CA
1 TTCAAACAAAATAAAGTCATCA
* *
50642555 TTCAAATAAAATAAATTCATCA
1 TTCAAACAAAATAAAGTCATCA
50642577 TTCAAACA
1 TTCAAACA
50642585 TATATATTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 14 0.58
21 1 0.04
22 9 0.38
ACGTcount: A:0.54, C:0.16, G:0.02, T:0.28
Consensus pattern (22 bp):
TTCAAACAAAATAAAGTCATCA
Found at i:50646180 original size:10 final size:11
Alignment explanation
Indices: 50646165--50646198 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
50646155 GCAAAAAAAG
50646165 TTTCTATTTT-
1 TTTCTATTTTC
50646175 TTTCTATTTTC
1 TTTCTATTTTC
*
50646186 TTGCTATTTTC
1 TTTCTATTTTC
50646197 TT
1 TT
50646199 ATTGTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.09, C:0.15, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTCTATTTTC
Found at i:50646445 original size:16 final size:18
Alignment explanation
Indices: 50646409--50646446 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
50646399 AAAATATTTA
*
50646409 TTTTAATGTTTTTAGTAT
1 TTTTAATGTTATTAGTAT
50646427 TTTTAAT-TTATTA-TAT
1 TTTTAATGTTATTAGTAT
50646443 TTTT
1 TTTT
50646447 TAAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 5 0.26
18 7 0.37
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (18 bp):
TTTTAATGTTATTAGTAT
Found at i:50646945 original size:22 final size:23
Alignment explanation
Indices: 50646920--50646971 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
50646910 TACTTTTTTG
* *
50646920 TTATTTACCATTTACTACTCAT-
1 TTATTAACCATTTACTACTAATA
**
50646942 TTATTAACTGTTTACTACTAATA
1 TTATTAACCATTTACTACTAATA
50646965 TTATTAA
1 TTATTAA
50646972 TCTTTATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.33, C:0.15, G:0.02, T:0.50
Consensus pattern (23 bp):
TTATTAACCATTTACTACTAATA
Found at i:50646977 original size:22 final size:22
Alignment explanation
Indices: 50646930--50646977 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
50646920 TTATTTACCA
* *
50646930 TTTACTACTCATTTATTAACTG
1 TTTACTACTAATTTATTAACTC
50646952 TTTACTACTAATATTATTAA-TC
1 TTTACTACTAAT-TTATTAACTC
50646974 TTTA
1 TTTA
50646978 TAATTACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.31, C:0.15, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTACTACTAATTTATTAACTC
Found at i:50647134 original size:27 final size:27
Alignment explanation
Indices: 50647076--50647135 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
50647066 TTTAATTATC
* *
50647076 TAATAATTGTAAATTAACTTGTATAAA
1 TAATATTTGTAAATTAACTTGCATAAA
* *
50647103 AAATATTTGTAAGTTAACTTGCA-AAA
1 TAATATTTGTAAATTAACTTGCATAAA
50647129 TTAATAT
1 -TAATAT
50647136 AATTTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (27 bp):
TAATATTTGTAAATTAACTTGCATAAA
Found at i:50647846 original size:28 final size:28
Alignment explanation
Indices: 50647804--50647857 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
50647794 GTTAATGATT
*
50647804 TTTATTAAATTTTTTTGA-AAATTTTAGA
1 TTTATTAAATATTTTT-ATAAATTTTAGA
*
50647832 TTTATTTAATATTTTTATAAATTTTA
1 TTTATTAAATATTTTTATAAATTTTA
50647858 ATAATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 22 0.96
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (28 bp):
TTTATTAAATATTTTTATAAATTTTAGA
Found at i:50660830 original size:16 final size:16
Alignment explanation
Indices: 50660811--50660857 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
50660801 AATATATACC
50660811 ATATTTAATATAAATA
1 ATATTTAATATAAATA
*
50660827 ATATTTAAGATAAATA
1 ATATTTAATATAAATA
50660843 ATATTT--TATAAATA
1 ATATTTAATATAAATA
50660857 A
1 A
50660858 AAGAGATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 8 0.28
16 21 0.72
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
ATATTTAATATAAATA
Found at i:50665250 original size:41 final size:41
Alignment explanation
Indices: 50665205--50665297 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 41
50665195 GATTCACTGG
* * *
50665205 CACTTAGCTTGTTAGGCTTA-AATCCTGATTCAGATCACCGA
1 CACTTAGCCTGCTAGGCTTATAAT-CTAATTCAGATCACCGA
* * *
50665246 CACTTAGCCTGCTAGGCTTATAGTCTAATTCAGTTCACCGG
1 CACTTAGCCTGCTAGGCTTATAATCTAATTCAGATCACCGA
50665287 CACTTAGCCTG
1 CACTTAGCCTG
50665298 ATTCAGATCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 43 0.96
42 2 0.04
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (41 bp):
CACTTAGCCTGCTAGGCTTATAATCTAATTCAGATCACCGA
Found at i:50665301 original size:25 final size:25
Alignment explanation
Indices: 50665273--50665322 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
50665263 TTATAGTCTA
*
50665273 ATTCAGTTCACCGGCACTTAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTG
50665298 ATTCAGATCACCGGCACTTAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTG
50665323 CTAGGCTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (25 bp):
ATTCAGATCACCGGCACTTAGCCTG
Found at i:50665309 original size:66 final size:66
Alignment explanation
Indices: 50665228--50665363 Score: 220
Period size: 66 Copynumber: 2.1 Consensus size: 66
50665218 AGGCTTAAAT
*
50665228 CCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTTATAG-TCTAATTCAGTTCACCGGCACTT
1 CCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTTATAGCT-TAATTCAGATCACCGGCACTT
50665292 AG
65 AG
* * *
50665294 CCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTTAGATCACCGGCACTTA
1 CCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTTATAGCTTAATTCAGATCACCGGCACTTA
50665359 G
66 G
50665360 CCTG
1 CCTG
50665364 CTAGGCTTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
66 64 0.98
67 1 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (66 bp):
CCTGATTCAGATCACCGACACTTAGCCTGCTAGGCTTATAGCTTAATTCAGATCACCGGCACTTA
G
Found at i:50665353 original size:41 final size:41
Alignment explanation
Indices: 50665291--50665491 Score: 312
Period size: 41 Copynumber: 4.9 Consensus size: 41
50665281 CACCGGCACT
50665291 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTA
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTA
* *
50665332 TAGCTTGATTTAGATCACCGGCACTTAGCCTGCTAGGCTTA
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTA
* ** *
50665373 TAGCCTGATTCAGTTCAATGGCACTTAGCTTGCTAGGCTTA
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTA
*
50665414 TAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTA
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTA
* * *
50665455 TAACCTGATTTAGATCACCGGTACTTAGCCTGCTAGG
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
50665492 TTTTAAAACC
Statistics
Matches: 145, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 145 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (41 bp):
TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTA
Found at i:50665366 original size:107 final size:107
Alignment explanation
Indices: 50665198--50665401 Score: 300
Period size: 107 Copynumber: 1.9 Consensus size: 107
50665188 TTAAATAGAT
* * * *
50665198 TCACTGGCACTTAGCTTGTTAGGCTTAAATCCTGATTCAGATCACCGACACTTAGCCTGCTAGGC
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGCTAGGC
* *
50665263 TTATAGTCTAATTCAGTTCACCGGCACTTAGCCTGATTCAGA
66 TTATAGCCTAATTCAGTTCAACGGCACTTAGCCTGATTCAGA
* * * *
50665305 TCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTTAGATCACCGGCACTTAGCCTGCTAGGC
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGCTAGGC
* *
50665370 TTATAGCCTGATTCAGTTCAATGGCACTTAGC
66 TTATAGCCTAATTCAGTTCAACGGCACTTAGC
50665402 TTGCTAGGCT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
107 85 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (107 bp):
TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCGACACTTAGCCTGCTAGGC
TTATAGCCTAATTCAGTTCAACGGCACTTAGCCTGATTCAGA
Found at i:50665514 original size:123 final size:122
Alignment explanation
Indices: 50665291--50665514 Score: 333
Period size: 123 Copynumber: 1.8 Consensus size: 122
50665281 CACCGGCACT
* *
50665291 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTTAGATCACCGGCAC
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCACCGGCAC
* * * *
50665356 TTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCAATGGCACTTAGCTTGCTAGGCTTA
66 TTAGCCTGCTAGGCTTAAAACCTGA-TAAATTCAATGGCACTTAGCTTGCTAGGCTTA
* *
50665414 TAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCACCGGTAC
1 TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCACCGGCAC
*
50665479 TTAGCCTGCTAGGTTTTAAAACCTGA-AAATCTCAAT
66 TTAGCCTGCTAGG-CTTAAAACCTGATAAAT-TCAAT
50665515 TTCTCATATA
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
122 2 0.02
123 79 0.88
124 9 0.10
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (122 bp):
TAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCACCGGCAC
TTAGCCTGCTAGGCTTAAAACCTGATAAATTCAATGGCACTTAGCTTGCTAGGCTTA
Found at i:50672322 original size:41 final size:41
Alignment explanation
Indices: 50672277--50672457 Score: 211
Period size: 41 Copynumber: 4.4 Consensus size: 41
50672267 AGATTCACTC
* * * *
50672277 GCACTTAGCTTGTTAGGCTTAAAGCCTGATTTAGATCACCA
1 GCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCG
* * *
50672318 GCACTTAGCCTGCTCGGCTTATAGCCTGATTCAGTTCACCG
1 GCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCG
* * *
50672359 GCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCATCG
1 GCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCG
* * *
50672400 GCATTTAGCTTGCTAGGCTTATAA-CCTGATTTAGATCACCG
1 GCACTTAGCCTGCTAGGCTTA-AAGCCTGATTCAGATCACCG
* *
50672441 GTACTTAGCCTACTAGG
1 GCACTTAGCCTGCTAGG
50672458 TTTTAAAACC
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
41 119 0.99
42 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.31
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACCG
Found at i:50674933 original size:41 final size:41
Alignment explanation
Indices: 50674844--50674933 Score: 92
Period size: 41 Copynumber: 2.2 Consensus size: 41
50674834 AGGCTTATTT
* * ** *
50674844 CCAGTGAATCAATTTAGACTCTATGTCTAGCAGGCTGGATG
1 CCAGTGAAACAATTCAGACTCTATGTCTAGCAGGCAAGATA
* * *
50674885 CCGGTGAAACAATTCAGACTTTATGTCTATCAGGCAA-AGTA
1 CCAGTGAAACAATTCAGACTCTATGTCTAGCAGGCAAGA-TA
50674926 CCAGTGAA
1 CCAGTGAA
50674934 TCTATTTATA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (41 bp):
CCAGTGAAACAATTCAGACTCTATGTCTAGCAGGCAAGATA
Found at i:50680495 original size:7 final size:7
Alignment explanation
Indices: 50680483--50680511 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
50680473 CTTTTAAAGA
50680483 TCAAGCT
1 TCAAGCT
50680490 TCAAGCT
1 TCAAGCT
50680497 TCAAGCT
1 TCAAGCT
50680504 TCAAGCT
1 TCAAGCT
50680511 T
1 T
50680512 GAGGATCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (7 bp):
TCAAGCT
Found at i:50683800 original size:21 final size:21
Alignment explanation
Indices: 50683776--50683822 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
50683766 GGCGGAGATT
*
50683776 TTAGATATTGTAGCGGTGAGA
1 TTAGATATTGTAGCAGTGAGA
*
50683797 TTAGATATTGTAGCAGTGATA
1 TTAGATATTGTAGCAGTGAGA
50683818 TTAGA
1 TTAGA
50683823 AACAATGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (21 bp):
TTAGATATTGTAGCAGTGAGA
Found at i:50687496 original size:17 final size:18
Alignment explanation
Indices: 50687469--50687504 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
50687459 GTTAGTACTC
*
50687469 AATATTTAATTAAATAAA
1 AATATTTAATTAAAGAAA
50687487 AATA-TTAATTAAAGAAA
1 AATATTTAATTAAAGAAA
50687504 A
1 A
50687505 TTTATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
AATATTTAATTAAAGAAA
Found at i:50689043 original size:21 final size:21
Alignment explanation
Indices: 50689017--50689059 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
50689007 ATGATCTAAA
* *
50689017 TCTCAAATGTTGTTCTAGGTG
1 TCTCAAATGTTATTATAGGTG
50689038 TCTCAAATGTTATTATAGGTG
1 TCTCAAATGTTATTATAGGTG
50689059 T
1 T
50689060 ATAACATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (21 bp):
TCTCAAATGTTATTATAGGTG
Found at i:50691259 original size:11 final size:11
Alignment explanation
Indices: 50691243--50691282 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
50691233 TTTAATCAAA
50691243 TATATATATTT
1 TATATATATTT
50691254 TATATATATTAAT
1 TATATATATT--T
50691267 TATATATATTT
1 TATATATATTT
*
50691278 AATAT
1 TATAT
50691283 GGGCCGGGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 15 0.58
13 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TATATATATTT
Found at i:50691260 original size:13 final size:13
Alignment explanation
Indices: 50691243--50691276 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
50691233 TTTAATCAAA
50691243 TATATATATT--T
1 TATATATATTAAT
50691254 TATATATATTAAT
1 TATATATATTAAT
50691267 TATATATATT
1 TATATATATT
50691277 TAATATGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
13 11 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TATATATATTAAT
Found at i:50692625 original size:8 final size:9
Alignment explanation
Indices: 50692610--50692731 Score: 55
Period size: 9 Copynumber: 11.9 Consensus size: 9
50692600 TTTATATATC
50692610 ATTATATTAA
1 ATTAT-TTAA
50692620 ATTATTTAA
1 ATTATTTAA
*
50692629 ATAATTTATGTA
1 ATTATTTA---A
50692641 TCATTATGTTAA
1 --ATTAT-TTAA
50692653 ATTATTTAA
1 ATTATTTAA
*
50692662 ATATAATTTATT
1 AT-T-ATTTA-A
50692674 ATTATATTAA
1 ATTAT-TTAA
50692684 ATTATTTAA
1 ATTATTTAA
*
50692693 ATCTTATTTATT
1 A--TTATTTA-A
*
50692705 ATTATATTTA
1 ATTAT-TTAA
*
50692715 ATTTTTTAA
1 ATTATTTAA
*
50692724 AATATTTA
1 ATTATTTA
50692732 TATATCATCC
Statistics
Matches: 87, Mismatches: 11, Indels: 29
0.69 0.09 0.23
Matches are distributed among these distances:
9 31 0.36
10 26 0.30
11 18 0.21
12 5 0.06
14 4 0.05
15 3 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (9 bp):
ATTATTTAA
Found at i:50692637 original size:33 final size:34
Alignment explanation
Indices: 50692595--50692739 Score: 155
Period size: 31 Copynumber: 4.5 Consensus size: 34
50692585 TAGATTAATT
50692595 TATATTTTATATATCATTATATTAAATTATTTAAA
1 TATA-TTTATATATCATTATATTAAATTATTTAAA
* *
50692630 TA-ATTTATGTATCATTATGTTAAATTATTTAAA
1 TATATTTATATATCATTATATTAAATTATTTAAA
*
50692663 TATAATT-TAT-T-ATTATATTAAATTATTTAAA
1 TATATTTATATATCATTATATTAAATTATTTAAA
* * *
50692694 TCT-TATT-TAT-T-ATTATATTTAATTTTTTAAA
1 TATAT-TTATATATCATTATATTAAATTATTTAAA
50692725 -ATATTTATATATCAT
1 TATATTTATATATCAT
50692740 CCATTTTACA
Statistics
Matches: 94, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
30 3 0.03
31 49 0.52
32 2 0.02
33 34 0.36
34 4 0.04
35 2 0.02
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (34 bp):
TATATTTATATATCATTATATTAAATTATTTAAA
Done.