Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 111 of 163
Found at i:35744245 original size:4 final size:4
Alignment explanation
Indices: 35744236--35744309 Score: 107
Period size: 4 Copynumber: 19.0 Consensus size: 4
35744226 TCTTAGTTTT
*
35744236 TACA TACA T--A TACA TACA TACA TACA TACA TACA TACA TACA CACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* *
35744282 TACA CACA TACA CACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA
35744310 CATCTTTTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.03
4 60 0.97
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (4 bp):
TACA
Found at i:35770672 original size:6 final size:6
Alignment explanation
Indices: 35770653--35770687 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
35770643 AAAAACACAA
*
35770653 AAAAAG AAAGAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
35770688 AAAGGGGCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:35772143 original size:88 final size:87
Alignment explanation
Indices: 35771911--35772136 Score: 344
Period size: 88 Copynumber: 2.6 Consensus size: 87
35771901 TGAAGCAAAC
** * *
35771911 TGAAAATGGCAGATCTTGCCTTCCTGTACTGACAATGAAGCAGATTGAAGATATCAGCCCTGTCT
1 TGAAAAT-GCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCCTGTCT
*
35771976 CCCTGGGCAGTAGTGGAGTAGGT
65 CCCTGGGCAGTAGTGGACTAGGT
* *
35771999 TGAAAATGACAGATCTTGCATTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGTCT
1 TGAAAATG-CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCCTGTCT
35772064 CCCTGGGCAGTAGTGGACTAGGT
65 CCCTGGGCAGTAGTGGACTAGGT
* *
35772087 TGAAAATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGTAGATCGAAG
1 TGAAAAT-GCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAG
35772137 GCACCAGTCT
Statistics
Matches: 126, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
87 1 0.01
88 124 0.98
89 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (87 bp):
TGAAAATGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCCTGTCTC
CCTGGGCAGTAGTGGACTAGGT
Found at i:35772413 original size:50 final size:50
Alignment explanation
Indices: 35772330--35773014 Score: 425
Period size: 50 Copynumber: 13.7 Consensus size: 50
35772320 TTTAGCATTA
* ** *
35772330 CAGTGG-ACAAGATTGAAGCCGCAACGGTGGATCTTACTTTCCTGGTGGTG
1 CAGTGGAAC-AGATTGAAGCCACAACGGCAGATCTTACTTTCCTGGCGGTG
* * ** * * * *
35772380 TAGTGGAACAGATTGAAGTCACAACGGCAGATC-TGGTTTCCCCGACAGCG
1 CAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACTTT-CCTGGCGGTG
* ** * *
35772430 CAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACTTTCCTGGCGGTG
* * ** * * * *
35772480 CAGTGGAGCAGATTGAAGTCACAACGGCAGATC-TGGTTTCCCCGACAGCG
1 CAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACTTT-CCTGGCGGTG
* ** * *
35772530 CAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACTTTCCTGGCGGTG
* * ** * * * *
35772580 CAGTGGAGCAGATTGAAGTCACAACGGCAGATC-TGGTTTCCCCGACAGCG
1 CAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACTTT-CCTGGCGGTG
* ** * *
35772630 CAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACTTTCCTGGCGGTG
* * ** * * * *
35772680 CAGTGGAGCAGATTGAAGTCACAACGGCAGATC-TGGTTTCCCCGACAGCG
1 CAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACTTT-CCTGGCGGTG
* ** * *
35772730 CAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACTTTCCTGGCGGTG
* * ** * * * *
35772780 CAGTGGAGCAGATTGAAGTCACAACGGCAGATC-TGGTTTCCCCGACAGCG
1 CAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACTTT-CCTGGCGGTG
* ** * *
35772830 CAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTG
1 CAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACTTTCCTGGCGGTG
* * ** ** * * * *
35772880 CAGTGGAGCAGATTGAAGTCACAACGGTGGATC-TGGTTTCCCCGACAGCG
1 CAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACTTT-CCTGGCGGTG
* * * * * * *
35772930 CAAT-TAAAAGGATTGAAGCCACAACGACAGATCTTAC-CTCCTTAGTGGTG
1 CAGTGGAACA-GATTGAAGCCACAACGGCAGATCTTACTTTCC-TGGCGGTG
* * *
35772980 CAGTTGAACAGATTGAAGCTACAACGGCGGATCTT
1 CAGTGGAACAGATTGAAGCCACAACGGCAGATCTT
35773015 GTTTCCTCGA
Statistics
Matches: 452, Mismatches: 167, Indels: 32
0.69 0.26 0.05
Matches are distributed among these distances:
49 23 0.05
50 408 0.90
51 21 0.05
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (50 bp):
CAGTGGAACAGATTGAAGCCACAACGGCAGATCTTACTTTCCTGGCGGTG
Found at i:35773047 original size:100 final size:100
Alignment explanation
Indices: 35772338--35773026 Score: 1182
Period size: 100 Copynumber: 6.9 Consensus size: 100
35772328 TACAGTGGAC
* ** * * * *
35772338 AAGATTGAAGCCGCAACGGTGGATCTTACTTTCCTGGTGGTGTAGTGGAACAGATTGAAGTCACA
1 AAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACA
35772403 ACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAA
66 ACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAA
35772438 AAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACA
1 AAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACA
35772503 ACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAA
66 ACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAA
35772538 AAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACA
1 AAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACA
35772603 ACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAA
66 ACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAA
35772638 AAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACA
1 AAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACA
35772703 ACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAA
66 ACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAA
35772738 AAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACA
1 AAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACA
35772803 ACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAA
66 ACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAA
35772838 AAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACA
1 AAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACA
**
35772903 ACGGTGGATCTGGTTTCCCCGACAGCGCAATTAAA
66 ACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAA
* * * * * * * *
35772938 AGGATTGAAGCCACAACGACAGATCTTACCTCCTTAGTGGTGCAGTTGAACAGATTGAAG-CTAC
1 AAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTC-AC
* * *
35773002 AACGGCGGATCTTGTTTCCTCGACA
65 AACGGCAGATCTGGTTTCCCCGACA
35773027 TTGTAATTGG
Statistics
Matches: 568, Mismatches: 20, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
99 1 0.00
100 567 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (100 bp):
AAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTGAAGTCACA
ACGGCAGATCTGGTTTCCCCGACAGCGCAATTAAA
Found at i:35783972 original size:21 final size:21
Alignment explanation
Indices: 35783944--35783993 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
35783934 CACATGATCG
35783944 TGTCCCTTGGTCACACGGGCA
1 TGTCCCTTGGTCACACGGGCA
* *
35783965 TGTGCCTTGGTCACACGGCCA
1 TGTCCCTTGGTCACACGGGCA
35783986 TGTCCCTT
1 TGTCCCTT
35783994 AACCACACTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.12, C:0.34, G:0.26, T:0.28
Consensus pattern (21 bp):
TGTCCCTTGGTCACACGGGCA
Found at i:35783990 original size:42 final size:42
Alignment explanation
Indices: 35783914--35783993 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
35783904 TTTTATTTTT
* * * *
35783914 ACACGGGCGTATGCCTTGGTCACATGATCGTGTCCCTTGGTC
1 ACACGGGCATATGCCTTGGTCACACGACCATGTCCCTTGGTC
* *
35783956 ACACGGGCATGTGCCTTGGTCACACGGCCATGTCCCTT
1 ACACGGGCATATGCCTTGGTCACACGACCATGTCCCTT
35783994 AACCACACTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.15, C:0.31, G:0.28, T:0.26
Consensus pattern (42 bp):
ACACGGGCATATGCCTTGGTCACACGACCATGTCCCTTGGTC
Found at i:35790858 original size:25 final size:24
Alignment explanation
Indices: 35790797--35790859 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 24
35790787 TTGTTATGCA
*
35790797 CTAATGAACAGAGAGCACTGAAGTG
1 CTAAT-AACAGAGAGCACAGAAGTG
*
35790822 CT-AT-ACAGAGAGCACAGACGTG
1 CTAATAACAGAGAGCACAGAAGTG
35790844 CTAATAATCAGAGAGC
1 CTAATAA-CAGAGAGC
35790860 GCGCTAGAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 18 0.55
23 2 0.06
24 3 0.09
25 10 0.30
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (24 bp):
CTAATAACAGAGAGCACAGAAGTG
Found at i:35793410 original size:115 final size:114
Alignment explanation
Indices: 35792950--35793469 Score: 700
Period size: 114 Copynumber: 4.6 Consensus size: 114
35792940 ATAATGCTGA
* * * * **
35792950 CAAAACGCATCGTTTGGTCTTGAGGTGTATTAGAATTAGTAGCGCCTATGAAAAAACGCCATTAA
1 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAA
* *
35793015 AGCAGAGTATTAGCGGCGCATTAT-AAAAACGCCGCAAAAAATCTTAAC
66 AGCACAGTATTAGCGGCGCATTATAAAAAACGCCGCAAAATATCTTAAC
* * ***
35793063 CAAAACGTAGCGTTTGGTCTTGAGGTATATTAGAACTAGTGGCGCTTATGAAAAATTACCGCTAA
1 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAA
* * * *
35793128 AGCACTGTATTAGCGGTGCATTATAAAAAGCACCGCAAAATATCTTAAC
66 AGCACAGTATTAGCGGCGCATTATAAAAAACGCCGCAAAATATCTTAAC
* * *
35793177 CAAAACACAGCGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCTGCTAA
1 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAA
** ** * * *
35793242 AGCTTAGTATTAGCGAAGCATTATAAAAAGCGCCGCAAAATAGCTTAAT
66 AGCACAGTATTAGCGGCGCATTATAAAAAACGCCGCAAAATATCTTAAC
35793291 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAAAACGCCGCTA
1 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATG-AAAAAACGCCGCTA
* * * *
35793356 AAGCACAGTATTAGCAGCGCCTTATAAAAAACGTCGTAAAATATCTTAAC
65 AAGCACAGTATTAGCGGCGCATTATAAAAAACGCCGCAAAATATCTTAAC
* * * * *
35793406 CAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTGGTGGCGCTCATGTAAAAATGCCGCTA
1 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTA
35793470 TAGAGCAACT
Statistics
Matches: 353, Mismatches: 52, Indels: 3
0.87 0.13 0.01
Matches are distributed among these distances:
113 75 0.21
114 179 0.51
115 99 0.28
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (114 bp):
CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAA
AGCACAGTATTAGCGGCGCATTATAAAAAACGCCGCAAAATATCTTAAC
Found at i:35793431 original size:229 final size:227
Alignment explanation
Indices: 35792950--35793461 Score: 709
Period size: 229 Copynumber: 2.2 Consensus size: 227
35792940 ATAATGCTGA
* * * * *
35792950 CAAAACGCATCGTTTGGTCTTGAGGTGTATTAGAATTAGTAGCGCCTATGAAAAAACGCCATTAA
1 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCACTAA
** * *
35793015 AGCAGAGTATTAGCGGCGCATTATAAAAACGCCGCAAAAAATCTTAACCAAAACGTAGCGTTTGG
66 AGCAGAGTATTAGCGAAGCATTATAAAAACGCCGCAAAAAAGCTTAACCAAAACGCAGCGTTTGG
** * * *
35793080 TCTTGAGGTATATTAGAACTAGTGGCGCTTATGAAAAATTACCGCTAAAGCACTGTATTAGCGGT
131 TCTTGAGGTATATTAGAACTAGTGGCGCTTATGAAAAAACACCGCTAAAGCACAGTATTAGCAGC
*
35793145 GCATTATAAAAAGCACCGCAAAATATCTTAAC
196 GCATTATAAAAAACACCGCAAAATATCTTAAC
* * **
35793177 CAAAACACAGCGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCTGCTAA
1 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCACTAA
** * *
35793242 AGCTTAGTATTAGCGAAGCATTATAAAAAGCGCCGCAAAATAGCTTAATCAAAACGCAGCGTTTG
66 AGCAGAGTATTAGCGAAGCATTATAAAAA-CGCCGCAAAAAAGCTTAACCAAAACGCAGCGTTTG
* *
35793307 GTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAAAACGCCGCTAAAGCACAGTATTAGCA
130 GTCTTGAGGTATATTAGAACTAGTGGCGCTTATG-AAAAAACACCGCTAAAGCACAGTATTAGCA
* ** *
35793372 GCGCCTTATAAAAAACGTCGTAAAATATCTTAAC
194 GCGCATTATAAAAAACACCGCAAAATATCTTAAC
* * * *
35793406 CAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTGGTGGCGCTCATGTAAAAA
1 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAA
35793462 TGCCGCTATA
Statistics
Matches: 248, Mismatches: 35, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
227 81 0.33
228 64 0.26
229 103 0.42
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (227 bp):
CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCACTAA
AGCAGAGTATTAGCGAAGCATTATAAAAACGCCGCAAAAAAGCTTAACCAAAACGCAGCGTTTGG
TCTTGAGGTATATTAGAACTAGTGGCGCTTATGAAAAAACACCGCTAAAGCACAGTATTAGCAGC
GCATTATAAAAAACACCGCAAAATATCTTAAC
Found at i:35793512 original size:115 final size:113
Alignment explanation
Indices: 35792950--35793534 Score: 667
Period size: 114 Copynumber: 5.1 Consensus size: 113
35792940 ATAATGCTGA
* * * * **
35792950 CAAAACGCATCGTTTGGTCTTGAGGTGTATTAGAATTAGTAGCGCCTATGAAAAAACGCCATTAA
1 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAA
* *
35793015 AGCAGAGTATTAGCGGCGCATTATAAAAA-CGCCGCAAAAAATCTTAAC
66 AGCA-ACTATTAGCGGCGCATTATAAAAAGCGCCGCAAAATATCTTAAC
* * ***
35793063 CAAAACGTAGCGTTTGGTCTTGAGGTATATTAGAACTAGTGGCGCTTATGAAAAATTACCGCTAA
1 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAA
* *
35793128 AGC-ACTGTATTAGCGGTGCATTATAAAAAGCACCGCAAAATATCTTAAC
66 AGCAAC--TATTAGCGGCGCATTATAAAAAGCGCCGCAAAATATCTTAAC
* * *
35793177 CAAAACACAGCGTTTTGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCTGCTAA
1 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAA
* * ** * *
35793242 AGCTTAGTATTAGCGAAGCATTATAAAAAGCGCCGCAAAATAGCTTAAT
66 AGC-AACTATTAGCGGCGCATTATAAAAAGCGCCGCAAAATATCTTAAC
35793291 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGCAAAAAACGCCGCTA
1 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATG-AAAAAACGCCGCTA
* * * * * *
35793356 AAGCACAGTATTAGCAGCGCCTTATAAAAAACGTCGTAAAATATCTTAAC
65 AAGCA-ACTATTAGCGGCGCATTATAAAAAGCGCCGCAAAATATCTTAAC
* * * * *
35793406 CAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTGGTGGCGCTCATGTAAAAATGCCGCTAT
1 CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTA-
* ** * ** *
35793471 AGAGCAACTTTTAATGGCGC-TTTTGTTAAAGCGCCGCAAAAT-TGTTAAC
65 A-AGCAACTATTAGCGGCGCATTAT-AAAAAGCGCCGCAAAATATCTTAAC
35793520 CAAAACAGC-GCGTTT
1 CAAAAC-GCAGCGTTT
35793535 TTTAGTACTT
Statistics
Matches: 401, Mismatches: 60, Indels: 21
0.83 0.12 0.04
Matches are distributed among these distances:
111 1 0.00
113 78 0.19
114 194 0.48
115 123 0.31
116 5 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (113 bp):
CAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAA
AGCAACTATTAGCGGCGCATTATAAAAAGCGCCGCAAAATATCTTAAC
Found at i:35793967 original size:22 final size:21
Alignment explanation
Indices: 35793942--35793983 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
35793932 AGTGGTTGTG
*
35793942 GTTTGTGGTCTACGGGTTTAAT
1 GTTTATGGTCTA-GGGTTTAAT
*
35793964 GTTTATGGTTTAGGGTTTAA
1 GTTTATGGTCTAGGGTTTAA
35793984 GATTTACGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.17, C:0.05, G:0.31, T:0.48
Consensus pattern (21 bp):
GTTTATGGTCTAGGGTTTAAT
Found at i:35793989 original size:21 final size:21
Alignment explanation
Indices: 35793955--35793994 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35793945 TGTGGTCTAC
*
35793955 GGGTTTAATGTTTATGGTTTA
1 GGGTTTAATGTTTACGGTTTA
35793976 GGGTTTAA-GATTTACGGTT
1 GGGTTTAATG-TTTACGGTT
35793995 AATGTTTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.20, C:0.03, G:0.30, T:0.47
Consensus pattern (21 bp):
GGGTTTAATGTTTACGGTTTA
Found at i:35794094 original size:28 final size:29
Alignment explanation
Indices: 35794062--35794124 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
35794052 GTTAATTGAC
35794062 GGGTTTAGG-GTTTAAGATTTACAATTTG
1 GGGTTTAGGAGTTTAAGATTTACAATTTG
* * * *
35794090 GGGTTT-GGAGTTTAGGGTTTATAGTTTG
1 GGGTTTAGGAGTTTAAGATTTACAATTTG
35794118 GGGTTTA
1 GGGTTTA
35794125 AGATTTACGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.07
28 27 0.93
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (29 bp):
GGGTTTAGGAGTTTAAGATTTACAATTTG
Found at i:35794131 original size:21 final size:21
Alignment explanation
Indices: 35794092--35794131 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35794082 ACAATTTGGG
* *
35794092 GTTTGGAGTTTAGGGTTTATA
1 GTTTGGAGTTTAAGATTTATA
*
35794113 GTTTGGGGTTTAAGATTTA
1 GTTTGGAGTTTAAGATTTA
35794132 CGGTTAAGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (21 bp):
GTTTGGAGTTTAAGATTTATA
Found at i:35794735 original size:72 final size:72
Alignment explanation
Indices: 35794657--35794901 Score: 196
Period size: 72 Copynumber: 3.4 Consensus size: 72
35794647 TTTGCTTTTG
**
35794657 GTGGCGCTTTTTTGTAAA-CGCCGCAAAAGTGTATTATGAGTTAAGAAATTGCGTCGTTTGGCAT
1 GTGGCGCTTTCCT-TAAAGCGCCGCAAAAGTGTATTATGAGTTAAGAAATTGCGTCGTTTGGCAT
35794721 TGTCTATA
65 TGTCTATA
* * ** * ** * * *
35794729 GTGGCGCTTTCCTTAAAGCACCGCAAATA-TGTTTTATGTTTTACATAAACGGTGCCGTTT-TC-
1 GTGGCGCTTTCCTTAAAGCGCCGCAAA-AGTGTATTATGAGTTA-AGAAATTGCGTCGTTTGGCA
* * *
35794791 TCTATATAAGTT
64 T-TGTCT-A-TA
** ** *
35794803 GTGGCATTTTTTTGTAAA-CGCCGCAAAAGTGTATTATGAGTTAAGAAACTT-CGTCATTTGGCA
1 GTGGCGCTTTCCT-TAAAGCGCCGCAAAAGTGTATTATGAGTTAAGAAA-TTGCGTCGTTTGGCA
35794866 TTGTCTATA
64 TTGTCTATA
35794875 GTGGCGCTTTCCTTAAAGCGCCGCAAA
1 GTGGCGCTTTCCTTAAAGCGCCGCAAA
35794902 TATGTTTTAT
Statistics
Matches: 124, Mismatches: 37, Indels: 24
0.67 0.20 0.13
Matches are distributed among these distances:
71 9 0.07
72 53 0.43
73 24 0.19
74 33 0.27
75 5 0.04
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (72 bp):
GTGGCGCTTTCCTTAAAGCGCCGCAAAAGTGTATTATGAGTTAAGAAATTGCGTCGTTTGGCATT
GTCTATA
Found at i:35794827 original size:74 final size:74
Alignment explanation
Indices: 35794729--35794959 Score: 215
Period size: 74 Copynumber: 3.1 Consensus size: 74
35794719 ATTGTCTATA
* *
35794729 GTGGCGCTTTCCTTAAAGCACCGCAAATATGTTTTATGTTTTACATAAACGGTGCCGTTTTCTCT
1 GTGGCGTTTTCCTTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGCCGTTTTCTCT
35794794 ATATAAGTT
66 ATATAAGTT
* ** * ** * * * * *
35794803 GTGGCATTTTTTTGTAAA-CGCCGCAAA-AGTGTATTATGAGTTA-AGAAAC-TTCGTCATTTGG
1 GTGGCGTTTTCCT-TAAAGCGCCGCAAATA-TGTTTTATGTTTTACATAAACGGT-GCCGTTT-T
* * *
35794864 CAT-TGTCT-A-TA
62 C-TCTATATAAGTT
*
35794875 GTGGCGCTTTCCTTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGCCGTTTTCTCT
1 GTGGCGTTTTCCTTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGCCGTTTTCTCT
35794940 ATATAAGTT
66 ATATAAGTT
35794949 GTGGCGTTTTC
1 GTGGCGTTTTC
35794960 TGAAAACGCC
Statistics
Matches: 113, Mismatches: 32, Indels: 24
0.67 0.19 0.14
Matches are distributed among these distances:
71 5 0.04
72 35 0.31
73 24 0.21
74 44 0.39
75 5 0.04
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (74 bp):
GTGGCGTTTTCCTTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGCCGTTTTCTCT
ATATAAGTT
Found at i:35794921 original size:146 final size:146
Alignment explanation
Indices: 35794664--35794958 Score: 547
Period size: 146 Copynumber: 2.0 Consensus size: 146
35794654 TTGGTGGCGC
*
35794664 TTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAATTGCGTCGTTTGGCATTGTCTATA
1 TTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAATTGCGTCATTTGGCATTGTCTATA
35794729 GTGGCGCTTTCCTTAAAGCACCGCAAATATGTTTTATGTTTTACATAAACGGTGCCGTTTTCTCT
66 GTGGCGCTTTCCTTAAAGCACCGCAAATATGTTTTATGTTTTACATAAACGGTGCCGTTTTCTCT
35794794 ATATAAGTTGTGGCAT
131 ATATAAGTTGTGGCAT
35794810 TTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAACTT-CGTCATTTGGCATTGTCTAT
1 TTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAA-TTGCGTCATTTGGCATTGTCTAT
*
35794874 AGTGGCGCTTTCCTTAAAGCGCCGCAAATATGTTTTATGTTTTACATAAACGGTGCCGTTTTCTC
65 AGTGGCGCTTTCCTTAAAGCACCGCAAATATGTTTTATGTTTTACATAAACGGTGCCGTTTTCTC
*
35794939 TATATAAGTTGTGGCGT
130 TATATAAGTTGTGGCAT
35794956 TTT
1 TTT
35794959 CTGAAAACGC
Statistics
Matches: 145, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
146 143 0.99
147 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (146 bp):
TTTTTTGTAAACGCCGCAAAAGTGTATTATGAGTTAAGAAATTGCGTCATTTGGCATTGTCTATA
GTGGCGCTTTCCTTAAAGCACCGCAAATATGTTTTATGTTTTACATAAACGGTGCCGTTTTCTCT
ATATAAGTTGTGGCAT
Found at i:35797093 original size:44 final size:44
Alignment explanation
Indices: 35797033--35797209 Score: 354
Period size: 44 Copynumber: 4.0 Consensus size: 44
35797023 TTACTTTATG
35797033 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATA
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATA
35797077 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATA
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATA
35797121 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATA
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATA
35797165 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATA
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATA
35797209 T
1 T
35797210 CTTTTTTTAA
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 133 1.00
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (44 bp):
TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATA
Found at i:35797334 original size:125 final size:125
Alignment explanation
Indices: 35797165--35798584 Score: 2840
Period size: 125 Copynumber: 11.4 Consensus size: 125
35797155 ATGATTAATA
35797165 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
35797230 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
66 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
35797290 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
35797355 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
66 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
35797415 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
35797480 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
66 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
35797540 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
35797605 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
66 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
35797665 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
35797730 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
66 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
35797790 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
35797855 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
66 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
35797915 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
35797980 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
66 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
35798040 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
35798105 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
66 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
35798165 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
35798230 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
66 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
35798290 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
35798355 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
66 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
35798415 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
35798480 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
66 AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
35798540 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATAT
1 TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATAT
35798585 ATATATTATT
Statistics
Matches: 1295, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 1295 1.00
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.50
Consensus pattern (125 bp):
TATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTT
AGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATG
Found at i:35797580 original size:250 final size:250
Alignment explanation
Indices: 35796912--35798584 Score: 2977
Period size: 250 Copynumber: 6.7 Consensus size: 250
35796902 NNNNNNNNNN
35796912 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
1 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
35796977 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
66 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
* ** * ***
35797042 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATATATATTATTCTACCTCTCCTTCTCTATT
131 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCT-T-TT-TT-TAATTATAGAT-T-TA--
* * *** * ** * *
35797107 GCTA-ATGATTAA-T-ATATATATTAT-TCTA-C-CTCTCCTTCTCT-ATTGCTA-ATGA-TTAA
188 G-TATAT--TTAAGTGCTGT-T-TTATGTC-AGCACT-TAAATAT-TAATAACTATATTACTTTA
*
35797163 TATATA
245 TGTATA
35797169 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
1 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
35797234 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
66 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
35797299 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
131 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
35797364 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
196 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
35797419 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
1 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
35797484 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
66 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
35797549 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
131 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
35797614 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
196 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
35797669 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
1 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
35797734 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
66 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
35797799 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
131 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
35797864 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
196 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
35797919 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
1 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
35797984 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
66 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
35798049 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
131 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
35798114 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
196 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
35798169 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
1 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
35798234 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
66 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
35798299 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
131 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
35798364 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
196 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
35798419 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
1 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
35798484 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
66 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
35798549 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATAT
131 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATAT
35798585 ATATATTATT
Statistics
Matches: 1389, Mismatches: 18, Indels: 25
0.97 0.01 0.02
Matches are distributed among these distances:
247 10 0.01
248 15 0.01
249 10 0.01
250 1174 0.85
251 2 0.00
252 1 0.00
253 5 0.00
254 2 0.00
255 2 0.00
256 1 0.00
257 167 0.12
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (250 bp):
TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
Found at i:35797705 original size:375 final size:375
Alignment explanation
Indices: 35796912--35798584 Score: 2977
Period size: 375 Copynumber: 4.4 Consensus size: 375
35796902 NNNNNNNNNN
35796912 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
1 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
35796977 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
66 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
* ** * ***
35797042 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATATATATTATTCTACCTCTCCTTCTCTATT
131 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCT-T-TT-TT-TAATTATAGAT-T-TA--
* * *** * ** * *
35797107 GCTA-ATGATTAA-T-ATATATATTAT-TCTA-C-CTCTCCTTCTCT-ATTGCTA-ATGA-TTAA
188 G-TATAT--TTAAGTGCTGT-T-TTATGTC-AGCACT-TAAATAT-TAATAACTATATTACTTTA
*
35797163 TATATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGAT
245 TGTATATATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGAT
35797228 TTAGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTAT
310 TTAGTATATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTAT
35797293 A
375 A
35797294 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
1 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
35797359 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
66 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
35797424 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
131 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
35797489 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTATTCTA
196 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTATTCTA
35797554 CCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTTAAGTG
261 CCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTTAAGTG
35797619 CTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
326 CTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
35797669 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
1 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
35797734 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
66 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
35797799 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
131 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
35797864 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTATTCTA
196 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTATTCTA
35797929 CCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTTAAGTG
261 CCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTTAAGTG
35797994 CTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
326 CTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
35798044 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
1 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
35798109 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
66 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
35798174 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
131 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
35798239 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTATTCTA
196 AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTATTCTA
35798304 CCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTTAAGTG
261 CCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTTAAGTG
35798369 CTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
326 CTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
35798419 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
1 TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
35798484 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
66 TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
35798549 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATAT
131 TTCTACCTCTCCTTCTCTATTGCTAATGATTAATAT
35798585 ATATATTATT
Statistics
Matches: 1264, Mismatches: 18, Indels: 25
0.97 0.01 0.02
Matches are distributed among these distances:
372 10 0.01
373 15 0.01
374 10 0.01
375 1049 0.83
376 2 0.00
377 1 0.00
378 5 0.00
379 2 0.00
380 2 0.00
381 1 0.00
382 167 0.13
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (375 bp):
TATTATTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTA
TATTTAAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTA
TTCTACCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTT
AAGTGCTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATATATTATTCTA
CCTCTCCTTCTCTATTGCTAATGATTAATATCTTTTTTTAATTATAGATTTAGTATATTTAAGTG
CTGTTTTATGTCAGCACTTAAATATTAATAACTATATTACTTTATGTATA
Found at i:35800306 original size:114 final size:115
Alignment explanation
Indices: 35800164--35800397 Score: 452
Period size: 114 Copynumber: 2.0 Consensus size: 115
35800154 TATAATAATC
*
35800164 TATATACTAATATTATTTATCATTCTCAGATTTTTTTATGAGTGATGAACAGGACTTTTCGAATG
1 TATAAACTAATATTATTTATCATTCTCAGATTTTTTTATGAGTGATGAACAGGACTTTTCGAATG
35800229 AATAATGTAATAATTAGGATAATAGTTTAACAAAACATATAAATTGCAAT
66 AATAATGTAATAATTAGGATAATAGTTTAACAAAACATATAAATTGCAAT
35800279 TATAAACTAATATTA-TTATCATTCTCAGATTTTTTTATGAGTGATGAACAGGACTTTTCGAATG
1 TATAAACTAATATTATTTATCATTCTCAGATTTTTTTATGAGTGATGAACAGGACTTTTCGAATG
35800343 AATAATGTAATAATTAGGATAATAGTTTAACAAAACATATAAATTGCAAT
66 AATAATGTAATAATTAGGATAATAGTTTAACAAAACATATAAATTGCAAT
35800393 TATAA
1 TATAA
35800398 GATAAGCTAA
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
114 104 0.88
115 14 0.12
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (115 bp):
TATAAACTAATATTATTTATCATTCTCAGATTTTTTTATGAGTGATGAACAGGACTTTTCGAATG
AATAATGTAATAATTAGGATAATAGTTTAACAAAACATATAAATTGCAAT
Found at i:35800822 original size:22 final size:22
Alignment explanation
Indices: 35800786--35800827 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
35800776 TAAATTTGGA
35800786 ATTTGAAAATATAAAAGATTAAC
1 ATTTGAAAATATAAAA-ATTAAC
*
35800809 ATTT-AAAATTTAAAAATTA
1 ATTTGAAAATATAAAAATTA
35800828 GAGCAATCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (22 bp):
ATTTGAAAATATAAAAATTAAC
Found at i:35802020 original size:222 final size:223
Alignment explanation
Indices: 35801757--35802212 Score: 887
Period size: 222 Copynumber: 2.0 Consensus size: 223
35801747 ATTTTTAAAA
35801757 AATATAATTAAATATGGCCAAAAAAAAATTATAAAAATTTAATTTAAGTAAAGATAATAATCTTT
1 AATA-AATTAAATATGGCCAAAAAAAAATTATAAAAATTTAATTTAAGTAAAGATAATAATCTTT
35801822 TACCTTTTGTATCAGGGTTAATTAACAATAAAAAAGAGTTTAATGTCTCGAAATTTACAACCATA
65 TACCTTTTGTATCAGGGTTAATTAACAATAAAAAAGAGTTTAATGTCTCGAAATTTACAACCATA
35801887 TAAGAATTTTACATTATTACCATTCAAAAGGTAAAATAAATTAATTTTTAGATTTTAGATAAAAC
130 TAAGAATTTTACATTATTACCATTCAAAAGGTAAAATAAATTAATTTTTAGATTTTAGATAAAAC
35801952 CATGTTTTAAATATCTAGTTATTAAATAT
195 CATGTTTTAAATATCTAGTTATTAAATAT
35801981 AATAAATTAAATAT-GCCAAAAAAAAATTATAAAAATTTAATTTAAGTAAAGATAATAATCTTTT
1 AATAAATTAAATATGGCCAAAAAAAAATTATAAAAATTTAATTTAAGTAAAGATAATAATCTTTT
35802045 ACCTTTTGTATCAGGGTTAATTAACAATAAAAAAGAGTTTAATGTCTCGAAATTTACAACCATAT
66 ACCTTTTGTATCAGGGTTAATTAACAATAAAAAAGAGTTTAATGTCTCGAAATTTACAACCATAT
35802110 AAGAATTTTACATTATTACCATTCAAAAGGTAAAATAAATTAATTTTTAGATTTTAGATAAAACC
131 AAGAATTTTACATTATTACCATTCAAAAGGTAAAATAAATTAATTTTTAGATTTTAGATAAAACC
35802175 ATGTTTTAAATATCTAGTTATTAAATAT
196 ATGTTTTAAATATCTAGTTATTAAATAT
*
35802203 AATAATTTAA
1 AATAAATTAA
35802213 TTGAATATTG
Statistics
Matches: 231, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
222 217 0.94
223 10 0.04
224 4 0.02
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.37
Consensus pattern (223 bp):
AATAAATTAAATATGGCCAAAAAAAAATTATAAAAATTTAATTTAAGTAAAGATAATAATCTTTT
ACCTTTTGTATCAGGGTTAATTAACAATAAAAAAGAGTTTAATGTCTCGAAATTTACAACCATAT
AAGAATTTTACATTATTACCATTCAAAAGGTAAAATAAATTAATTTTTAGATTTTAGATAAAACC
ATGTTTTAAATATCTAGTTATTAAATAT
Found at i:35814312 original size:21 final size:21
Alignment explanation
Indices: 35814286--35814350 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
35814276 NNNNNNNNAT
35814286 GCGGCAGCAAGAGAAGCAGAG
1 GCGGCAGCAAGAGAAGCAGAG
* * *
35814307 GCGGCAGCGAGAGAAGAATAG
1 GCGGCAGCAAGAGAAGCAGAG
* *
35814328 GCTGCAGCAA-AGGAAACAGAG
1 GCGGCAGCAAGA-GAAGCAGAG
35814349 GC
1 GC
35814351 TAAAGCGAGG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.38, C:0.18, G:0.40, T:0.03
Consensus pattern (21 bp):
GCGGCAGCAAGAGAAGCAGAG
Found at i:35814363 original size:21 final size:21
Alignment explanation
Indices: 35814339--35814390 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
35814329 CTGCAGCAAA
*
35814339 GGAAACAGAGGCTAAAGCGAG
1 GGAAGCAGAGGCTAAAGCGAG
* **
35814360 GGAAGCAAAGGCTGCAGCGAG
1 GGAAGCAGAGGCTAAAGCGAG
35814381 GGAAGCAGAG
1 GGAAGCAGAG
35814391 CAGCGTCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.42, T:0.04
Consensus pattern (21 bp):
GGAAGCAGAGGCTAAAGCGAG
Found at i:35814390 original size:42 final size:42
Alignment explanation
Indices: 35814289--35814390 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
35814279 NNNNNATGCG
* **
35814289 GCAGCAAGAGAAGCAGAGGCGGCAGCGAGAGAAGAATAGGCT
1 GCAGCAAGGGAAGCAGAGGCGAAAGCGAGAGAAGAATAGGCT
* * * *
35814331 GCAGCAAAGGAAACAGAGGCTAAAGCGAGGGAAGCAA-AGGCT
1 GCAGCAAGGGAAGCAGAGGCGAAAGCGAGAGAAG-AATAGGCT
*
35814373 GCAGCGAGGGAAGCAGAG
1 GCAGCAAGGGAAGCAGAG
35814391 CAGCGTCAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
42 47 0.96
43 2 0.04
ACGTcount: A:0.39, C:0.17, G:0.40, T:0.04
Consensus pattern (42 bp):
GCAGCAAGGGAAGCAGAGGCGAAAGCGAGAGAAGAATAGGCT
Found at i:35814746 original size:43 final size:43
Alignment explanation
Indices: 35814698--35814846 Score: 151
Period size: 43 Copynumber: 3.4 Consensus size: 43
35814688 ATATGCCAAA
*
35814698 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATTAGGGTC
1 TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATAAGGGTC
* ** * *
35814741 TTTAGCGGTGTTTTT-GTGCGAAGCGCCGCTATATAGTCAAAGGGTA
1 TTTAGCGGCGTTTTTGGT-AAAAGCGCCGCTATAGA-T--AAGGGTC
* *
35814787 TTTAGCGGCGTTTTCTGG-ATAAGCGCCGCTATAGATCAGGGTC
1 TTTAGCGGCGTTTT-TGGTAAAAGCGCCGCTATAGATAAGGGTC
35814830 TATT-GCGGCGTTTTTGG
1 T-TTAGCGGCGTTTTTGG
35814847 AGTAATTTCT
Statistics
Matches: 87, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
42 5 0.06
43 44 0.51
44 3 0.03
45 1 0.01
46 32 0.37
47 1 0.01
48 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.34
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATAAGGGTC
Found at i:35816588 original size:14 final size:15
Alignment explanation
Indices: 35816555--35816583 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35816545 TTCAACTTTT
35816555 AATT-TTAAAATTTA
1 AATTATTAAAATTTA
35816569 AATTATTAAAATTTA
1 AATTATTAAAATTTA
35816584 TTTATAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTATTAAAATTTA
Found at i:35826851 original size:30 final size:30
Alignment explanation
Indices: 35826815--35826875 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
35826805 ACAAAAAAAC
35826815 AAAAATCATTCATATCAAATAACCAATTAA
1 AAAAATCATTCATATCAAATAACCAATTAA
35826845 AAAAATCATTCATATCAAATAACCAATTAA
1 AAAAATCATTCATATCAAATAACCAATTAA
35826875 A
1 A
35826876 CTTTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.26
Consensus pattern (30 bp):
AAAAATCATTCATATCAAATAACCAATTAA
Found at i:35827976 original size:84 final size:85
Alignment explanation
Indices: 35827870--35828038 Score: 331
Period size: 84 Copynumber: 2.0 Consensus size: 85
35827860 ATATTTTGTT
35827870 CTTTATATATAATATTTATATGTCGAATATTTATTTTCTCTACCTATATTGTGGGTATGGTGATT
1 CTTTATATATAATATTTATATGTCGAATATTTATTTTCTCTACCTATATTGTGGGTATGGTGATT
35827935 CCTAATATTATGAAATCAAA
66 CCTAATATTATGAAATCAAA
35827955 CTTTATATAT-ATATTTATATGTCGAATATTTATTTTCTCTACCTATATTGTGGGTATGGTGATT
1 CTTTATATATAATATTTATATGTCGAATATTTATTTTCTCTACCTATATTGTGGGTATGGTGATT
35828019 CCTAATATTATGAAATCAAA
66 CCTAATATTATGAAATCAAA
35828039 TAATTATTTC
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 74 0.88
85 10 0.12
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (85 bp):
CTTTATATATAATATTTATATGTCGAATATTTATTTTCTCTACCTATATTGTGGGTATGGTGATT
CCTAATATTATGAAATCAAA
Found at i:35841063 original size:3 final size:3
Alignment explanation
Indices: 35841048--35841113 Score: 51
Period size: 3 Copynumber: 22.0 Consensus size: 3
35841038 TAATTACTTA
* * * * * * * *
35841048 ATT ATT TTT ATT ATT ATT GTT ATC ATT ATT AAT GTT ACT GTT ATT ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
35841096 ATT ATT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
35841114 TATATTAGTT
Statistics
Matches: 45, Mismatches: 18, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:35845475 original size:27 final size:27
Alignment explanation
Indices: 35845445--35845503 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
35845435 CCTGTCTAGT
*
35845445 AGGCGCCAATGAAGGAGCCTCATGGAG
1 AGGCGCCAATGAAGGAACCTCATGGAG
*
35845472 AGGCGCCAATGCAGGAACCTCATGGAG
1 AGGCGCCAATGAAGGAACCTCATGGAG
35845499 AGGCG
1 AGGCG
35845504 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.37, T:0.10
Consensus pattern (27 bp):
AGGCGCCAATGAAGGAACCTCATGGAG
Found at i:35847402 original size:22 final size:21
Alignment explanation
Indices: 35847367--35847411 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
35847357 ATACCTAATT
*
35847367 TTTTCTTCTTTTCCTTCCTTC
1 TTTTCTTCTCTTCCTTCCTTC
35847388 TTTTCTTCTGCTTCCTTCCTTC
1 TTTTCTTCT-CTTCCTTCCTTC
35847410 TT
1 TT
35847412 ATTTCTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTCTTCTCTTCCTTCCTTC
Found at i:35847515 original size:27 final size:28
Alignment explanation
Indices: 35847477--35847552 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 28
35847467 AAAATAACAG
* *
35847477 CATTGGTGCCTCTCAGAAT-GGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
*
35847504 CATTGGCGCCTCCCAG-GTAGGCACCAC
1 CATTGGCGCCTCCCAGAATAGGCACCAC
*
35847531 CATTGACGCCTCCCAG-ATAGGC
1 CATTGGCGCCTCCCAGAATAGGC
35847553 GCCAATACTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.02
27 42 0.98
ACGTcount: A:0.21, C:0.37, G:0.24, T:0.18
Consensus pattern (28 bp):
CATTGGCGCCTCCCAGAATAGGCACCAC
Found at i:35861219 original size:17 final size:17
Alignment explanation
Indices: 35861197--35861258 Score: 81
Period size: 17 Copynumber: 3.5 Consensus size: 17
35861187 ACATAACCAT
35861197 TTTAGCATAAAATTAAA
1 TTTAGCATAAAATTAAA
*
35861214 TTTAGCATAACA-TAACCA
1 TTTAGCATAAAATTAA--A
35861232 TTTTAGCATAAAATTAAA
1 -TTTAGCATAAAATTAAA
35861250 TTTAGCATA
1 TTTAGCATA
35861259 CCAATTACCT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.08
17 20 0.51
18 2 0.05
19 11 0.28
20 3 0.08
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.35
Consensus pattern (17 bp):
TTTAGCATAAAATTAAA
Found at i:35861225 original size:36 final size:36
Alignment explanation
Indices: 35861185--35861258 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
35861175 GTGAATCATG
35861185 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
1 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
35861221 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
1 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
35861257 TA
1 TA
35861259 CCAATTACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (36 bp):
TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
Found at i:35861238 original size:19 final size:19
Alignment explanation
Indices: 35861185--35861242 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
35861175 GTGAATCATG
35861185 TAACATAACCATTTTAGCA
1 TAACATAACCATTTTAGCA
*
35861204 TAAAATTAA--A-TTTAGCA
1 TAACA-TAACCATTTTAGCA
35861221 TAACATAACCATTTTAGCA
1 TAACATAACCATTTTAGCA
35861240 TAA
1 TAA
35861243 AATTAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
16 3 0.09
17 11 0.33
18 2 0.06
19 14 0.42
20 3 0.09
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.33
Consensus pattern (19 bp):
TAACATAACCATTTTAGCA
Found at i:35863444 original size:18 final size:18
Alignment explanation
Indices: 35863423--35863460 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
35863413 TATTTGAATT
35863423 TGCATATGTATCTGTAAC
1 TGCATATGTATCTGTAAC
* *
35863441 TGCATCTGTATTTGTAAC
1 TGCATATGTATCTGTAAC
35863459 TG
1 TG
35863461 ATTTGTCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (18 bp):
TGCATATGTATCTGTAAC
Found at i:35866833 original size:46 final size:46
Alignment explanation
Indices: 35866753--35867030 Score: 450
Period size: 46 Copynumber: 6.0 Consensus size: 46
35866743 ACATTGCTAT
*
35866753 AACTCAGTATGGTTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGG-TTTTCTTCACCGAAATACCATACCTACTTTTCAC
*
35866800 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
35866846 AACTCAGTATGGTTTTCTTTACC-AGAATACCATACCCACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGA-AATACCATACCTACTTTTCAC
*
35866892 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
35866938 AACTTAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
35866984 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
35867030 A
1 A
35867031 CTTTGCCATG
Statistics
Matches: 218, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
45 1 0.00
46 204 0.94
47 13 0.06
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
Found at i:35872507 original size:137 final size:138
Alignment explanation
Indices: 35872248--35872526 Score: 551
Period size: 137 Copynumber: 2.0 Consensus size: 138
35872238 ATTAATCAAT
35872248 TAATTGTGATATATTACATGTAATAATTAAATAAAAATTATTTATTTTAATACTTTGTTAATGAT
1 TAATTGTGATATATTACATGTAATAATTAAATAAAAATTATTTATTTTAATACTTTGTTAATGAT
35872313 TTTCATAATTAATATTTTCTTTTGAAAAATAAACTAAGAATATGTGGAAGTAATTCAAATGCACA
66 TTTCATAATTAATATTTTCTTTTGAAAAATAAACTAAGAATATGTGGAAGTAATTCAAATGCACA
35872378 AAATAGAA
131 AAATAGAA
35872386 TAATTGTGATAT-TTACATGTAATAATTAAATAAAAATTATTTATTTTAATACTTTGTTAATGAT
1 TAATTGTGATATATTACATGTAATAATTAAATAAAAATTATTTATTTTAATACTTTGTTAATGAT
35872450 TTTCATAATTAATATTTTCTTTTGAAAAATAAACTAAGAATATGTGGAAGTAATTCAAATGCACA
66 TTTCATAATTAATATTTTCTTTTGAAAAATAAACTAAGAATATGTGGAAGTAATTCAAATGCACA
35872515 AAATAGAA
131 AAATAGAA
35872523 TAAT
1 TAAT
35872527 AAGAAACTAT
Statistics
Matches: 141, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
137 129 0.91
138 12 0.09
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (138 bp):
TAATTGTGATATATTACATGTAATAATTAAATAAAAATTATTTATTTTAATACTTTGTTAATGAT
TTTCATAATTAATATTTTCTTTTGAAAAATAAACTAAGAATATGTGGAAGTAATTCAAATGCACA
AAATAGAA
Found at i:35874538 original size:22 final size:24
Alignment explanation
Indices: 35874496--35874540 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
35874486 TAACTAAGTT
35874496 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
35874520 TACTT-CTTTTCT-ACTTAATTC
1 TACTTACTTTTCTAACTTAATTC
35874541 CTTGCCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.53
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:35875069 original size:19 final size:20
Alignment explanation
Indices: 35875045--35875083 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
35875035 ATTAATAAGC
35875045 AATACATAT-TTTATTATTA
1 AATACATATGTTTATTATTA
35875064 AATACATATGTTTATTATTA
1 AATACATATGTTTATTATTA
35875084 TTCCACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
AATACATATGTTTATTATTA
Found at i:35876443 original size:20 final size:23
Alignment explanation
Indices: 35876398--35876447 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 23
35876388 GTTCATTAAA
35876398 TAAAAATAACATTTAAAAATCAC
1 TAAAAATAACATTTAAAAATCAC
*
35876421 TAAAAATATC-TTT-AAAA-CAC
1 TAAAAATAACATTTAAAAATCAC
35876441 TAAAAAT
1 TAAAAAT
35876448 GTGAAACACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.38
21 4 0.15
22 3 0.12
23 9 0.35
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAAATAACATTTAAAAATCAC
Found at i:35881340 original size:129 final size:130
Alignment explanation
Indices: 35881188--35881447 Score: 504
Period size: 129 Copynumber: 2.0 Consensus size: 130
35881178 TGTTGAAAAA
*
35881188 TGTTTTATATTACTATTTTAATATAAATGTATATGATAACTTATAAATATTTAATTATAAATTTG
1 TGTTTTATAGTACTATTTTAATATAAATGTATATGATAACTTATAAATATTTAATTATAAATTTG
35881253 TCATAATATAAAATATTTGTATTTTAATAGCAAAAATATTTTAAAAAATGATATTCAATAATTAT
66 TCATAATATAAAATATTTGTATTTTAATAGCAAAAATATTTTAAAAAATGATATTCAATAATTAT
35881318 TGTTTTATAGT-CTATTTTAATATAAATGTATATGATAACTTATAAATATTTAATTATAAATTTG
1 TGTTTTATAGTACTATTTTAATATAAATGTATATGATAACTTATAAATATTTAATTATAAATTTG
35881382 TCATAATATAAAATATTTGTATTTTAATAGCAAAAATATTTTAAAAAATGATATTCAATAATTAT
66 TCATAATATAAAATATTTGTATTTTAATAGCAAAAATATTTTAAAAAATGATATTCAATAATTAT
35881447 T
1 T
35881448 ATAATAATTT
Statistics
Matches: 129, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
129 119 0.92
130 10 0.08
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (130 bp):
TGTTTTATAGTACTATTTTAATATAAATGTATATGATAACTTATAAATATTTAATTATAAATTTG
TCATAATATAAAATATTTGTATTTTAATAGCAAAAATATTTTAAAAAATGATATTCAATAATTAT
Found at i:35899501 original size:14 final size:14
Alignment explanation
Indices: 35899482--35899509 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35899472 CCTATGATAC
35899482 TACTGTAATAGACA
1 TACTGTAATAGACA
35899496 TACTGTAATAGACA
1 TACTGTAATAGACA
35899510 AATCTATTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
TACTGTAATAGACA
Found at i:35901419 original size:21 final size:21
Alignment explanation
Indices: 35901395--35901517 Score: 133
Period size: 21 Copynumber: 6.0 Consensus size: 21
35901385 ATTTCTATTT
* *
35901395 AGCTCTTAAGAGCTTTTGTTC
1 AGCTCTTATGAGCTTCTGTTC
*
35901416 AGCTCTTATGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTC
* **
35901437 GGCTCTTACAAGCTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
* * *
35901458 AGCTTTTATGAGCTTCTATTA
1 AGCTCTTATGAGCTTCTGTTC
* *
35901479 AGCT-TT-CGAGCTTCTGTCC
1 AGCTCTTATGAGCTTCTGTTC
35901498 AGCTCTTATGAGCTTCTGTT
1 AGCTCTTATGAGCTTCTGTT
35901518 GACGATGTAC
Statistics
Matches: 81, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
19 13 0.16
20 4 0.05
21 64 0.79
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTC
Found at i:35901457 original size:42 final size:42
Alignment explanation
Indices: 35901387--35901514 Score: 163
Period size: 42 Copynumber: 3.1 Consensus size: 42
35901377 GTGTTTTAAT
*
35901387 TTCTATTTAGCTCTTA-AGAGCTTTTGTTCAGCTCTTATGAGC
1 TTCTATTTAGCTCTTACA-AGCTTCTGTTCAGCTCTTATGAGC
* * *
35901429 TTCTGTTTGGCTCTTACAAGCTTCTGTTCAGCTTTTATGAGC
1 TTCTATTTAGCTCTTACAAGCTTCTGTTCAGCTCTTATGAGC
* * *
35901471 TTCTATTAAGCT-TT-CGAGCTTCTGTCCAGCTCTTATGAGC
1 TTCTATTTAGCTCTTACAAGCTTCTGTTCAGCTCTTATGAGC
35901511 TTCT
1 TTCT
35901515 GTTGACGATG
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 27 0.36
41 2 0.03
42 45 0.60
43 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (42 bp):
TTCTATTTAGCTCTTACAAGCTTCTGTTCAGCTCTTATGAGC
Found at i:35903605 original size:23 final size:22
Alignment explanation
Indices: 35903562--35903619 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
35903552 AAAGGGTATC
* *
35903562 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
35903583 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
35903606 TGCATATCATATCT
1 TACAAATCATATCT
35903620 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:35905750 original size:46 final size:46
Alignment explanation
Indices: 35905672--35905856 Score: 316
Period size: 46 Copynumber: 4.0 Consensus size: 46
35905662 ACATTGCTAT
* * *
35905672 AACTTAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
35905718 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
35905764 AATTCAGTATGGTTTTCTTCACTGAAACACCATGCCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
35905810 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
35905856 A
1 A
35905857 CTTTGCCATG
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 131 1.00
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:35906979 original size:29 final size:29
Alignment explanation
Indices: 35906937--35906993 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
35906927 TAGTTAATTG
35906937 ACTAACCAAACGTTAAAATTTTCTAACGT
1 ACTAACCAAACGTTAAAATTTTCTAACGT
*
35906966 ACTATCCAAACGTTAAAATTTTCTAACG
1 ACTAACCAAACGTTAAAATTTTCTAACG
35906994 AAACCTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (29 bp):
ACTAACCAAACGTTAAAATTTTCTAACGT
Found at i:35913215 original size:58 final size:60
Alignment explanation
Indices: 35913130--35913258 Score: 138
Period size: 58 Copynumber: 2.2 Consensus size: 60
35913120 TATACATTTT
* * * * * * *
35913130 GGTACCTGAACTTGGTTTCAAGTTTTAATTTAGTACTT-AA-TTGTTTTTT-CTCCAATAA
1 GGTACTTGAACGTGGCTTAAAGGTTTAACTTAGCACTTCAAGTT-TTTTTTGCTCCAATAA
* * *
35913188 GGTACTTGAACGTGGCTTAAAGGTTTAACTTGGCACTTCAAGTTTTTTTTGGTCCAATTA
1 GGTACTTGAACGTGGCTTAAAGGTTTAACTTAGCACTTCAAGTTTTTTTTGCTCCAATAA
35913248 GGTACTTGAAC
1 GGTACTTGAAC
35913259 TTGCTTGCGT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
58 30 0.52
59 8 0.14
60 20 0.34
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (60 bp):
GGTACTTGAACGTGGCTTAAAGGTTTAACTTAGCACTTCAAGTTTTTTTTGCTCCAATAA
Found at i:35914967 original size:22 final size:22
Alignment explanation
Indices: 35914923--35914967 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
35914913 GGTCACTACC
** *
35914923 ATCATCCCTGTGACAAAGTAGT
1 ATCATCCCTACGACAAAGGAGT
*
35914945 ATCATCCCTACGACAGAGGAGT
1 ATCATCCCTACGACAAAGGAGT
35914967 A
1 A
35914968 AACTTGCCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (22 bp):
ATCATCCCTACGACAAAGGAGT
Found at i:35916725 original size:5 final size:5
Alignment explanation
Indices: 35916705--35916749 Score: 74
Period size: 5 Copynumber: 9.0 Consensus size: 5
35916695 TCGAAATAGT
35916705 AATT- AATTA TAATTA AATTA AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA -AATTA AATTA AATTA AATTA AATTA AATTA AATTA
35916750 TTTTCTTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.10
5 30 0.77
6 5 0.13
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
AATTA
Found at i:35920367 original size:13 final size:13
Alignment explanation
Indices: 35920349--35920393 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
35920339 TGTTGTTAGA
35920349 TAAATAATTTTTG
1 TAAATAATTTTTG
35920362 TAAATAATTTTTG
1 TAAATAATTTTTG
*
35920375 TAAAGAGATTTTTGG
1 TAAATA-ATTTTT-G
35920390 TAAA
1 TAAA
35920394 ATTATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 18 0.62
14 6 0.21
15 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (13 bp):
TAAATAATTTTTG
Found at i:35924659 original size:46 final size:46
Alignment explanation
Indices: 35924600--35924767 Score: 244
Period size: 46 Copynumber: 3.8 Consensus size: 46
35924590 TGACAAGTGG
**
35924600 AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
35924646 AAAGTGATAAGTGGTAGCCTTAGCTACAC---T-T-ATC---TGAC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
* *
35924684 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAA
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
35924730 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
35924768 TAGGGACAAG
Statistics
Matches: 109, Mismatches: 5, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
38 32 0.29
41 4 0.04
42 2 0.02
43 4 0.04
46 67 0.61
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (46 bp):
AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
Found at i:35924684 original size:38 final size:38
Alignment explanation
Indices: 35924642--35924766 Score: 169
Period size: 38 Copynumber: 3.1 Consensus size: 38
35924632 TCTGATCAAG
35924642 TGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
1 TGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
35924680 TGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
35924718 TGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
1 TGA-C-------AAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
35924764 TGA
1 TGA
35924767 TTAGGGACAA
Statistics
Matches: 77, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
38 40 0.52
39 1 0.01
46 36 0.47
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (38 bp):
TGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
Found at i:35924741 original size:84 final size:84
Alignment explanation
Indices: 35924600--35924766 Score: 316
Period size: 84 Copynumber: 2.0 Consensus size: 84
35924590 TGACAAGTGG
* *
35924600 AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCC
35924665 TTAGCTACACTTATCTGAC
66 TTAGCTACACTTATCTGAC
35924684 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCC
1 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCC
35924749 TTAGCTACACTTATCTGA
66 TTAGCTACACTTATCTGA
35924767 TTAGGGACAA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.31
Consensus pattern (84 bp):
AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCC
TTAGCTACACTTATCTGAC
Found at i:35947628 original size:12 final size:12
Alignment explanation
Indices: 35947613--35947637 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35947603 ATAATTTCAC
35947613 TATTTATTTATA
1 TATTTATTTATA
35947625 TATTTATTTATA
1 TATTTATTTATA
35947637 T
1 T
35947638 GTTGATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTTATTTATA
Found at i:35949204 original size:23 final size:23
Alignment explanation
Indices: 35949173--35949223 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
35949163 ACCTACTTTC
* *
35949173 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
*
35949196 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTCGGGATA
35949219 TTACA
1 TTACA
35949224 ATACTTATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:35950528 original size:2 final size:2
Alignment explanation
Indices: 35950521--35950554 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
35950511 GGAAAATTGA
35950521 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35950555 TTGAGTACGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35953519 original size:27 final size:27
Alignment explanation
Indices: 35953448--35953544 Score: 122
Period size: 27 Copynumber: 3.5 Consensus size: 27
35953438 GAGACTATAG
* *
35953448 TGCTCACACAAGCTGACAGTGATCAAGGT
1 TGCTCACACAAGCTGACAGT-ATGAA-TT
*
35953477 TACTCACACAAGCTGACAGTATGAATT
1 TGCTCACACAAGCTGACAGTATGAATT
* *
35953504 TGCCCACACAAGCTGACATTATGAATT
1 TGCTCACACAAGCTGACAGTATGAATT
*
35953531 TGCTCACATAAGCT
1 TGCTCACACAAGCT
35953545 AACATTGTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 37 0.62
28 4 0.07
29 19 0.32
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (27 bp):
TGCTCACACAAGCTGACAGTATGAATT
Found at i:35953686 original size:35 final size:35
Alignment explanation
Indices: 35953640--35953714 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
35953630 TCATGAAAAT
35953640 CCCTAATCATTTTCATATTTGACCCTAATGGCATG
1 CCCTAATCATTTTCATATTTGACCCTAATGGCATG
35953675 CCCTAATCATTTTCATATTTGACCCTAATGGCATG
1 CCCTAATCATTTTCATATTTGACCCTAATGGCATG
35953710 CCCTA
1 CCCTA
35953715 TTTCACAACG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (35 bp):
CCCTAATCATTTTCATATTTGACCCTAATGGCATG
Found at i:35953923 original size:21 final size:21
Alignment explanation
Indices: 35953899--35953941 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
35953889 CATTTATATA
*
35953899 AATT-AATAAGCAAAATAAAAC
1 AATTCAATAA-CAAAACAAAAC
*
35953920 AATTCAATCACAAAACAAAAC
1 AATTCAATAACAAAACAAAAC
35953941 A
1 A
35953942 GAATAATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.65, C:0.16, G:0.02, T:0.16
Consensus pattern (21 bp):
AATTCAATAACAAAACAAAAC
Found at i:35956016 original size:23 final size:23
Alignment explanation
Indices: 35955990--35956062 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
35955980 ATAAGTGCCA
35955990 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
35956013 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
35956036 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
35956059 CACT
1 CACT
35956063 AATCAATAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:35956311 original size:17 final size:18
Alignment explanation
Indices: 35956289--35956329 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
35956279 TAATTTTCCT
35956289 TTCACAT-TC-AATATTAA
1 TTCACATATCAAATA-TAA
35956306 TTCACATATCAAATATAA
1 TTCACATATCAAATATAA
35956324 TTCACA
1 TTCACA
35956330 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (18 bp):
TTCACATATCAAATATAA
Found at i:35960908 original size:43 final size:43
Alignment explanation
Indices: 35960847--35960933 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
35960837 CAACCATTTA
*
35960847 ACTATTTAAATTAATAAAATATTTATTTATATATTTTCATAAT
1 ACTATTCAAATTAATAAAATATTTATTTATATATTTTCATAAT
35960890 ACTATTCAAATTAATAAAATATTTATTTATATATTTTCATAAT
1 ACTATTCAAATTAATAAAATATTTATTTATATATTTTCATAAT
35960933 A
1 A
35960934 AGATATAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (43 bp):
ACTATTCAAATTAATAAAATATTTATTTATATATTTTCATAAT
Found at i:35960934 original size:28 final size:28
Alignment explanation
Indices: 35960901--35960954 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
35960891 CTATTCAAAT
**
35960901 TAATAAAATATTTATTTATATATTTTCA
1 TAATAAAATATAAATTTATATATTTTCA
* *
35960929 TAATAAGATATAAATTTATTTATTTT
1 TAATAAAATATAAATTTATATATTTT
35960955 TATTATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
TAATAAAATATAAATTTATATATTTTCA
Found at i:35960944 original size:43 final size:42
Alignment explanation
Indices: 35960852--35960944 Score: 150
Period size: 43 Copynumber: 2.2 Consensus size: 42
35960842 ATTTAACTAT
**
35960852 TTAAATTAATAAAATATTTATTTATATATTTTCATAATACTA
1 TTAAATTAATAAAATATTTATTTATATATTTTCATAATAAGA
35960894 TTCAAATTAATAAAATATTTATTTATATATTTTCATAATAAGA
1 TT-AAATTAATAAAATATTTATTTATATATTTTCATAATAAGA
35960937 TATAAATT
1 T-TAAATT
35960945 TATTTATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
42 2 0.04
43 44 0.94
44 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (42 bp):
TTAAATTAATAAAATATTTATTTATATATTTTCATAATAAGA
Found at i:35962676 original size:21 final size:20
Alignment explanation
Indices: 35962652--35962701 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
35962642 AAGTGGTAAC
*
35962652 GAGATTAATTACTGTAATGAT
1 GAGATTAA-TACTGCAATGAT
*
35962673 GAGATTGAATATTGCAATGAT
1 GAGATT-AATACTGCAATGAT
*
35962694 GTGATTAA
1 GAGATTAA
35962702 AAATAAGTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 21 0.84
22 2 0.08
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (20 bp):
GAGATTAATACTGCAATGAT
Found at i:35962924 original size:134 final size:135
Alignment explanation
Indices: 35962673--35962941 Score: 515
Period size: 134 Copynumber: 2.0 Consensus size: 135
35962663 CTGTAATGAT
35962673 GAGATTGAATATTGCAATGATGTGATTAAAAATAAGTGGAGTGTGTTTAGATTCAAATACAATTA
1 GAGATTGAATATTGCAATGATGTGATTAAAAATAAGTGGAGTGTGTTTAGATTCAAATACAATTA
35962738 TAGCGATGAAGCGATAATAGAAAATGATTAGAATATTAGATTAGAAATAATATATAATAAAAAAA
66 TAGCGATGAAGCGATAATAGAAAATGATTAGAATATTAGATTAGAAATAATATATAATAAAAAAA
35962803 TTTAA
131 TTTAA
35962808 GAGATTGAAT-TTGCAATGATGTGATTAAAAATAAGTGGAGTGTGTTTAGATTCAAATACAATTA
1 GAGATTGAATATTGCAATGATGTGATTAAAAATAAGTGGAGTGTGTTTAGATTCAAATACAATTA
35962872 TAGCGATGAAGCGATAATAGAAAATGGATT-GAATATTAGATTAGAAATAATATATAATAAAAAA
66 TAGCGATGAAGCGATAATAGAAAAT-GATTAGAATATTAGATTAGAAATAATATATAATAAAAAA
35962936 ATTTAA
130 ATTTAA
35962942 ATTATTTTAT
Statistics
Matches: 133, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
134 119 0.89
135 14 0.11
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.31
Consensus pattern (135 bp):
GAGATTGAATATTGCAATGATGTGATTAAAAATAAGTGGAGTGTGTTTAGATTCAAATACAATTA
TAGCGATGAAGCGATAATAGAAAATGATTAGAATATTAGATTAGAAATAATATATAATAAAAAAA
TTTAA
Found at i:35964619 original size:30 final size:30
Alignment explanation
Indices: 35964585--35964652 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
35964575 AACTAAAAAA
35964585 GGCCGTTTTTTTTCAA-AATTTACCGAAATG
1 GGCCGTTTTTTTT-AATAATTTACCGAAATG
* * *
35964615 GGCCG-GTTTTTTAATTATTTACCGGAATG
1 GGCCGTTTTTTTTAATAATTTACCGAAATG
*
35964644 GGCCATTTT
1 GGCCGTTTT
35964653 CCGCGAAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 2 0.06
29 22 0.71
30 7 0.23
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (30 bp):
GGCCGTTTTTTTTAATAATTTACCGAAATG
Found at i:35964624 original size:29 final size:29
Alignment explanation
Indices: 35964592--35964647 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
35964582 AAAGGCCGTT
35964592 TTTTTTCAA-AATTTACCGAAATGGGCCGG
1 TTTTTT-AATAATTTACCGAAATGGGCCGG
* *
35964621 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATAATTTACCGAAATGGGCC
35964648 ATTTTCCGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (29 bp):
TTTTTTAATAATTTACCGAAATGGGCCGG
Found at i:35965622 original size:30 final size:29
Alignment explanation
Indices: 35965555--35965622 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
35965545 GATTTCGCGG
*
35965555 AAAATGGCCCATTCCGGTAAATAATTAAA
1 AAAACGGCCCATTCCGGTAAATAATTAAA
* * *
35965584 AAACCGGCCCATTTCGGTAAAT-TTTGAAAA
1 AAAACGGCCCATTCCGGTAAATAATT--AAA
35965614 AAAACGGCC
1 AAAACGGCC
35965623 TTTTTTGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 2 0.06
29 19 0.59
30 11 0.34
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (29 bp):
AAAACGGCCCATTCCGGTAAATAATTAAA
Found at i:35967406 original size:28 final size:29
Alignment explanation
Indices: 35967370--35967439 Score: 133
Period size: 28 Copynumber: 2.4 Consensus size: 29
35967360 ACTTTAAAAC
35967370 TTTTAAAAATTAAAAAAAATAAAATTTAT
1 TTTTAAAAATTAAAAAAAATAAAATTTAT
35967399 TTTTAAAAATT-AAAAAAATAAAATTTAT
1 TTTTAAAAATTAAAAAAAATAAAATTTAT
35967427 TTTTAAAAATTAA
1 TTTTAAAAATTAA
35967440 TAATTTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 28 0.70
29 12 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
TTTTAAAAATTAAAAAAAATAAAATTTAT
Found at i:35974841 original size:13 final size:13
Alignment explanation
Indices: 35974823--35974850 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
35974813 AATATATTGA
35974823 AAATTTTATATAC
1 AAATTTTATATAC
35974836 AAATTTTATATAC
1 AAATTTTATATAC
35974849 AA
1 AA
35974851 TACATAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATTTTATATAC
Found at i:35975774 original size:25 final size:25
Alignment explanation
Indices: 35975729--35975781 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
35975719 TATATCATAT
*
35975729 ATCCAACTTCATCCATCTCCA-TTC
1 ATCCAACTTCATCAATCTCCATTTC
35975753 ATCCTAACTTCATCAAAT-TCCATTTC
1 ATCC-AACTTCATC-AATCTCCATTTC
35975779 ATC
1 ATC
35975782 TCTCCACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 4 0.16
25 13 0.52
26 8 0.32
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (25 bp):
ATCCAACTTCATCAATCTCCATTTC
Found at i:35989124 original size:16 final size:16
Alignment explanation
Indices: 35989103--35989133 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35989093 TATATTAGAG
35989103 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
35989119 CATATATATTTGAAA
1 CATATAAATTTGAAA
35989134 ACTTTTTCAA
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:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:35989922 original size:66 final size:67
Alignment explanation
Indices: 35989838--35990018 Score: 194
Period size: 67 Copynumber: 2.7 Consensus size: 67
35989828 TCTTCACCGT
* * * *
35989838 TTTTC-TTAAAAAAGTTAATTTTAATCT-CATATTGACTAGATAATACTCTTATAACTCA-CTTC
1 TTTTCATTAAAAAA-TTAATTTTAATCTCCACACTGACTAGAGAATACTC-GATAACTCATCTTC
35989900 ACTA
64 ACTA
*
35989904 TTTTCATTAAAAAATTAATTTTAAT-TCCACACTGATTAGAGAATACTCGATAACTCACTTCTTC
1 TTTTCATTAAAAAATTAATTTTAATCTCCACACTGACTAGAGAATACTCGATAACTCA--TCTTC
35989968 ACTA
64 ACTA
* * * * *
35989972 GTTTCATTAAAAAA-TAATTTTAATC-CCTCATTGGCTAGAGAACACTC
1 TTTTCATTAAAAAATTAATTTTAATCTCCACACTGACTAGAGAATACTC
35990019 TCATGCTCCA
Statistics
Matches: 98, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
65 9 0.09
66 33 0.34
67 35 0.36
68 21 0.21
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (67 bp):
TTTTCATTAAAAAATTAATTTTAATCTCCACACTGACTAGAGAATACTCGATAACTCATCTTCAC
TA
Found at i:35989982 original size:68 final size:67
Alignment explanation
Indices: 35989839--35989995 Score: 189
Period size: 66 Copynumber: 2.4 Consensus size: 67
35989829 CTTCACCGTT
* * * *
35989839 TTTC-TTAAAAAAGTTAATTTTAA-TCTCATATTGACTAGATAATACTCTTATAACTCACTTCAC
1 TTTCATTAAAAAA-TTAATTTTAATTCTCACACTGACTAGAGAATACTCTGATAACTCACTTCAC
*
35989902 TAT
65 TAG
*
35989905 TTTCATTAAAAAATTAATTTTAATTC-CACACTGATTAGAGAATACTC-GATAACTCACTTCTTC
1 TTTCATTAAAAAATTAATTTTAATTCTCACACTGACTAGAGAATACTCTGATAACTCA---CTTC
35989968 ACTAG
63 ACTAG
35989973 TTTCATTAAAAAA-TAATTTTAAT
1 TTTCATTAAAAAATTAATTTTAAT
35989996 CCCTCATTGG
Statistics
Matches: 80, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
65 8 0.10
66 31 0.39
67 20 0.25
68 21 0.26
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (67 bp):
TTTCATTAAAAAATTAATTTTAATTCTCACACTGACTAGAGAATACTCTGATAACTCACTTCACT
AG
Found at i:35990896 original size:9 final size:9
Alignment explanation
Indices: 35990882--35990918 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
35990872 TATAGTTTGA
35990882 TATTCGAAT
1 TATTCGAAT
35990891 TATTCGAAT
1 TATTCGAAT
*
35990900 TATTCGAGT
1 TATTCGAAT
35990909 TATTCGAAT
1 TATTCGAAT
35990918 T
1 T
35990919 CGAAAACTCA
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:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:35990997 original size:9 final size:9
Alignment explanation
Indices: 35990973--35991002 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
35990963 TCGAGTTGAT
35990973 TCGAATAAC
1 TCGAATAAC
35990982 TCG-ATAAC
1 TCGAATAAC
35990990 TCGAATAAC
1 TCGAATAAC
35990999 TCGA
1 TCGA
35991003 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (9 bp):
TCGAATAAC
Found at i:35993729 original size:15 final size:15
Alignment explanation
Indices: 35993705--35993736 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
35993695 AAAAGAATAT
35993705 ATATAAATAAAGGAA
1 ATATAAATAAAGGAA
*
35993720 ATATATATAAAGGAA
1 ATATAAATAAAGGAA
35993735 AT
1 AT
35993737 GAATTCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.25
Consensus pattern (15 bp):
ATATAAATAAAGGAA
Found at i:35998901 original size:35 final size:35
Alignment explanation
Indices: 35998852--35998922 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
35998842 GTCAATCTAG
*
35998852 AGGTAAAGATAGATGCCGAGACAAATGGCGGAGAT
1 AGGTAAAGACAGATGCCGAGACAAATGGCGGAGAT
*
35998887 AGGTAAAGACAGATGCCGAGACAAATGGTGGAGAT
1 AGGTAAAGACAGATGCCGAGACAAATGGCGGAGAT
35998922 A
1 A
35998923 CCGACCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.41, C:0.11, G:0.34, T:0.14
Consensus pattern (35 bp):
AGGTAAAGACAGATGCCGAGACAAATGGCGGAGAT
Found at i:36000870 original size:21 final size:21
Alignment explanation
Indices: 36000838--36000878 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
36000828 AGGCTCGAGG
36000838 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
36000859 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
36000879 CCATATGCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:36019700 original size:25 final size:24
Alignment explanation
Indices: 36019648--36019699 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
36019638 TTGAATATTA
*
36019648 TTTAATATTTTTTATTTTATGTAAT
1 TTTAATAATTTTTATTTTA-GTAAT
36019673 TTTAATTAATTTTTATTTTA-TAAT
1 TTTAA-TAATTTTTATTTTAGTAAT
36019697 TTT
1 TTT
36019700 TTATAACAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 13 0.52
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTAATAATTTTTATTTTAGTAAT
Found at i:36019701 original size:26 final size:26
Alignment explanation
Indices: 36019625--36019702 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 26
36019615 ACGGTATGGG
*
36019625 TTAATTTTAATTTT-TGAATATTATTTAA
1 TTAATTTTTATTTTAT-AAT-TT-TTTAA
*
36019653 -TATTTTTTATTTTATGTAA--TTTTAA
1 TTAATTTTTATTTTA--TAATTTTTTAA
36019678 TTAATTTTTATTTTATAATTTTTTA
1 TTAATTTTTATTTTATAATTTTTTA
36019703 TAACAGTCTG
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
24 3 0.07
25 5 0.12
26 19 0.46
27 11 0.27
29 2 0.05
30 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (26 bp):
TTAATTTTTATTTTATAATTTTTTAA
Found at i:36021251 original size:18 final size:18
Alignment explanation
Indices: 36021228--36021262 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36021218 GTCAGGTGCG
*
36021228 TATCCTAGCCCTTATATA
1 TATCCTAACCCTTATATA
*
36021246 TATCCTAACCTTTATAT
1 TATCCTAACCCTTATAT
36021263 GTTTCTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:36021795 original size:58 final size:59
Alignment explanation
Indices: 36021687--36021799 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 59
36021677 TACAAACTTA
* ****
36021687 TTTATATTGTTTCATTTAATAAAATAAAAGTTATTTTTAATATTTTAATAGTAAATTATT
1 TTTATATTGTTTCATTTAATAAAATAAAAGTTATTTTGAATAAGGCAATAG-AAATTATT
* *
36021747 TTTATATT-TTT-ATTTAATAAAATAGAAGTTCTTTTGAATAAGGCAATAGAAAT
1 TTTATATTGTTTCATTTAATAAAATAAAAGTTATTTTGAATAAGGCAATAGAAAT
36021800 AATGCAACAT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 4 0.09
58 31 0.67
59 3 0.07
60 8 0.17
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (59 bp):
TTTATATTGTTTCATTTAATAAAATAAAAGTTATTTTGAATAAGGCAATAGAAATTATT
Found at i:36024862 original size:126 final size:126
Alignment explanation
Indices: 36024631--36025154 Score: 834
Period size: 126 Copynumber: 4.2 Consensus size: 126
36024621 TAACGCCAAA
* ** * *
36024631 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTGTTGTCAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGAAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
* ** * * *
36024696 ATCTTGCTTGAAATGTTTTTGGCTCTATTTGTTTAGAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * *
36024757 CAGGAACTACTGTAGAAAAAGAATGTCCACGAATGAGCTTTTTTTATCAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGAAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
* *
36024822 ATCCTGCTTGAAGCGTTTTTGACACCATTTGTTCAAAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
*
36024883 CAGGAACTACTGTAGAAAAAGAGCGTCCAC-ATAGGAGCTTTTTTCATCAATTTTGCTGACAGTG
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGA-AGGAGCTTTTTTCATCAATTTTGCTGACAGTG
*
36024947 CATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTTTTCTCAAAATTATTTTTT
65 CATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * *
36025009 CAGGAACTACTGTAGAAAAAGAACATCCACGTAGGAGTTTTTTTCATCAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAACGTCCACGAAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
*
36025074 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCATCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
36025135 CAGGAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
36025155 AAAATCCTTA
Statistics
Matches: 367, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
125 1 0.00
126 366 1.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAACGTCCACGAAGGAGCTTTTTTCATCAATTTTGCTGACAGTGC
ATCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:36025304 original size:38 final size:38
Alignment explanation
Indices: 36025212--36025317 Score: 123
Period size: 34 Copynumber: 2.9 Consensus size: 38
36025202 ACAAAGTTAT
*
36025212 TTTAAAAATCCTAAACCCTAATTTAATTAATTTTCTTA
1 TTTAAAACTCCTAAACCCTAATTTAATTAATTTTCTTA
* * *
36025250 ---AAAACT-CTACACCCTAATTTTATTTATTTAT-TTA
1 TTTAAAACTCCTAAACCCTAATTTAATTAATTT-TCTTA
*
36025284 TTTAAAACTCCTAAAACCTAATTTAATTAATTTT
1 TTTAAAACTCCTAAACCCTAATTTAATTAATTTT
36025318 AAAAAAACAC
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
34 23 0.42
35 6 0.11
37 7 0.13
38 19 0.35
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (38 bp):
TTTAAAACTCCTAAACCCTAATTTAATTAATTTTCTTA
Found at i:36033863 original size:5 final size:5
Alignment explanation
Indices: 36033848--36033883 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
36033838 TTTGATTCTG
36033848 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
36033884 CATTCATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:36038585 original size:14 final size:15
Alignment explanation
Indices: 36038566--36038598 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
36038556 GGGGCAAAGC
*
36038566 TAAAAAT-CTTGAAT
1 TAAAAATGCTTAAAT
36038580 TAAAAATGCTTAAAT
1 TAAAAATGCTTAAAT
36038595 TAAA
1 TAAA
36038599 TTATTAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (15 bp):
TAAAAATGCTTAAAT
Found at i:36039462 original size:196 final size:196
Alignment explanation
Indices: 36039128--36039491 Score: 649
Period size: 196 Copynumber: 1.9 Consensus size: 196
36039118 TAGAACATAG
* * *
36039128 AATTTAAATCCATTTTCGAACTTTAATTATTTAATTAAATAATAATTCAAAAAACTTAAATTAAT
1 AATTTAAATCCATTTTCGAACTTCAATTATTAAATTAAATAATAATTCAAAAAAATTAAATTAAT
*
36039193 TCTCAGGTCATTTCTATACTAAGTGAGAAACCACATTCATTTCCGAATGTAACCCATTTCTCTAA
66 TCTCAGGTCATTTCCATACTAAGTGAGAAACCACATTCATTTCCGAATGTAACCCATTTCTCTAA
36039258 CTTTATCATTTCTATCCATTTTTGTTCATTTGATTCATCATTCAACAGATTTCATAATGACCAAT
131 CTTTATCATTTCTATCCATTTTTGTTCATTTGATTCATCATTCAACAGATTTCATAATGACCAAT
36039323 T
196 T
*
36039324 AATTTAATTCCATTTTCGAACTTCAATTATTAAATTAAATAATAATT-AAAAAAATGTAAATTAA
1 AATTTAAATCCATTTTCGAACTTCAATTATTAAATTAAATAATAATTCAAAAAAAT-TAAATTAA
* *
36039388 TTCTTAGGTCATTTCCATAGTAAGTGAGAAACCACATTCATTTCCGAATGTAACCCATTTCTCTA
65 TTCTCAGGTCATTTCCATACTAAGTGAGAAACCACATTCATTTCCGAATGTAACCCATTTCTCTA
36039453 ACTTTATCATTTCTATCCATTTTTGTTCATTTGATTCAT
130 ACTTTATCATTTCTATCCATTTTTGTTCATTTGATTCAT
36039492 TATGCAATTC
Statistics
Matches: 160, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
195 7 0.04
196 153 0.96
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (196 bp):
AATTTAAATCCATTTTCGAACTTCAATTATTAAATTAAATAATAATTCAAAAAAATTAAATTAAT
TCTCAGGTCATTTCCATACTAAGTGAGAAACCACATTCATTTCCGAATGTAACCCATTTCTCTAA
CTTTATCATTTCTATCCATTTTTGTTCATTTGATTCATCATTCAACAGATTTCATAATGACCAAT
T
Found at i:36042514 original size:22 final size:22
Alignment explanation
Indices: 36042487--36042530 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
36042477 ATAACTCTAT
36042487 ACATGTCATTTATAACCTTTTC
1 ACATGTCATTTATAACCTTTTC
36042509 ACATGTCATTTATAACCTTTTC
1 ACATGTCATTTATAACCTTTTC
36042531 CATATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.05, T:0.45
Consensus pattern (22 bp):
ACATGTCATTTATAACCTTTTC
Found at i:36046260 original size:46 final size:45
Alignment explanation
Indices: 36046100--36046632 Score: 656
Period size: 46 Copynumber: 11.7 Consensus size: 45
36046090 ATGATTGAAG
* * * * *
36046100 GATGCCAGAGTGTCTTTCGACCATAGTTTTATTCAATTTTTGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTC-ATTTTCGATAT
* * * * *
36046146 GATGTCATAGTATCTTTCAACCATGGTCTTTTTCATTTTCAATAG
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* *
36046191 GATGCCACAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAG
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* *
36046236 GATTGCCATAATGTCTTTCAACCATGGTCTTATTCATTTTCGATAG
1 GA-TGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* * *
36046282 GATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCA-TTTTCGATAT
* * *
36046328 GATGTCATAGTGTCTTTCAACCATGGTTTTATTCATTTTCTAATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTC-GATAT
36046374 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATAT
* * * *
36046420 GATGCCATAATATCTTTCAACCTTGGTCTTATTCATTTTCCAATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATAT
36046466 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATAT
* * *
36046512 GATGCCATAATATCTTTCAACCATGGTCTTATTCATTTTCGATAG
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
* * * *
36046557 GATGCCATAGTGTTTTTCAACTATGGTCTTACTCA-TCT-GAATCAT
1 GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCG-AT-AT
** * *
36046602 GATGCCATAACGTCTTTCAGCTATGGTCTTA
1 GATGCCATAGTGTCTTTCAACCATGGTCTTA
36046633 CTCGTTTGAA
Statistics
Matches: 428, Mismatches: 53, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
43 1 0.00
44 4 0.01
45 147 0.34
46 275 0.64
47 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (45 bp):
GATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCGATAT
Found at i:36046403 original size:92 final size:91
Alignment explanation
Indices: 36046098--36046592 Score: 706
Period size: 91 Copynumber: 5.4 Consensus size: 91
36046088 TAATGATTGA
* * * * * * *
36046098 AGGATGCCAGAGTGTCTTTCGACCATAGTTTTATTCAATTTT-TGATATGATGTCATAGTATCTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTC-ATTTTCCGATATGATGCCATAATATCTT
*
36046162 TCAACCATGGTCTTTTTCATTTTCAAT
65 TCAACCATGGTCTTATTCATTTTCAAT
* * *
36046189 AGGATGCCACAGTGTCTTTCAACCATGGTCTTATTCATTTT-CGATAGGATTGCCATAATGTCTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGA-TGCCATAATATCTT
*
36046253 TCAACCATGGTCTTATTCATTTTCGAT
65 TCAACCATGGTCTTATTCATTTTCAAT
* * * * * *
36046280 AGGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCCGATATGATGTCATAGTGTCTTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGCCATAATATCTTT
*
36046345 CAACCATGGTTTTATTCATTTTCTAAT
66 CAACCATGGTCTTATTCATTTTC-AAT
*
36046372 ATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGCCATAATATCTTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGCCATAATATCTTT
*
36046437 CAACCTTGGTCTTATTCATTTTCCAAT
66 CAACCATGGTCTTATTCATTTT-CAAT
*
36046464 ATGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGCCATAATATCTTT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGCCATAATATCTTT
*
36046529 CAACCATGGTCTTATTCATTTTCGAT
66 CAACCATGGTCTTATTCATTTTCAAT
* * *
36046555 AGGATGCCATAGTGTTTTTCAACTATGGTCTTACTCAT
1 AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCAT
36046593 CTGAATCATG
Statistics
Matches: 365, Mismatches: 35, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
90 11 0.03
91 177 0.48
92 176 0.48
93 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.42
Consensus pattern (91 bp):
AGGATGCCATAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGATATGATGCCATAATATCTTT
CAACCATGGTCTTATTCATTTTCAAT
Found at i:36052403 original size:15 final size:15
Alignment explanation
Indices: 36052383--36052430 Score: 96
Period size: 15 Copynumber: 3.2 Consensus size: 15
36052373 TCAATCATGG
36052383 AGTCAGTCTACAAGA
1 AGTCAGTCTACAAGA
36052398 AGTCAGTCTACAAGA
1 AGTCAGTCTACAAGA
36052413 AGTCAGTCTACAAGA
1 AGTCAGTCTACAAGA
36052428 AGT
1 AGT
36052431 ACAATGATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (15 bp):
AGTCAGTCTACAAGA
Found at i:36060076 original size:28 final size:28
Alignment explanation
Indices: 36060041--36060106 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
36060031 TAAAAAAATA
****
36060041 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAAAAAATTTTTATTT
36060069 ACCAAAATATTATAAAAAATTTTTATTT
1 ACCAAAATATTATAAAAAATTTTTATTT
36060097 ACCAAAATAT
1 ACCAAAATAT
36060107 ACCAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.44
Consensus pattern (28 bp):
ACCAAAATATTATAAAAAATTTTTATTT
Found at i:36060113 original size:28 final size:28
Alignment explanation
Indices: 36060060--36060115 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
36060050 TTATAACTTT
*
36060060 TTTTTATTTACCAAAATATTATAAAAAA
1 TTTTTATTTACCAAAATATTACAAAAAA
36060088 TTTTTATTTACCAAAATA-TACCAAAAAA
1 TTTTTATTTACCAAAATATTA-CAAAAAA
36060116 ATAGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 2 0.08
28 24 0.92
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (28 bp):
TTTTTATTTACCAAAATATTACAAAAAA
Found at i:36060193 original size:27 final size:27
Alignment explanation
Indices: 36060161--36060233 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
36060151 AATCACATTG
*
36060161 GAGGCACCAAAGGTGCCAATGAGATTA
1 GAGGCACCAATGGTGCCAATGAGATTA
* *
36060188 GTGGCACCAATGGTGCCAATGAGATTG
1 GAGGCACCAATGGTGCCAATGAGATTA
*
36060215 GAGGCACCAATTGTGCCAA
1 GAGGCACCAATGGTGCCAA
36060234 AGGACTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.32, C:0.21, G:0.30, T:0.18
Consensus pattern (27 bp):
GAGGCACCAATGGTGCCAATGAGATTA
Found at i:36061357 original size:27 final size:27
Alignment explanation
Indices: 36061318--36061376 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
36061308 TTTTAGTCCT
36061318 TTGGCACCATTGGTGCCGCCAATCTCA
1 TTGGCACCATTGGTGCCGCCAATCTCA
* * * *
36061345 TTGGCACCTTTGGTGCCTCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
36061372 TTGGC
1 TTGGC
36061377 CTGATCAGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:36061471 original size:27 final size:28
Alignment explanation
Indices: 36061418--36061480 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
36061408 TTTTTTTGGT
*
36061418 ATATTTTGATAAATAAAAAAATTTTATA
1 ATATTTTGATAAATAAAAAAATGTTATA
36061446 ATATTTTGATAAATAAAAAAA-GTTATA
1 ATATTTTGATAAATAAAAAAATGTTATA
36061473 ATATTTTG
1 ATATTTTG
36061481 GTTATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 13 0.38
28 21 0.62
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (28 bp):
ATATTTTGATAAATAAAAAAATGTTATA
Found at i:36073721 original size:21 final size:21
Alignment explanation
Indices: 36073686--36073753 Score: 86
Period size: 22 Copynumber: 3.3 Consensus size: 21
36073676 CAAAAGTGAA
36073686 AATCATGTG--ATTAGCAATC
1 AATCATGTGACATTAGCAATC
36073705 AATCATGTGACATTAGCAATC
1 AATCATGTGACATTAGCAATC
* * *
36073726 AAACATTGTTACATCAGCAATC
1 AATCA-TGTGACATTAGCAATC
36073748 AATCAT
1 AATCAT
36073754 TATTGAAGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.21
21 15 0.36
22 18 0.43
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (21 bp):
AATCATGTGACATTAGCAATC
Found at i:36089165 original size:17 final size:18
Alignment explanation
Indices: 36089130--36089172 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
36089120 GGGTCTGATT
36089130 ATTATATAATAAAATATAA
1 ATTATA-AATAAAATATAA
*
36089149 ATTATAAATATAA-ATAA
1 ATTATAAATAAAATATAA
36089166 ATTATAA
1 ATTATAA
36089173 TAATCGTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.48
18 6 0.26
19 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTATAAATAAAATATAA
Found at i:36090831 original size:9 final size:9
Alignment explanation
Indices: 36090814--36090907 Score: 134
Period size: 9 Copynumber: 10.4 Consensus size: 9
36090804 GTAGTGATTC
*
36090814 AATTTGGTT
1 AATTCGGTT
36090823 AATTCGGTT
1 AATTCGGTT
*
36090832 AATTCGGGT
1 AATTCGGTT
36090841 AATTCGGTT
1 AATTCGGTT
* *
36090850 AGTTCGGGT
1 AATTCGGTT
36090859 AATTCGGTT
1 AATTCGGTT
*
36090868 AATTCGGGT
1 AATTCGGTT
36090877 AATTCGGTT
1 AATTCGGTT
36090886 AATTCGGTT
1 AATTCGGTT
*
36090895 AATTCGATT
1 AATTCGGTT
36090904 AATT
1 AATT
36090908 TTTAACCAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 75 1.00
ACGTcount: A:0.23, C:0.10, G:0.24, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:36092715 original size:19 final size:18
Alignment explanation
Indices: 36092693--36092730 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
36092683 AAAATTACAA
36092693 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAA-ATTTAT
*
36092712 AAAAATTCCAAAATTTAT
1 AAAAATTCAAAAATTTAT
36092730 A
1 A
36092731 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATTCAAAAATTTAT
Found at i:36093206 original size:18 final size:18
Alignment explanation
Indices: 36093183--36093217 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36093173 TAAACCGTCT
36093183 GTTCTTCTTCTTTTTTTG
1 GTTCTTCTTCTTTTTTTG
*
36093201 GTTCTTTTTCTTTTTTT
1 GTTCTTCTTCTTTTTTT
36093218 TCTTTCTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.14, G:0.09, T:0.77
Consensus pattern (18 bp):
GTTCTTCTTCTTTTTTTG
Found at i:36102166 original size:31 final size:31
Alignment explanation
Indices: 36102099--36102168 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
36102089 CTTAACAGTC
36102099 TAATGACTTAAATAAGAACTTTTGAATAACT
1 TAATGACTTAAATAAGAACTTTTGAATAACT
* * * * *
36102130 CAATGACTTAAGTGAA-AGCTTTTGAATGATT
1 TAATGACTTAAAT-AAGAACTTTTGAATAACT
36102161 TAATGACT
1 TAATGACT
36102169 ATTTTGTAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 30 0.94
32 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (31 bp):
TAATGACTTAAATAAGAACTTTTGAATAACT
Found at i:36113931 original size:55 final size:56
Alignment explanation
Indices: 36113847--36113976 Score: 199
Period size: 55 Copynumber: 2.3 Consensus size: 56
36113837 TTTTTTTCGT
* * *
36113847 GTGCTGGGATACTGATGGCCGGCATCCTTGTACCAGATTTGAGAAAAAAATTTT-G
1 GTGCTGGGATACTGATGGCCGACACCCTTGTACCAGATTTGAAAAAAAAATTTTGG
* * *
36113902 GTGCTAGGACACTGATGGTCGACACCCTTGTACCAGATTTGAAAAAAAAATTTTGG
1 GTGCTGGGATACTGATGGCCGACACCCTTGTACCAGATTTGAAAAAAAAATTTTGG
36113958 GTGCTGGGATACTGATGGC
1 GTGCTGGGATACTGATGGC
36113977 TGGCAGCCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
55 48 0.74
56 17 0.26
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (56 bp):
GTGCTGGGATACTGATGGCCGACACCCTTGTACCAGATTTGAAAAAAAAATTTTGG
Found at i:36114558 original size:21 final size:21
Alignment explanation
Indices: 36114532--36114578 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
36114522 TTTGTTGGTC
*
36114532 AAATTTTATATTTTCGTATAT
1 AAATTTTATATTTTCGTAAAT
36114553 AAATTTTATATTTTCGTAAAT
1 AAATTTTATATTTTCGTAAAT
36114574 AAATT
1 AAATT
36114579 ATTCTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
AAATTTTATATTTTCGTAAAT
Found at i:36114573 original size:110 final size:110
Alignment explanation
Indices: 36114442--36114686 Score: 418
Period size: 110 Copynumber: 2.2 Consensus size: 110
36114432 ATTTGTTAGT
* * *
36114442 TAAATTTTATATTTTTGTAAATAAATTATTCTAAAATGTTTGTATTATTTTGGGGTGTTGTAAAA
1 TAAATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAA
*
36114507 ATATTTTAATTCATATTTGTTGGTCAAATTTTATATTTTCGTATA
66 ATATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATA
36114552 TAAATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAA
1 TAAATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAA
36114617 ATATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATA
66 ATATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATA
*
36114662 TACATTATATATATTTTTCGTAAAT
1 TAAATT-T-TATA-TTTTCGTAAAT
36114687 TAGTTTTGTA
Statistics
Matches: 127, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
110 111 0.87
111 1 0.01
112 4 0.03
113 11 0.09
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (110 bp):
TAAATTTTATATTTTCGTAAATAAATTATTCTAAAATGTTTGAATTATTTTGGGGTGCTGTAAAA
ATATTTTAATCCATATTTGTTGGTCAAATTTTATATTTTCGTATA
Found at i:36114751 original size:18 final size:17
Alignment explanation
Indices: 36114724--36114757 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
36114714 TTTATTATTA
*
36114724 TTTGAGTTATATTATTTG
1 TTTGAATTATA-TATTTG
36114742 TTTGAATTATATATTT
1 TTTGAATTATATATTT
36114758 TTGACTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (17 bp):
TTTGAATTATATATTTG
Found at i:36116771 original size:23 final size:23
Alignment explanation
Indices: 36116744--36116819 Score: 104
Period size: 23 Copynumber: 3.4 Consensus size: 23
36116734 GGCTTTGTCG
*
36116744 ATCAGGCACTTTATGTGCCGTAC
1 ATCAGGCACTTTATGTGTCGTAC
*
36116767 ATCAGGCACTTTATGTGTTGTATC
1 ATCAGGCACTTTATGTGTCGTA-C
36116791 -TCAGGCACTTTATGTGTCGT--
1 ATCAGGCACTTTATGTGTCGTAC
36116811 ATCAGGCAC
1 ATCAGGCAC
36116820 CCCGTGTGTC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
21 8 0.17
23 39 0.81
24 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAC
Found at i:36121415 original size:19 final size:19
Alignment explanation
Indices: 36121384--36121432 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
36121374 AATTTAATTA
*
36121384 AATT-TTAATTTAAACTAT
1 AATTATTAAGTTAAACTAT
*
36121402 AATTATTAAGTTAAACTTT
1 AATTATTAAGTTAAACTAT
*
36121421 AATTATTTAGTT
1 AATTATTAAGTT
36121433 TTAAACTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (19 bp):
AATTATTAAGTTAAACTAT
Found at i:36125480 original size:24 final size:24
Alignment explanation
Indices: 36125453--36125501 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
36125443 TAAAGTGATC
*
36125453 AAGGGTCTCTTTGGATGGACATTT
1 AAGGGTCTCTTTGGATGAACATTT
36125477 AAGGGTCTCTTTGGATGAACATTT
1 AAGGGTCTCTTTGGATGAACATTT
36125501 A
1 A
36125502 TCTTTAGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (24 bp):
AAGGGTCTCTTTGGATGAACATTT
Found at i:36125943 original size:15 final size:15
Alignment explanation
Indices: 36125923--36125952 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36125913 CTATTTGAGT
*
36125923 AGTTCATTTCACGGG
1 AGTTCACTTCACGGG
36125938 AGTTCACTTCACGGG
1 AGTTCACTTCACGGG
36125953 TAGAGATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (15 bp):
AGTTCACTTCACGGG
Found at i:36133701 original size:15 final size:15
Alignment explanation
Indices: 36133677--36133708 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36133667 TATACATGCA
*
36133677 AAATATAAAAGATAT
1 AAATACAAAAGATAT
36133692 AAATACAAAAGATAT
1 AAATACAAAAGATAT
36133707 AA
1 AA
36133709 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (15 bp):
AAATACAAAAGATAT
Found at i:36136834 original size:15 final size:14
Alignment explanation
Indices: 36136813--36136848 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
36136803 ATAATCCTTA
*
36136813 ATAATTATCTTAAT
1 ATAATTATCCTAAT
36136827 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
36136842 ATAATTA
1 ATAATTA
36136849 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Done.