Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 19 of 50
Found at i:8904394 original size:23 final size:23
Alignment explanation
Indices: 8904364--8904462 Score: 83
Period size: 23 Copynumber: 4.3 Consensus size: 23
8904354 GTTTAGAGTT
* *
8904364 TGTGACAC-ACCATGGAGGGAATA
1 TGTGACACGA-CAAGGAGAGAATA
*
8904387 TGTGACACGACAAGGTGAGAATA
1 TGTGACACGACAAGGAGAGAATA
**
8904410 TGTGACACGACTCGGAGAGAATA
1 TGTGACACGACAAGGAGAGAATA
* * * * *
8904433 TATGAGATGACATGGTGAGAATA
1 TGTGACACGACAAGGAGAGAATA
*
8904456 GGTGACA
1 TGTGACA
8904463 TGTTAGTGTA
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 59 0.98
24 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.19
Consensus pattern (23 bp):
TGTGACACGACAAGGAGAGAATA
Found at i:8904524 original size:23 final size:23
Alignment explanation
Indices: 8904498--8904554 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
8904488 ATGGTGTGCT
8904498 TATGTGACAC-ACAATGGTGAGAA
1 TATGTGACACGAC-ATGGTGAGAA
* * *
8904521 TATGTGAGACGGCATGGTGAGCA
1 TATGTGACACGACATGGTGAGAA
*
8904544 CATGTGACACG
1 TATGTGACACG
8904555 GTTGGGTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.21
Consensus pattern (23 bp):
TATGTGACACGACATGGTGAGAA
Found at i:8904555 original size:23 final size:23
Alignment explanation
Indices: 8904511--8904555 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8904501 GTGACACACA
* *
8904511 ATGGTGAGAATATGTGAGACGGC
1 ATGGTGAGAACATGTGACACGGC
*
8904534 ATGGTGAGCACATGTGACACGG
1 ATGGTGAGAACATGTGACACGG
8904556 TTGGGTTCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.13, G:0.38, T:0.20
Consensus pattern (23 bp):
ATGGTGAGAACATGTGACACGGC
Found at i:8904647 original size:47 final size:47
Alignment explanation
Indices: 8904545--8904649 Score: 147
Period size: 47 Copynumber: 2.2 Consensus size: 47
8904535 TGGTGAGCAC
* * *
8904545 ATGTGACACGGTTGGGTTCAGAATTTGTGACACGCCATAGAGGGAAT
1 ATGTGACATGGTAGGGTTCAGAATTTATGACACGCCATAGAGGGAAT
* * * *
8904592 TTGTGACATGGTAGGGTTCAGAGTTTATGACACTCCATGGAGGGAAT
1 ATGTGACATGGTAGGGTTCAGAATTTATGACACGCCATAGAGGGAAT
8904639 ATGTGACATGG
1 ATGTGACATGG
8904650 CAAGGTGATA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.28
Consensus pattern (47 bp):
ATGTGACATGGTAGGGTTCAGAATTTATGACACGCCATAGAGGGAAT
Found at i:8904759 original size:81 final size:80
Alignment explanation
Indices: 8904653--8904852 Score: 213
Period size: 81 Copynumber: 2.5 Consensus size: 80
8904643 GACATGGCAA
* * * * * * *
8904653 GGTGATAATGTGTGAGACGAGATGGTGAGAATATGTGACATGATTGTGACACGGCAGGGTTTAGA
1 GGTGAGAATATGTGAGAC-AGATGGTGAAAATATGTGACACGACTGTCACACGACAGGGTTTAGA
8904718 GTTGGTAACACGCCAT
65 GTTGGTAACACGCCAT
8904734 GGTGAGAATATGTGAGACAGCATGGT-AAACATATGTGACACGACTGTCACACGACAGGGTTTAG
1 GGTGAGAATATGTGAGACAG-ATGGTGAAA-ATATGTGACACGACTGTCACACGACAGGGTTTAG
* * *
8904798 AGTTTGTGACACGTCAT
64 AGTTGGTAACACGCCAT
* * * * * *
8904815 GGAGGGAATCTGTGACACAGTAGGGTGAAAATGTGTGA
1 GGTGAGAATATGTGAGACAG-ATGGTGAAAATATGTGA
8904853 GACGGCATGG
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 4 0.04
81 92 0.93
82 3 0.03
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.24
Consensus pattern (80 bp):
GGTGAGAATATGTGAGACAGATGGTGAAAATATGTGACACGACTGTCACACGACAGGGTTTAGAG
TTGGTAACACGCCAT
Found at i:8904926 original size:185 final size:185
Alignment explanation
Indices: 8904604--8904943 Score: 477
Period size: 185 Copynumber: 1.8 Consensus size: 185
8904594 GTGACATGGT
** *
8904604 AGGGTTCAGAGTTTATGACACTCCATGGAGGGAATATGTGACATGGCAAGGTGATAATGTGTGAG
1 AGGGTTCAGAGTTTATGACACTCCATGGAGGGAATATGTGACACAGCAAGGTGAAAATGTGTGAG
* * * *
8904669 ACGAGATGGTGAGAATATGTGACATGATTGTGACACGGCAGGGTTTAGAGTTGGTAACACGCCAT
66 ACGAGATGGTGAGAATATGTGACACGATTGTGACACGGCAGAGTTTAGAGTTCGTAACACACCAT
* * *
8904734 GGTGAGAATATGTGAGACAGCATGGTAAACATATGTGACACGACTGTCACACGAC
131 AGTGAGAATATATGACACAGCATGGTAAACATATGTGACACGACTGTCACACGAC
* * * * *
8904789 AGGGTTTAGAGTTTGTGACACGT-CATGGAGGGAATCTGTGACACAGTAGGGTGAAAATGTGTGA
1 AGGGTTCAGAGTTTATGACAC-TCCATGGAGGGAATATGTGACACAGCAAGGTGAAAATGTGTGA
* * *
8904853 GACG-GCATGGTGAGAATATGTGACACGATTGTGACATGGTAGAGTTTAGAGTTCGTGACACACC
65 GACGAG-ATGGTGAGAATATGTGACACGATTGTGACACGGCAGAGTTTAGAGTTCGTAACACACC
*
8904917 ATAGTGAGAATATATGACACGGCATGG
129 ATAGTGAGAATATATGACACAGCATGG
8904944 CTTGAACATG
Statistics
Matches: 134, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
184 1 0.01
185 132 0.99
186 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.24
Consensus pattern (185 bp):
AGGGTTCAGAGTTTATGACACTCCATGGAGGGAATATGTGACACAGCAAGGTGAAAATGTGTGAG
ACGAGATGGTGAGAATATGTGACACGATTGTGACACGGCAGAGTTTAGAGTTCGTAACACACCAT
AGTGAGAATATATGACACAGCATGGTAAACATATGTGACACGACTGTCACACGAC
Found at i:8904935 original size:104 final size:104
Alignment explanation
Indices: 8904734--8904936 Score: 228
Period size: 104 Copynumber: 2.0 Consensus size: 104
8904724 AACACGCCAT
* *
8904734 GGTGAGAATATGTGAGACAGCATGGTAAACATATGTGACACGACTGTCACACGACAGGGTTTAGA
1 GGTGAAAATATGTGAGACAGCATGGTAAACATATGTGACACGACTGTCACACGACAGAGTTTAGA
* ** * * * *
8904799 GTTTGTGACACGTCATGGAGGGAATCTGTGACACAGTAG
66 GTTCGTGACACACCATAGAGAGAATATATGACACAGTAG
* * * * * * **
8904838 GGTGAAAATGTGTGAGACGGCATGGTGAGA-ATATGTGACACGATTGTGACATGGTAGAGTTTAG
1 GGTGAAAATATGTGAGACAGCATGGT-AAACATATGTGACACGACTGTCACACGACAGAGTTTAG
*
8904902 AGTTCGTGACACACCATAGTGAGAATATATGACAC
65 AGTTCGTGACACACCATAGAGAGAATATATGACAC
8904937 GGCATGGCTT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
104 78 0.98
105 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.24
Consensus pattern (104 bp):
GGTGAAAATATGTGAGACAGCATGGTAAACATATGTGACACGACTGTCACACGACAGAGTTTAGA
GTTCGTGACACACCATAGAGAGAATATATGACACAGTAG
Found at i:8904957 original size:23 final size:23
Alignment explanation
Indices: 8904931--8904995 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
8904921 TGAGAATATA
*
8904931 TGACACGGCATGGCTTGAACATG
1 TGACACGCCATGGCTTGAACATG
* * *
8904954 TGACACACCATGGGTTGAATATG
1 TGACACGCCATGGCTTGAACATG
*
8904977 TGACACGCCATGGTTTGAA
1 TGACACGCCATGGCTTGAA
8904996 ATAGAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (23 bp):
TGACACGCCATGGCTTGAACATG
Found at i:8904960 original size:46 final size:46
Alignment explanation
Indices: 8904907--8904995 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
8904897 TTTAGAGTTC
* *
8904907 GTGACACACCAT-AGTGAGAATATATGACACGGCATGGCTTGAACAT
1 GTGACACACCATGGGT-AGAATATATGACACGCCATGGCTTGAACAT
* * *
8904953 GTGACACACCATGGGTTGAATATGTGACACGCCATGGTTTGAA
1 GTGACACACCATGGGTAGAATATATGACACGCCATGGCTTGAA
8904996 ATAGAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
46 35 0.95
47 2 0.05
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (46 bp):
GTGACACACCATGGGTAGAATATATGACACGCCATGGCTTGAACAT
Found at i:8905581 original size:63 final size:63
Alignment explanation
Indices: 8905448--8905587 Score: 163
Period size: 63 Copynumber: 2.2 Consensus size: 63
8905438 GGGGTTTTTA
* * * *
8905448 GCATGTCACGACATTGGGTATTTGAGGGTAGTTCGTGTAACGAGTCAGTAATTACAGTGACTG
1 GCATGTCACCACATTGGGTATTTGAGGGCAATTCGTGTAACGAGACAGTAATTACAGTGACTG
* * * * * * * *
8905511 ACGTGTCACCATATTGTGTATTTTAGGGCAATTCGTGTAAGGAGACAGTAATTATAGTGATTG
1 GCATGTCACCACATTGGGTATTTGAGGGCAATTCGTGTAACGAGACAGTAATTACAGTGACTG
*
8905574 GCATGTCACGACAT
1 GCATGTCACCACAT
8905588 GCCATGGTTG
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (63 bp):
GCATGTCACCACATTGGGTATTTGAGGGCAATTCGTGTAACGAGACAGTAATTACAGTGACTG
Found at i:8905660 original size:31 final size:31
Alignment explanation
Indices: 8905625--8905763 Score: 233
Period size: 31 Copynumber: 4.5 Consensus size: 31
8905615 TTAGCGTTGA
*
8905625 CGTGTAACAAAATTTGACTTGATATGCATGG
1 CGTGTAACAACATTTGACTTGATATGCATGG
8905656 CGTGTAACAACATTTGACTTGATATGCATGG
1 CGTGTAACAACATTTGACTTGATATGCATGG
* *
8905687 CGTGTGACAACATTTTACTTGATATGCATGG
1 CGTGTAACAACATTTGACTTGATATGCATGG
* *
8905718 CTTGTGACAACATTTGACTTGATATGCATGG
1 CGTGTAACAACATTTGACTTGATATGCATGG
8905749 CGTGTAACAACATTT
1 CGTGTAACAACATTT
8905764 ATTTCTTTCT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 101 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (31 bp):
CGTGTAACAACATTTGACTTGATATGCATGG
Found at i:8908270 original size:81 final size:80
Alignment explanation
Indices: 8908132--8908322 Score: 224
Period size: 81 Copynumber: 2.4 Consensus size: 80
8908122 ACCTTCACTT
* * * * * *
8908132 AGTTGAGGTT-AAAGCAGACCATTTTCCTCAGGTCGATGCATTAGTCAAGGCAACAACAGGAAGG
1 AGTTCAGGTTGAAAG-AGACCATCTTCCTTAGGTCGATGCAGTAGCCAAGGCAACAACAAGAAGG
8908196 GATGAGAACCTTGCATC
65 GATGAGAA-CTTGCATC
* * * * *
8908213 AGTTCAGGTTGAAAGAGACCATCTTCCTTAGGTCGATGCAGTCGCCGAGGTAGCAACAAGAGGGG
1 AGTTCAGGTTGAAAGAGACCATCTTCCTTAGGTCGATGCAGTAGCCAAGGCAACAACAAGAAGGG
*
8908278 ATGGGAACTTGCATC
66 ATGAGAACTTGCATC
*
8908293 AGTTCAGGCTG-AAGAGGACCATCTTCCTTA
1 AGTTCAGGTTGAAAGA-GACCATCTTCCTTA
8908323 AATTACTTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 4 0.04
80 32 0.34
81 55 0.58
82 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (80 bp):
AGTTCAGGTTGAAAGAGACCATCTTCCTTAGGTCGATGCAGTAGCCAAGGCAACAACAAGAAGGG
ATGAGAACTTGCATC
Found at i:8909815 original size:31 final size:31
Alignment explanation
Indices: 8909775--8910070 Score: 322
Period size: 31 Copynumber: 9.4 Consensus size: 31
8909765 CTGCAACAAG
**
8909775 TCAACGTGTCACCCCATAAATCTGCTTTCAC
1 TCAACGTGTCACCCCATAAATCTGCTACCAC
** *
8909806 TCAGTGTGTCACACCATAAATCTGCTACCAC
1 TCAACGTGTCACCCCATAAATCTGCTACCAC
8909837 TCAACGTGTCACCCCATAAATCTGCTACCAC
1 TCAACGTGTCACCCCATAAATCTGCTACCAC
* * *
8909868 TACCACTTAGTGTGTCACGCCATAAATCTACTACCAC
1 T--CA---A-CGTGTCACCCCATAAATCTGCTACCAC
* *
8909905 TCAACGTGTCACCCCATAAATCTGCTTCGAC
1 TCAACGTGTCACCCCATAAATCTGCTACCAC
* ** *
8909936 TCAATGTGTCATGCCATAAATCTCCTACCAC
1 TCAACGTGTCACCCCATAAATCTGCTACCAC
* *
8909967 TCAGCGTGTCACCCCATAAATCTACTACCAC
1 TCAACGTGTCACCCCATAAATCTGCTACCAC
* ** *
8909998 CCAGTGTGTCAGCCCATAAATCTGCTACCAC
1 TCAACGTGTCACCCCATAAATCTGCTACCAC
* * * *
8910029 TCAACGTGTCAGCCCATAAATTTACTTCCAC
1 TCAACGTGTCACCCCATAAATCTGCTACCAC
8910060 TCAACGTGTCA
1 TCAACGTGTCA
8910071 TAACAAGATG
Statistics
Matches: 222, Mismatches: 37, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
31 191 0.86
32 1 0.00
33 2 0.01
35 2 0.01
36 1 0.00
37 25 0.11
ACGTcount: A:0.28, C:0.34, G:0.11, T:0.26
Consensus pattern (31 bp):
TCAACGTGTCACCCCATAAATCTGCTACCAC
Found at i:8909850 original size:62 final size:62
Alignment explanation
Indices: 8909775--8910062 Score: 371
Period size: 62 Copynumber: 4.5 Consensus size: 62
8909765 CTGCAACAAG
* *
8909775 TCAACGTGTCACCCCATAAATCTGCTTTCACTCAGTGTGTCACACCATAAATCTGCTACCAC
1 TCAACGTGTCACCCCATAAATCTGCTTCCACTCAGTGTGTCACGCCATAAATCTGCTACCAC
* *
8909837 TCAACGTGTCACCCCATAAATCTGCTACCACTACCACTTAGTGTGTCACGCCATAAATCTACTAC
1 TCAACGTGTCACCCCATAAATCTGCT-----T-CCACTCAGTGTGTCACGCCATAAATCTGCTAC
8909902 CAC
60 CAC
* * * *
8909905 TCAACGTGTCACCCCATAAATCTGCTTCGACTCAATGTGTCATGCCATAAATCTCCTACCAC
1 TCAACGTGTCACCCCATAAATCTGCTTCCACTCAGTGTGTCACGCCATAAATCTGCTACCAC
* * * *
8909967 TCAGCGTGTCACCCCATAAATCTACTACCACCCAGTGTGTCA-GCCCATAAATCTGCTACCAC
1 TCAACGTGTCACCCCATAAATCTGCTTCCACTCAGTGTGTCACG-CCATAAATCTGCTACCAC
* * *
8910029 TCAACGTGTCAGCCCATAAATTTACTTCCACTCA
1 TCAACGTGTCACCCCATAAATCTGCTTCCACTCA
8910063 ACGTGTCATA
Statistics
Matches: 198, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
61 1 0.01
62 138 0.70
63 1 0.01
67 1 0.01
68 57 0.29
ACGTcount: A:0.28, C:0.35, G:0.11, T:0.26
Consensus pattern (62 bp):
TCAACGTGTCACCCCATAAATCTGCTTCCACTCAGTGTGTCACGCCATAAATCTGCTACCAC
Found at i:8909938 original size:130 final size:124
Alignment explanation
Indices: 8909775--8910070 Score: 398
Period size: 130 Copynumber: 2.3 Consensus size: 124
8909765 CTGCAACAAG
* *
8909775 TCAACGTGTCACCCCATAAATCTGCTTTCACTCAGTGTGTCACACCATAAATCTGCTACCACTCA
1 TCAACGTGTCACCCCATAAATCTGCTTTCACTCAATGTGTCACACCATAAATCTCCTACCACTCA
*
8909840 ACGTGTCACCCCATAAATCTGCTACCACTACCACTTAGTGTGTCA-CGCCATAAATCTACTACCA
66 ACGTGTCACCCCATAAATCTACTA-C-C-ACC-C--AGTGTGTCAGC-CCATAAATCTACTACCA
8909904 C
124 C
**
8909905 TCAACGTGTCACCCCATAAATCTGC-TTCGACTCAATGTGTCATGCCATAAATCTCCTACCACTC
1 TCAACGTGTCACCCCATAAATCTGCTTTC-ACTCAATGTGTCACACCATAAATCTCCTACCACTC
* *
8909969 AGCGTGTCACCCCATAAATCTACTACCACCCAGTGTGTCAGCCCATAAATCTGCTACCAC
65 AACGTGTCACCCCATAAATCTACTACCACCCAGTGTGTCAGCCCATAAATCTACTACCAC
* * * * *
8910029 TCAACGTGTCAGCCCATAAATTTACTTCCACTCAACGTGTCA
1 TCAACGTGTCACCCCATAAATCTGCTTTCACTCAATGTGTCA
8910071 TAACAAGATG
Statistics
Matches: 151, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
124 60 0.40
125 3 0.02
126 1 0.01
127 3 0.02
128 1 0.01
129 4 0.03
130 79 0.52
ACGTcount: A:0.28, C:0.34, G:0.11, T:0.26
Consensus pattern (124 bp):
TCAACGTGTCACCCCATAAATCTGCTTTCACTCAATGTGTCACACCATAAATCTCCTACCACTCA
ACGTGTCACCCCATAAATCTACTACCACCCAGTGTGTCAGCCCATAAATCTACTACCAC
Found at i:8910853 original size:81 final size:81
Alignment explanation
Indices: 8910718--8910891 Score: 330
Period size: 81 Copynumber: 2.1 Consensus size: 81
8910708 CACTACCATA
*
8910718 AATAGCACCTTTTTAGTAACCCTCATTTACTATTTGCCCTCATTTTTTCCTCTTCTTGGCAGCCT
1 AATAGCACCTTCTTAGTAACCCTCATTTACTATTTGCCCTCATTTTTTCCTCTTCTTGGCAGCCT
8910783 TTGATGCAGTGGACCT
66 TTGATGCAGTGGACCT
*
8910799 AATAGCACCTTCTTAGTAACCCTCATTTACTATTTGCCCTCATTTTTTCCTCTTCTTGGCAGGCT
1 AATAGCACCTTCTTAGTAACCCTCATTTACTATTTGCCCTCATTTTTTCCTCTTCTTGGCAGCCT
8910864 TTGATGCAGTGGACCT
66 TTGATGCAGTGGACCT
8910880 AATAGCACCTTC
1 AATAGCACCTTC
8910892 ACTTGCACTA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 91 1.00
ACGTcount: A:0.20, C:0.28, G:0.14, T:0.39
Consensus pattern (81 bp):
AATAGCACCTTCTTAGTAACCCTCATTTACTATTTGCCCTCATTTTTTCCTCTTCTTGGCAGCCT
TTGATGCAGTGGACCT
Found at i:8910958 original size:24 final size:24
Alignment explanation
Indices: 8910927--8911032 Score: 140
Period size: 24 Copynumber: 4.4 Consensus size: 24
8910917 ACACTAGTAA
*
8910927 CAGCTTCACTTTGTGCACCAGCAG
1 CAGCTTCACTTGGTGCACCAGCAG
*
8910951 CAGCTTCACTTGGTGCACCAACAG
1 CAGCTTCACTTGGTGCACCAGCAG
* * *
8910975 CAGCTTCACTTGGTTCACTAGTAG
1 CAGCTTCACTTGGTGCACCAGCAG
* * *
8910999 TAACTTCACTTGGTGCACCAGTAG
1 CAGCTTCACTTGGTGCACCAGCAG
8911023 CAGCTTCACT
1 CAGCTTCACT
8911033 CGCTCTACTA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (24 bp):
CAGCTTCACTTGGTGCACCAGCAG
Found at i:8914260 original size:13 final size:13
Alignment explanation
Indices: 8914242--8914267 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8914232 TTCCAGAAAA
8914242 TTTATAAAATCAT
1 TTTATAAAATCAT
8914255 TTTATAAAATCAT
1 TTTATAAAATCAT
8914268 AATTTCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:8915447 original size:27 final size:28
Alignment explanation
Indices: 8915390--8915447 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
8915380 GGAAAAATGT
*
8915390 CCTGGTGGTGGAAAATTACAATTTTGCC
1 CCTGGTGGTGGAAAATTACAATTTTGAC
*
8915418 CCTGG-GGTGGCAAAATTACCATTTT-AC
1 CCTGGTGGTGG-AAAATTACAATTTTGAC
8915445 CCT
1 CCT
8915448 TTTACTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (28 bp):
CCTGGTGGTGGAAAATTACAATTTTGAC
Found at i:8919578 original size:11 final size:11
Alignment explanation
Indices: 8919551--8919594 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
8919541 CCTAGGGTTC
8919551 TTGTTCTT-C-
1 TTGTTCTTCCT
8919560 TT-TTCTTCCT
1 TTGTTCTTCCT
8919570 TTGTTCTTCCTT
1 TTGTTCTTCC-T
8919582 TTGTT-TTCCT
1 TTGTTCTTCCT
8919592 TTG
1 TTG
8919595 GCTGGCCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 5 0.16
9 3 0.10
10 6 0.19
11 11 0.35
12 6 0.19
ACGTcount: A:0.00, C:0.23, G:0.09, T:0.68
Consensus pattern (11 bp):
TTGTTCTTCCT
Found at i:8923575 original size:28 final size:29
Alignment explanation
Indices: 8923517--8923580 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
8923507 CAAATTTTTA
* ** *
8923517 AAAAATTACACTTTTGCCCTCGTAAAGTG
1 AAAAATTACACTTTTACCCTCAAAAACTG
*
8923546 AAAAATTACATTTTTACCCT-AAAAACTG
1 AAAAATTACACTTTTACCCTCAAAAACTG
8923574 AAAAATT
1 AAAAATT
8923581 GCCCATAGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (29 bp):
AAAAATTACACTTTTACCCTCAAAAACTG
Found at i:8932446 original size:11 final size:11
Alignment explanation
Indices: 8932419--8932462 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
8932409 CCTAGGGTTC
8932419 TTGTTCTT-C-
1 TTGTTCTTCCT
8932428 TT-TTCTTCCT
1 TTGTTCTTCCT
8932438 TTGTTCTTCCTT
1 TTGTTCTTCC-T
8932450 TTGTT-TTCCT
1 TTGTTCTTCCT
8932460 TTG
1 TTG
8932463 GCCGGCCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 5 0.16
9 3 0.10
10 6 0.19
11 11 0.35
12 6 0.19
ACGTcount: A:0.00, C:0.23, G:0.09, T:0.68
Consensus pattern (11 bp):
TTGTTCTTCCT
Found at i:8933388 original size:32 final size:31
Alignment explanation
Indices: 8933352--8933411 Score: 93
Period size: 32 Copynumber: 1.9 Consensus size: 31
8933342 TTATTAAATT
* *
8933352 ATAAAAATTAATATTATTATTATTTTTTAAGA
1 ATAAAAATCAATATTATT-TTATTGTTTAAGA
8933384 ATAAAAATCAATATTATTTTATTGTTTA
1 ATAAAAATCAATATTATTTTATTGTTTA
8933412 GTAATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (31 bp):
ATAAAAATCAATATTATTTTATTGTTTAAGA
Found at i:8935174 original size:184 final size:186
Alignment explanation
Indices: 8934931--8935294 Score: 486
Period size: 184 Copynumber: 2.0 Consensus size: 186
8934921 CTTGGGTTCG
* *
8934931 AATCTAAACACCAGCAAAAGTGGATATTTTTTATTTAATTATTTAAATAACAATAAAATATATAC
1 AATCTAAACACCAACAAAAGTGGATATTTTTTATTTAATTATATAAATAACAATAAAATATATAC
* * * *
8934996 AAATGAGCATT-AGAATCGAGTTCAGGGTGATAACCGAACCCGATACGGGTAGTAAAATCACTAC
66 AAACGAGCATTGA-AATCGAGTTCAGAGTAATAACCGAACCCGATACGGATAGTAAAATCACTAC
* * *
8935060 TCGAAC-TAGTCTCAAACTCGATTAT-AAGATACCTTAATCCTATATAACCGAGTAAAT
130 TCGAACTTA-TATCAAACTCGATTATGAA-ATACCCTAATCCGATATAACCGAGTAAAT
* * *
8935117 AATCT-AACACCAACAAAAGTGGAT-TTTTTTATTTAATTATATAAGTAACACTAAAATATATAT
1 AATCTAAACACCAACAAAAGTGGATATTTTTTATTTAATTATATAAATAACAATAAAATATATAC
* ** * * *
8935180 AAACGAGTATTGAAATCGAGTTTTGAGTAATACCCGAACTCGATACGGATAGTAAAATCATTACT
66 AAACGAGCATTGAAATCGAGTTCAGAGTAATAACCGAACCCGATACGGATAGTAAAATCACTACT
* *
8935245 CGAACTTATATTAAACTCGATTATGAAATACCCTAATTCGATATAACCGA
131 CGAACTTATATCAAACTCGATTATGAAATACCCTAATCCGATATAACCGA
8935295 ATTGGATATC
Statistics
Matches: 155, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
184 127 0.82
185 23 0.15
186 5 0.03
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (186 bp):
AATCTAAACACCAACAAAAGTGGATATTTTTTATTTAATTATATAAATAACAATAAAATATATAC
AAACGAGCATTGAAATCGAGTTCAGAGTAATAACCGAACCCGATACGGATAGTAAAATCACTACT
CGAACTTATATCAAACTCGATTATGAAATACCCTAATCCGATATAACCGAGTAAAT
Found at i:8939192 original size:23 final size:23
Alignment explanation
Indices: 8939162--8939215 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
8939152 ATTAAACATC
8939162 AATAATTTATTATTAAATTA-TTA
1 AATAATTTA-TATTAAATTAGTTA
8939185 AATAATTTATATTAAATTAGTTA
1 AATAATTTATATTAAATTAGTTA
*
8939208 TATAATTT
1 AATAATTT
8939216 TTACTTTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
AATAATTTATATTAAATTAGTTA
Found at i:8939301 original size:135 final size:137
Alignment explanation
Indices: 8939048--8939308 Score: 357
Period size: 135 Copynumber: 1.9 Consensus size: 137
8939038 TTTTGATATC
* * *
8939048 AATAATTTATTATTAAATTAGTTGTATGATTTTTAATTTTAACAATTTGAATCATTTTTCTCTAT
1 AATAATTTATTATTAAATTAGTTATATAATTTTTAACTTTAACAATTTGAATCATTTTTCTCTAT
*
8939113 TTGTATTTTTCATGTCTTAACCTTTTAATTTACATTTTCATTAAACATCAATAATTTATTATTAA
66 TTGTATTTTTCATGTCTTAACCTTTTAATTTACATTTTCATTAAAAATCAATAATTTATTATTAA
8939178 ATTATTA
131 ATTATTA
* ** *
8939185 AATAATTTA-TATTAAATTAGTTATATAATTTTT-ACTTTCATTATTTGAGT-ATTTTTCTCTAT
1 AATAATTTATTATTAAATTAGTTATATAATTTTTAACTTTAACAATTTGAATCATTTTTCTCTAT
* * * * ** *
8939247 TTGTATTTTTTATTTTTTAATCTTTTTAATTTTTATTTTCATTAAAAATTAATAATTTATTA
66 TTGTATTTTTCATGTCTTAA-CCTTTTAATTTACATTTTCATTAAAAATCAATAATTTATTA
8939309 ATTGATATAA
Statistics
Matches: 108, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
134 29 0.27
135 48 0.44
136 22 0.20
137 9 0.08
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.57
Consensus pattern (137 bp):
AATAATTTATTATTAAATTAGTTATATAATTTTTAACTTTAACAATTTGAATCATTTTTCTCTAT
TTGTATTTTTCATGTCTTAACCTTTTAATTTACATTTTCATTAAAAATCAATAATTTATTATTAA
ATTATTA
Found at i:8939620 original size:32 final size:32
Alignment explanation
Indices: 8939575--8939661 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
8939565 GAGAGAGGAA
* *
8939575 GAAGATCGATTGAGAGAGGACGA-AAGATAAGG
1 GAAGATCGGTTGAGAGAGGA-GAGAAGACAAGG
* *
8939607 GAAGATCGGTTGAGAGAGTAGATGAAGACAGGG
1 GAAGATCGGTTGAGAGAGGAGA-GAAGACAAGG
* *
8939640 GAAGGTCGGCTGAGAGAGGAGA
1 GAAGATCGGTTGAGAGAGGAGA
8939662 TGCTTTTCGG
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
31 2 0.04
32 18 0.39
33 26 0.57
ACGTcount: A:0.38, C:0.07, G:0.43, T:0.13
Consensus pattern (32 bp):
GAAGATCGGTTGAGAGAGGAGAGAAGACAAGG
Found at i:8947837 original size:5 final size:5
Alignment explanation
Indices: 8947827--8947854 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8947817 CTTTTCCAAA
8947827 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
8947855 TTAAAGGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:8962071 original size:19 final size:19
Alignment explanation
Indices: 8962047--8962084 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8962037 TCCATGACTC
*
8962047 ATTGTAGTACTGTAAGATT
1 ATTGTAGTACTATAAGATT
*
8962066 ATTGTATTACTATAAGATT
1 ATTGTAGTACTATAAGATT
8962085 GAATCAAACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (19 bp):
ATTGTAGTACTATAAGATT
Found at i:8965187 original size:43 final size:43
Alignment explanation
Indices: 8965133--8965220 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
8965123 TAACATTAAT
8965133 AGTTTATTTACATAGTAATTACTAAGTGCGTGACTATAATAAA
1 AGTTTATTTACATAGTAATTACTAAGTGCGTGACTATAATAAA
8965176 AGTTTATTTACATAGTAATTACTAAGTGCGTGACTATAATAAA
1 AGTTTATTTACATAGTAATTACTAAGTGCGTGACTATAATAAA
8965219 AG
1 AG
8965221 CCTAACTAGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (43 bp):
AGTTTATTTACATAGTAATTACTAAGTGCGTGACTATAATAAA
Found at i:8973417 original size:49 final size:47
Alignment explanation
Indices: 8973358--8973453 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 47
8973348 TAGAAAAATT
8973358 GTTTAGTTCATAATAT-CTAATAAAAACTTCATCCAAAGAAAATTAGTC
1 GTTTAGTTCATAATATACTAAT-AAAACTTCATCCAAAG-AAATTAGTC
8973406 NGTTTAGTTCATAATATACTAATAAAACTTCATCCAAAGAAATTAGTC
1 -GTTTAGTTCATAATATACTAATAAAACTTCATCCAAAGAAATTAGTC
8973454 ATTCATCGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
48 9 0.20
49 32 0.70
50 5 0.11
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (47 bp):
GTTTAGTTCATAATATACTAATAAAACTTCATCCAAAGAAATTAGTC
Found at i:8974015 original size:10 final size:11
Alignment explanation
Indices: 8973997--8974026 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
8973987 CTCCTGTAAA
8973997 AATATAAAAAT
1 AATATAAAAAT
8974008 AA-ATAAAAAT
1 AATATAAAAAT
8974018 AATATAAAA
1 AATATAAAA
8974027 CTAACATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:8974740 original size:18 final size:16
Alignment explanation
Indices: 8974701--8974745 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
8974691 TATGTTATTG
8974701 AGGTGTGTTCTTGGAC
1 AGGTGTGTTCTTGGAC
8974717 AGGTGTGTTCTTGGAC
1 AGGTGTGTTCTTGGAC
*
8974733 AAGTGTGTTCTTG
1 AGGTGTGTTCTTG
8974746 TTATTGAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.13, C:0.11, G:0.36, T:0.40
Consensus pattern (16 bp):
AGGTGTGTTCTTGGAC
Found at i:8979935 original size:22 final size:21
Alignment explanation
Indices: 8979910--8979950 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8979900 AAGGAAGAAA
8979910 AGAAAGAAAACAAAGGGAAACT
1 AGAAA-AAAACAAAGGGAAACT
**
8979932 AGAAAAATTCAAAGGGAAA
1 AGAAAAAAACAAAGGGAAA
8979951 TTCGCGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.63, C:0.07, G:0.22, T:0.07
Consensus pattern (21 bp):
AGAAAAAAACAAAGGGAAACT
Found at i:8985641 original size:45 final size:45
Alignment explanation
Indices: 8985577--8985666 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
8985567 TTGCTGAGCT
*
8985577 ACTTTTATATATATAGTATAGATATTTTTCTAAGTCCAATGAGAA
1 ACTTTTATATATATAGTATAGATATTTTTCAAAGTCCAATGAGAA
8985622 ACTTTTATATATATAGTATAGATATTTTTCAAAGTCCAATGAGAA
1 ACTTTTATATATATAGTATAGATATTTTTCAAAGTCCAATGAGAA
8985667 TGAAAATTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (45 bp):
ACTTTTATATATATAGTATAGATATTTTTCAAAGTCCAATGAGAA
Found at i:9006961 original size:19 final size:18
Alignment explanation
Indices: 9006928--9006963 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9006918 AGTTTGAACC
*
9006928 AAAATTAACAAATTAAAA
1 AAAATTAAAAAATTAAAA
9006946 AAAATATAAAAAATTAAA
1 AAAAT-TAAAAAATTAAA
9006964 TTCACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAATTAAAAAATTAAAA
Found at i:9009190 original size:98 final size:97
Alignment explanation
Indices: 9009065--9009254 Score: 362
Period size: 98 Copynumber: 1.9 Consensus size: 97
9009055 GATGTATAGG
*
9009065 AGATTATTAGTTTATATATCAAGTGAGATTTATATGTTTTTTTTGATATATTATCTTTTAAATTT
1 AGATTATTAATTTATATATCAAGTGAGATTTATATGTTTTTTTTGATATATTATCTTTTAAATTT
9009130 AATAAATTATTAATTTACCATGTTAGTNCAAAT
66 AATAAATTATTAATTTACCATGTTAGT-CAAAT
9009163 AGATTATTAATTTATATATCAAGTGAGATTTATATGTTTTTTTTGATATATTATCTTTTAAATTT
1 AGATTATTAATTTATATATCAAGTGAGATTTATATGTTTTTTTTGATATATTATCTTTTAAATTT
9009228 AATAAATTATTAATTTACCATGTTAGT
66 AATAAATTATTAATTTACCATGTTAGT
9009255 TTCAAGTCAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (97 bp):
AGATTATTAATTTATATATCAAGTGAGATTTATATGTTTTTTTTGATATATTATCTTTTAAATTT
AATAAATTATTAATTTACCATGTTAGTCAAAT
Found at i:9009292 original size:17 final size:18
Alignment explanation
Indices: 9009270--9009304 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9009260 GTCAAAATCG
9009270 ATTAAAAATATT-ATTTA
1 ATTAAAAATATTAATTTA
*
9009287 ATTAAAATTATTAATTTA
1 ATTAAAAATATTAATTTA
9009305 TAAAAAGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTAAAAATATTAATTTA
Found at i:9013680 original size:2 final size:2
Alignment explanation
Indices: 9013673--9013698 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9013663 CTTGTCTTCC
9013673 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
9013699 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9013703 original size:2 final size:2
Alignment explanation
Indices: 9013698--9013741 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
9013688 TCTCTCTCTC
*
9013698 TA TA TA TA TA TA TA TA TA -A AA TA TA TA TA T- TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9013737 TA TA T
1 TA TA T
9013742 CCTCTCCAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9013731 original size:7 final size:7
Alignment explanation
Indices: 9013700--9013741 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
9013690 TCTCTCTCTA
9013700 TATATAT
1 TATATAT
9013707 ATATATAT
1 -TATATAT
* *
9013715 AAAATA-
1 TATATAT
9013721 TATATAT
1 TATATAT
9013728 TATATAT
1 TATATAT
9013735 TATATAT
1 TATATAT
9013742 CCTCTCCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.14
7 18 0.62
8 7 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
TATATAT
Found at i:9024813 original size:31 final size:31
Alignment explanation
Indices: 9024775--9024866 Score: 96
Period size: 31 Copynumber: 3.0 Consensus size: 31
9024765 AAAACTAAAC
* * *
9024775 AAAATTGTAGAGTACAAGGGCTATATTGAAT
1 AAAATTGTAAAGTACATGGACTATATTGAAT
* * *
9024806 AAAATTGTAAAGTGCAT-CATCTAAATTGAAT
1 AAAATTGTAAAGTACATGGA-CTATATTGAAT
* *
9024837 AAAATTCTATAGTACATGGACTATATTGAA
1 AAAATTGTAAAGTACATGGACTATATTGAA
9024867 CAAAGCTCTG
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
31 47 0.98
32 1 0.02
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (31 bp):
AAAATTGTAAAGTACATGGACTATATTGAAT
Found at i:9025953 original size:18 final size:19
Alignment explanation
Indices: 9025930--9025968 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9025920 TTTTCGAGAT
*
9025930 TTCC-TTATGATTAAAAGC
1 TTCCTTTATAATTAAAAGC
*
9025948 TTCCTTTCTAATTAAAAGC
1 TTCCTTTATAATTAAAAGC
9025967 TT
1 TT
9025969 TATCCTACAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.44
Consensus pattern (19 bp):
TTCCTTTATAATTAAAAGC
Found at i:9026196 original size:45 final size:45
Alignment explanation
Indices: 9026132--9026226 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
9026122 ATGTTGCTAT
* * *
9026132 GGTGAGGGTTAGGGTTAGGGTGCCGATTAGGATTTGGAGATTTAA
1 GGTGAAGGTTAAGATTAGGGTGCCGATTAGGATTTGGAGATTTAA
*** * *
9026177 GGTGAAGGTTAAGATTAGGGTTTTGATTAGGATTTGGGGATTTAG
1 GGTGAAGGTTAAGATTAGGGTGCCGATTAGGATTTGGAGATTTAA
9026222 GGTGA
1 GGTGA
9026227 GGGGTTCTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.23, C:0.02, G:0.41, T:0.34
Consensus pattern (45 bp):
GGTGAAGGTTAAGATTAGGGTGCCGATTAGGATTTGGAGATTTAA
Found at i:9027211 original size:15 final size:15
Alignment explanation
Indices: 9027191--9027219 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9027181 GTTGTGCTAA
9027191 TTTTTTTCAATGATT
1 TTTTTTTCAATGATT
9027206 TTTTTTTCAATGAT
1 TTTTTTTCAATGAT
9027220 GATAACTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (15 bp):
TTTTTTTCAATGATT
Found at i:9029777 original size:13 final size:13
Alignment explanation
Indices: 9029737--9029779 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
9029727 AGATTAAGTT
9029737 TTAGTTTTCGTTA
1 TTAGTTTTCGTTA
*
9029750 --AGTTTTAGTTTA
1 TTAGTTTTCG-TTA
9029762 TTAGTTTTCGTTA
1 TTAGTTTTCGTTA
9029775 TTAGT
1 TTAGT
9029780 CACACATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 7 0.28
12 3 0.12
13 8 0.32
14 7 0.28
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.60
Consensus pattern (13 bp):
TTAGTTTTCGTTA
Found at i:9045506 original size:16 final size:15
Alignment explanation
Indices: 9045487--9045529 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
9045477 TTACTTATTT
9045487 TTAGTTATTTTTATAA
1 TTAGTTATTTTTA-AA
* *
9045503 TTAGGTTACTTTTAAG
1 TTA-GTTATTTTTAAA
9045519 TTAGTTATTTT
1 TTAGTTATTTT
9045530 AATTTTATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 7 0.30
16 7 0.30
17 9 0.39
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (15 bp):
TTAGTTATTTTTAAA
Found at i:9046842 original size:9 final size:9
Alignment explanation
Indices: 9046828--9046862 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
9046818 ACCGAGACTC
9046828 CTCCACATT
1 CTCCACATT
9046837 CTCCACATT
1 CTCCACATT
*
9046846 CTCCAAATT
1 CTCCACATT
*
9046855 CTTCACAT
1 CTCCACAT
9046863 CTTTCGCCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.26, C:0.40, G:0.00, T:0.34
Consensus pattern (9 bp):
CTCCACATT
Found at i:9056848 original size:30 final size:28
Alignment explanation
Indices: 9056787--9056853 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 28
9056777 ATGTCTATGG
* *
9056787 GTAATTTTTCAGTTTTTGGGACAAAAAT
1 GTAATTTTTCACTTTTGGGGACAAAAAT
* *
9056815 GTAATTTTTCACTTTTACGGGGGCAAAAGT
1 GTAATTTTTCACTTTT--GGGGACAAAAAT
*
9056845 GTAAATTTT
1 GTAATTTTT
9056854 AAAAATTACT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 15 0.47
30 17 0.53
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (28 bp):
GTAATTTTTCACTTTTGGGGACAAAAAT
Found at i:9062495 original size:23 final size:23
Alignment explanation
Indices: 9062461--9062521 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
9062451 CATGTGGAGG
* *
9062461 AAGGCTGCAGTGCTGAGGAAGCC
1 AAGGCTGTAGTGCTGAGGAAGAC
* * *
9062484 AAGGTTGTAGTGCTAAGGAGGAC
1 AAGGCTGTAGTGCTGAGGAAGAC
*
9062507 AAGGCTGTAGCGCTG
1 AAGGCTGTAGTGCTG
9062522 GTGAAAGGCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.16, G:0.39, T:0.18
Consensus pattern (23 bp):
AAGGCTGTAGTGCTGAGGAAGAC
Found at i:9064176 original size:6 final size:6
Alignment explanation
Indices: 9064160--9064214 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
9064150 TACTTCAAGA
* * * * *
9064160 ATAGCT ATAGGT TTAGGA ATAGGT ATAGGT ATAGGT CTAGGT AGAGGT
1 ATAGGT ATAGGT ATAGGT ATAGGT ATAGGT ATAGGT ATAGGT ATAGGT
*
9064208 AGAGGT A
1 ATAGGT A
9064215 GAAGACCTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.33, C:0.04, G:0.35, T:0.29
Consensus pattern (6 bp):
ATAGGT
Found at i:9064510 original size:14 final size:14
Alignment explanation
Indices: 9064491--9064522 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
9064481 AGGTAAAGCG
9064491 ATAGATAGGTTCCT
1 ATAGATAGGTTCCT
9064505 ATAGATAGGTTCCT
1 ATAGATAGGTTCCT
9064519 -TAGA
1 ATAGA
9064523 GGAATCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (14 bp):
ATAGATAGGTTCCT
Found at i:9074314 original size:54 final size:56
Alignment explanation
Indices: 9074226--9074340 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 56
9074216 TGCACAAGAG
* * * *
9074226 ACTTGATGCAATTTTTGTATAGGATATATATTGAATATCAATGC-AA-ATGATATT
1 ACTTGATGCAATTATTATATAGGATACATATTGAATATAAATGCAAAGATGATATT
* **
9074280 ACTTTATGCAATTATTATATATTATACATATTGAATATAAATGCAAAGATGATATT
1 ACTTGATGCAATTATTATATAGGATACATATTGAATATAAATGCAAAGATGATATT
9074336 ACTTG
1 ACTTG
9074341 TTAGGAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 37 0.73
55 2 0.04
56 12 0.24
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (56 bp):
ACTTGATGCAATTATTATATAGGATACATATTGAATATAAATGCAAAGATGATATT
Found at i:9074514 original size:34 final size:34
Alignment explanation
Indices: 9074443--9074540 Score: 139
Period size: 34 Copynumber: 3.0 Consensus size: 34
9074433 TCTTTATATC
* * *
9074443 CATTCAATATTTCAA-TA-TTTCAATAA-TTTTG
1 CATTCAATATTTCAACAACTTACAACAACTTTTG
*
9074474 CGTTCAATATTTCAACAACTTACAACAACTTTTG
1 CATTCAATATTTCAACAACTTACAACAACTTTTG
9074508 CATTCAATATTTCAACAACTTACAACAACTTTT
1 CATTCAATATTTCAACAACTTACAACAACTTTT
9074541 ATTAAACAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
31 14 0.24
32 1 0.02
33 7 0.12
34 37 0.63
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.40
Consensus pattern (34 bp):
CATTCAATATTTCAACAACTTACAACAACTTTTG
Found at i:9075016 original size:102 final size:102
Alignment explanation
Indices: 9074840--9075132 Score: 430
Period size: 102 Copynumber: 2.9 Consensus size: 102
9074830 TAAAGGTAAA
* * *
9074840 ATCCATCTC-TGGTTCTTGAAATAATCTTTTTCCTTC-ATTACTTTCATCATTTCTTCTTTTGTG
1 ATCCATC-CGTGGTTCTTCAAATAATCTTTTTAC-TCGATTAGTTTCATCATTTCTTCTTTTGTG
* * * * *
9074903 GAGTGTCAAAAATTATCAGGAATTTTGAATTTTTAGCTC
64 GAGTGTCAAAAATCATCAAGAAATCTGAATGTTTAGCTC
*
9074942 ATCCATCCGTGGTTCTTCAAATAATCTTTTTACTCGATTAGTTTCATCATTTTTTCTTTTGTGGA
1 ATCCATCCGTGGTTCTTCAAATAATCTTTTTACTCGATTAGTTTCATCATTTCTTCTTTTGTGGA
*
9075007 GTGTCAAAAATCATCAAGAAATCTGAATGTTTAGCTT
66 GTGTCAAAAATCATCAAGAAATCTGAATGTTTAGCTC
* *
9075044 ATCCATCTGTGGTTCTTCAAATAATCTTTTTTCTCGATTAGTTTCATCATTTCTTCTTTTGTGGA
1 ATCCATCCGTGGTTCTTCAAATAATCTTTTTACTCGATTAGTTTCATCATTTCTTCTTTTGTGGA
9075109 GTGTCAAAAATCAGT-AAGAAATCT
66 GTGTCAAAAATCA-TCAAGAAATCT
9075133 AGAGCCTTTT
Statistics
Matches: 175, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
101 3 0.02
102 171 0.98
103 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (102 bp):
ATCCATCCGTGGTTCTTCAAATAATCTTTTTACTCGATTAGTTTCATCATTTCTTCTTTTGTGGA
GTGTCAAAAATCATCAAGAAATCTGAATGTTTAGCTC
Found at i:9087851 original size:21 final size:21
Alignment explanation
Indices: 9087827--9087885 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
9087817 TTCATGCAAT
9087827 TCATGACAAAGACTGATGCCC
1 TCATGACAAAGACTGATGCCC
* ** *
9087848 TCATGACAAAAACAAATGCCT
1 TCATGACAAAGACTGATGCCC
*
9087869 TCATGACAAGGACTGAT
1 TCATGACAAAGACTGAT
9087886 ACCATCATTC
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (21 bp):
TCATGACAAAGACTGATGCCC
Found at i:9087893 original size:21 final size:21
Alignment explanation
Indices: 9087827--9087893 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
9087817 TTCATGCAAT
*
9087827 TCATGACAAAGACTGATGCCC
1 TCATGACAAAGACTGATGCCA
* ** *
9087848 TCATGACAAAAACAAATGCCT
1 TCATGACAAAGACTGATGCCA
* *
9087869 TCATGACAAGGACTGATACCA
1 TCATGACAAAGACTGATGCCA
9087890 TCAT
1 TCAT
9087894 TCAAAGTCAG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.21
Consensus pattern (21 bp):
TCATGACAAAGACTGATGCCA
Found at i:9091378 original size:43 final size:43
Alignment explanation
Indices: 9091330--9091439 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 43
9091320 TCACCAGCTC
** *
9091330 ATGCGCACTCCCTACTCGCACAT-GGCTAGGTCATCACT-GGGTT
1 ATGCGCACTCCCTACTCGCACATAATC-AGGTCATC-CTCGGCTT
*
9091373 ATGCGCACTCCCTACTCGCACATAATCGGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAATCAGGTCATCCTCGGCTT
*
9091416 ATGCGCACTCCCTACTCACACATA
1 ATGCGCACTCCCTACTCGCACATA
9091440 GCCGAGTCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
42 2 0.03
43 57 0.95
44 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAATCAGGTCATCCTCGGCTT
Found at i:9092777 original size:17 final size:17
Alignment explanation
Indices: 9092755--9092794 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
9092745 TAGGTGTTTG
9092755 AAAGAAGAATTTTAGTA
1 AAAGAAGAATTTTAGTA
*
9092772 AAAGAAGGATTTTAGTA
1 AAAGAAGAATTTTAGTA
9092789 AAAGAA
1 AAAGAA
9092795 TGAGAGCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (17 bp):
AAAGAAGAATTTTAGTA
Found at i:9103013 original size:24 final size:24
Alignment explanation
Indices: 9102986--9103071 Score: 154
Period size: 24 Copynumber: 3.6 Consensus size: 24
9102976 AGAGTATATG
9102986 AAATTAATATATGAGTGTGCAGGA
1 AAATTAATATATGAGTGTGCAGGA
**
9103010 AAATTAATATATGAGTGTGCAAAA
1 AAATTAATATATGAGTGTGCAGGA
9103034 AAATTAATATATGAGTGTGCAGGA
1 AAATTAATATATGAGTGTGCAGGA
9103058 AAATTAATATATGA
1 AAATTAATATATGA
9103072 AATTAATCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (24 bp):
AAATTAATATATGAGTGTGCAGGA
Found at i:9159912 original size:2 final size:2
Alignment explanation
Indices: 9159900--9159934 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
9159890 GTTGTTTGTG
9159900 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9159935 NNNNNNNNNN
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9167700 original size:2 final size:2
Alignment explanation
Indices: 9167688--9167727 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
9167678 NNNNNNNNNN
9167688 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9167728 GCTATAGACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9179303 original size:28 final size:28
Alignment explanation
Indices: 9179261--9179319 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
9179251 GGAAAACTGT
*
9179261 CTTGGTGGTGGAAAATTACAATTTTGCC
1 CTTGGTGGTGGAAAATTACAATTTTACC
*
9179289 CTTGG-GGTGGCAAAATTACCATTTTACC
1 CTTGGTGGTGG-AAAATTACAATTTTACC
9179317 CTT
1 CTT
9179320 TTACTCCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.36
Consensus pattern (28 bp):
CTTGGTGGTGGAAAATTACAATTTTACC
Found at i:9179940 original size:11 final size:11
Alignment explanation
Indices: 9179924--9179948 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9179914 CTTCGATAAA
9179924 TTTATTATTAT
1 TTTATTATTAT
9179935 TTTATTATTAT
1 TTTATTATTAT
9179946 TTT
1 TTT
9179949 CTCACTTGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTATTAT
Found at i:9188706 original size:12 final size:12
Alignment explanation
Indices: 9188689--9188713 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9188679 AAGAAAATAG
9188689 AATATTTTATTT
1 AATATTTTATTT
9188701 AATATTTTATTT
1 AATATTTTATTT
9188713 A
1 A
9188714 GTTTGATTAG
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATATTTTATTT
Found at i:9189820 original size:17 final size:16
Alignment explanation
Indices: 9189788--9189841 Score: 65
Period size: 17 Copynumber: 3.4 Consensus size: 16
9189778 CTCGTATTTA
9189788 TTATTATTTTTTT-TT
1 TTATTATTTTTTTGTT
*
9189803 TCATTATTTTTTTGTT
1 TTATTATTTTTTTGTT
*
9189819 TTTTATATTTTTTTGTT
1 TTAT-TATTTTTTTGTT
*
9189836 TGATTA
1 TTATTA
9189842 ATAATTAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
15 12 0.38
16 6 0.19
17 14 0.44
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.78
Consensus pattern (16 bp):
TTATTATTTTTTTGTT
Found at i:9189822 original size:20 final size:18
Alignment explanation
Indices: 9189784--9189836 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
9189774 CTCTCTCGTA
*
9189784 TTTATTATTATTTT-TTTT
1 TTTA-TATTTTTTTGTTTT
*
9189802 TTCATTATTTTTTTG-TTT
1 TTTA-TATTTTTTTGTTTT
9189820 TTTATATTTTTTTGTTT
1 TTTATATTTTTTTGTTT
9189837 GATTAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 10 0.33
18 20 0.67
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (18 bp):
TTTATATTTTTTTGTTTT
Found at i:9190346 original size:3 final size:3
Alignment explanation
Indices: 9190338--9190373 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
9190328 TGAGTAAATA
9190338 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9190374 ATTTTCTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9190538 original size:3 final size:3
Alignment explanation
Indices: 9190532--9190582 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
9190522 ACNAGTAATA
9190532 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9190580 TAT
1 TAT
9190583 ATTTTCTATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9190689 original size:209 final size:208
Alignment explanation
Indices: 9190338--9190732 Score: 781
Period size: 209 Copynumber: 1.9 Consensus size: 208
9190328 TGAGTAAATA
9190338 TATTATTATTATTATTATTATTATTATTATTATTATATTTTCTATATCTTCTTTCCTTTAGTTAA
1 TATTATTATTATTATTATTATTATTATTATTATTATATTTTCTATATCTTCTTTCCTTTAGTTAA
9190403 ACTGATTCTTTCATAACTAAATATTATTTTACTTACTTGGATCTATTTTTCACTGCTAAATATTT
66 ACTGATTCTTTCATAACTAAATATTATTTTACTTACTTGGATCTATTTTTCACTGCTAAATATTT
9190468 ATTTATTTCTCTCATATATTTATTTTTTTAAAGCCTAAATCTACTATTATTATTACNAGTAATAT
131 ATTTATTTCTCTCATATATTTATTTTTTTAAAGCCTAAATCTACTATTATTATTAC-AGTAATAT
9190533 ATTATTATTATTAT
195 ATTATTATTATTAT
9190547 TATTATTATTATTATTATTATTATTATTATTATTATATTTTCTATATCTTCTTTCCTTTAGTTAA
1 TATTATTATTATTATTATTATTATTATTATTATTATATTTTCTATATCTTCTTTCCTTTAGTTAA
9190612 ACTGATTCTTTCATAACTAAATATTATTTTACTTACTTGGATCTATTTTTCACTGCTAAATATTT
66 ACTGATTCTTTCATAACTAAATATTATTTTACTTACTTGGATCTATTTTTCACTGCTAAATATTT
9190677 ATTTATTTCTCTCATATATTTATTTTTTTAAAGCCTAAATCTACTATTATTATTAC
131 ATTTATTTCTCTCATATATTTATTTTTTTAAAGCCTAAATCTACTATTATTATTAC
9190733 TTAGATTAGA
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
209 186 1.00
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (208 bp):
TATTATTATTATTATTATTATTATTATTATTATTATATTTTCTATATCTTCTTTCCTTTAGTTAA
ACTGATTCTTTCATAACTAAATATTATTTTACTTACTTGGATCTATTTTTCACTGCTAAATATTT
ATTTATTTCTCTCATATATTTATTTTTTTAAAGCCTAAATCTACTATTATTATTACAGTAATATA
TTATTATTATTAT
Found at i:9191503 original size:15 final size:14
Alignment explanation
Indices: 9191483--9191512 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9191473 TTTTTTTTTG
9191483 TTTTTGGATTGTGGT
1 TTTTTGG-TTGTGGT
9191498 TTTTTGGTTGTGGT
1 TTTTTGGTTGTGGT
9191512 T
1 T
9191513 GTATGCGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.03, C:0.00, G:0.33, T:0.63
Consensus pattern (14 bp):
TTTTTGGTTGTGGT
Found at i:9194675 original size:23 final size:23
Alignment explanation
Indices: 9194645--9194693 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
9194635 CAGTTACACT
9194645 GATCACTTATCTGCAAAAAGGGA
1 GATCACTTATCTGCAAAAAGGGA
*
9194668 GATCACTTATCTGCAAGAAGGGA
1 GATCACTTATCTGCAAAAAGGGA
9194691 GAT
1 GAT
9194694 AAGGGGGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.22
Consensus pattern (23 bp):
GATCACTTATCTGCAAAAAGGGA
Found at i:9197664 original size:2 final size:2
Alignment explanation
Indices: 9197657--9197682 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9197647 NNNNNNNNNN
9197657 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9197683 GTTTACACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9200062 original size:13 final size:13
Alignment explanation
Indices: 9200044--9200068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9200034 TTAATATTTT
9200044 AATATTATTTTAA
1 AATATTATTTTAA
9200057 AATATTATTTTA
1 AATATTATTTTA
9200069 CTCCAACATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATATTATTTTAA
Found at i:9214909 original size:14 final size:14
Alignment explanation
Indices: 9214890--9214916 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9214880 TTAATTTTAA
9214890 TAACCGAACTATCT
1 TAACCGAACTATCT
9214904 TAACCGAACTATC
1 TAACCGAACTATC
9214917 CAAAGAACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.30, G:0.07, T:0.26
Consensus pattern (14 bp):
TAACCGAACTATCT
Found at i:9218053 original size:35 final size:35
Alignment explanation
Indices: 9218003--9218081 Score: 115
Period size: 35 Copynumber: 2.3 Consensus size: 35
9217993 TAAATTTTTG
*
9218003 TAAAATTTGCATGGTTTATACTCTTTAAGTTGCTA
1 TAAAATTTGCATGGTTTATACTCTCTAAGTTGCTA
* *
9218038 TAAAATTTG-AGTGGTTTATACTCTCTAGGTTGCTG
1 TAAAATTTGCA-TGGTTTATACTCTCTAAGTTGCTA
9218073 TAAAATTTG
1 TAAAATTTG
9218082 TACCTTTTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 1 0.03
35 39 0.98
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (35 bp):
TAAAATTTGCATGGTTTATACTCTCTAAGTTGCTA
Found at i:9221455 original size:20 final size:21
Alignment explanation
Indices: 9221410--9221456 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
9221400 AGATGTCTAA
*
9221410 AATAATTATTTGAAATGAAAT
1 AATAATTATTTGAAATAAAAT
* *
9221431 TATAATTGTTTG-AATAAAAT
1 AATAATTATTTGAAATAAAAT
9221451 AATAAT
1 AATAAT
9221457 ATTCAATGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (21 bp):
AATAATTATTTGAAATAAAAT
Found at i:9222420 original size:13 final size:13
Alignment explanation
Indices: 9222402--9222426 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9222392 TTTCAGAAAA
9222402 TTTATAAAATCAT
1 TTTATAAAATCAT
9222415 TTTATAAAATCA
1 TTTATAAAATCA
9222427 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:9225881 original size:27 final size:28
Alignment explanation
Indices: 9225839--9225893 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
9225829 TGGATAAGTG
*
9225839 TTGGGTGATGTAAAATTACAATTTTGCCT
1 TTGGGTGA-GTAAAATGACAATTTTGCCT
*
9225868 TTGGGTG-GTAAAATGACTATTTTGCC
1 TTGGGTGAGTAAAATGACAATTTTGCC
9225894 CCTATGCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.71
29 7 0.29
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.40
Consensus pattern (28 bp):
TTGGGTGAGTAAAATGACAATTTTGCCT
Found at i:9227045 original size:14 final size:14
Alignment explanation
Indices: 9227026--9227059 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
9227016 TCTTTGAATC
*
9227026 TAAAAACATGAAGTT
1 TAAAAACATG-AGTA
9227041 TAAAAACATGAGTA
1 TAAAAACATGAGTA
9227055 TAAAA
1 TAAAA
9227060 CTCAGTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (14 bp):
TAAAAACATGAGTA
Found at i:9227931 original size:43 final size:42
Alignment explanation
Indices: 9227878--9228000 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 42
9227868 CCGACTCATA
*
9227878 ATCATCGGCTTATGCACACTCCTTACTCGCACATAGCCGAGTC
1 ATCATTGGCTTATGCACACTCC-TACTCGCACATAGCCGAGTC
** * *
9227921 ATCATTGGCTTATGCGTACTCCCTACTCACACATAGCCGGGTC
1 ATCATTGGCTTATGCACACT-CCTACTCGCACATAGCCGAGTC
* * * *
9227964 ATCATTAGCTCATGTACACTCCCACATCGCACATAGC
1 ATCATTGGCTTATGCACACTCCTAC-TCGCACATAGC
9228001 TGGGTTATCA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 4 0.06
43 60 0.91
44 2 0.03
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.26
Consensus pattern (42 bp):
ATCATTGGCTTATGCACACTCCTACTCGCACATAGCCGAGTC
Found at i:9231492 original size:33 final size:33
Alignment explanation
Indices: 9231450--9231517 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
9231440 AGCTCTTCAA
9231450 TTGTATTCAACAAATGTAAGGAAATCATGATGC
1 TTGTATTCAACAAATGTAAGGAAATCATGATGC
9231483 TTGTATTCAACAAATGTAAGGAAATCATGATGC
1 TTGTATTCAACAAATGTAAGGAAATCATGATGC
9231516 TT
1 TT
9231518 TACCCAAGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (33 bp):
TTGTATTCAACAAATGTAAGGAAATCATGATGC
Found at i:9234507 original size:2 final size:2
Alignment explanation
Indices: 9234500--9234537 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
9234490 GTAAATAACT
9234500 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9234538 CNNNNNNNNN
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9234610 original size:2 final size:2
Alignment explanation
Indices: 9234603--9234639 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9234593 NNNNNNNNNN
9234603 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9234640 TCAAAACAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9243288 original size:21 final size:21
Alignment explanation
Indices: 9243258--9243298 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9243248 TCCAAAAGAC
9243258 ACTACAATGCTCAAGGATGAT
1 ACTACAATGCTCAAGGATGAT
* **
9243279 ACTACGATGCTTGAGGATGA
1 ACTACAATGCTCAAGGATGA
9243299 CACGACTGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (21 bp):
ACTACAATGCTCAAGGATGAT
Found at i:9260445 original size:2 final size:2
Alignment explanation
Indices: 9260438--9260463 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9260428 AAAAAGCCAA
9260438 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
9260464 TAAATCATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9269418 original size:54 final size:54
Alignment explanation
Indices: 9269336--9269529 Score: 298
Period size: 54 Copynumber: 3.6 Consensus size: 54
9269326 TTAAGATTCA
* * *
9269336 TCATGTGCATCCCACCACATTGTGCACATAGCCGGACATCCCATCTTACCCAAC
1 TCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCCCATCTCACCCAGC
* * **
9269390 TCATGTGCATTCCACCACATCGTGCACATAGTCGGACATCCCATCTCACTTAGC
1 TCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCCCATCTCACCCAGC
* *
9269444 TCATGTGCATCCCACCACATCGTGCACATAGTCGGACATCCCATCTCACCCAGT
1 TCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCCCATCTCACCCAGC
*
9269498 TCATGTACATCCCACCACATCGTGCACATAGC
1 TCATGTGCATCCCACCACATCGTGCACATAGC
9269530 TAGATAGTAT
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 127 1.00
ACGTcount: A:0.25, C:0.38, G:0.14, T:0.23
Consensus pattern (54 bp):
TCATGTGCATCCCACCACATCGTGCACATAGCCGGACATCCCATCTCACCCAGC
Found at i:9278448 original size:28 final size:29
Alignment explanation
Indices: 9278407--9278466 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
9278397 GTCTATGGGC
*
9278407 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
9278435 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
9278465 AA
1 AA
9278467 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:9283853 original size:32 final size:32
Alignment explanation
Indices: 9283797--9283918 Score: 113
Period size: 32 Copynumber: 3.8 Consensus size: 32
9283787 GATTGTTAAA
* *
9283797 GGTTGTGGTTGAG-CTTTGAAAAACCACTTTG
1 GGTTTTGGTTGAGCCTGTGAAAAACCACTTTG
*
9283828 GGTTTTGGTTGAGCCCGTGAAAAACCA-TTGTG
1 GGTTTTGGTTGAGCCTGTGAAAAACCACTT-TG
* * *
9283860 AAAGGTTGTGGTTGAGCCTTTGAAAAATCACTTTG
1 ---GGTTTTGGTTGAGCCTGTGAAAAACCACTTTG
* * *
9283895 GGTTTTAGTTTAGCTTGTGAAAAA
1 GGTTTTGGTTGAGCCTGTGAAAAA
9283919 ATAGTGTAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
31 14 0.19
32 32 0.44
35 25 0.34
36 2 0.03
ACGTcount: A:0.25, C:0.11, G:0.28, T:0.35
Consensus pattern (32 bp):
GGTTTTGGTTGAGCCTGTGAAAAACCACTTTG
Found at i:9283871 original size:66 final size:67
Alignment explanation
Indices: 9283788--9283918 Score: 201
Period size: 67 Copynumber: 2.0 Consensus size: 67
9283778 GGATAGCTTG
* *
9283788 ATTGTTAAAGGTTGTGGTTGAG-CTTTGAAAAACCACTTTGGGTTTTGGTTGAGCCCGTGAAAAA
1 ATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTAGTTGAGCCCGTGAAAAA
9283852 CC
66 CC
* * **
9283854 ATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAATCACTTTGGGTTTTAGTTTAGCTTGTGAAAAA
1 ATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTAGTTGAGCCCGTGAAAAA
9283919 ATAGTGTAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
66 21 0.36
67 37 0.64
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.36
Consensus pattern (67 bp):
ATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTGGGTTTTAGTTGAGCCCGTGAAAAA
CC
Found at i:9283877 original size:35 final size:35
Alignment explanation
Indices: 9283788--9283886 Score: 118
Period size: 35 Copynumber: 2.9 Consensus size: 35
9283778 GGATAGCTTG
*
9283788 ATTGTTAAAGGTTGTGGTTGAG-CTTTGAAAAACC
1 ATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
* **
9283822 ACTT-TG---GGTTTTGGTTGAGCCCGTGAAAAACC
1 A-TTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
9283854 ATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAA
1 ATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAA
9283887 TCACTTTGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
31 14 0.27
32 13 0.25
34 2 0.04
35 23 0.44
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.33
Consensus pattern (35 bp):
ATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
Found at i:9283931 original size:67 final size:66
Alignment explanation
Indices: 9283794--9283933 Score: 190
Period size: 67 Copynumber: 2.1 Consensus size: 66
9283784 CTTGATTGTT
* * *
9283794 AAAGGTTGTGGTTGAGCTTTGAAAAACCACTTTGGGTTTTGGTTGAGCCCGTGAAAAACCATTGT
1 AAAGGTTGTGGTTGAGCTTTGAAAAACCACTTTGGGTTTTAGTTGAGCCCGTGAAAAAACAGTGT
*
9283859 G
66 A
* * ** *
9283860 AAAGGTTGTGGTTGAGCCTTTGAAAAATCACTTTGGGTTTTAGTTTAGCTTGTGAAAAAATAGTG
1 AAAGGTTGTGGTTGAG-CTTTGAAAAACCACTTTGGGTTTTAGTTGAGCCCGTGAAAAAACAGTG
9283925 TA
65 TA
9283927 AAAGGTT
1 AAAGGTT
9283934 TTGGCTGACC
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
66 16 0.25
67 48 0.75
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (66 bp):
AAAGGTTGTGGTTGAGCTTTGAAAAACCACTTTGGGTTTTAGTTGAGCCCGTGAAAAAACAGTGT
A
Found at i:9284797 original size:40 final size:38
Alignment explanation
Indices: 9284702--9284803 Score: 111
Period size: 38 Copynumber: 2.6 Consensus size: 38
9284692 TAGTGCCCGG
* *
9284702 GTGCACGATGTGGGGGGATGTACACGATGGTACTGACT
1 GTGCACGATCTGGGGGGATGCACACGATGGTACTGACT
*
9284740 GTGCACGATAC-GAGGGGATGCACACGAT-G-ACTCCGACTAT
1 GTGCACGAT-CTGGGGGGATGCACACGATGGTACT--GAC--T
9284780 GTGCACGATCTGGGGGGATGCACA
1 GTGCACGATCTGGGGGGATGCACA
9284804 TGAGTTGGGT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
36 3 0.06
37 1 0.02
38 27 0.50
39 1 0.02
40 22 0.41
ACGTcount: A:0.24, C:0.21, G:0.36, T:0.20
Consensus pattern (38 bp):
GTGCACGATCTGGGGGGATGCACACGATGGTACTGACT
Found at i:9290781 original size:21 final size:20
Alignment explanation
Indices: 9290753--9290795 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
9290743 AGTCCTTGGG
*
9290753 TTGCTATCTATTAATAGATA
1 TTGCTATCTATCAATAGATA
9290773 TTGCGTATCTATCAATAGATA
1 TTGC-TATCTATCAATAGATA
9290794 TT
1 TT
9290796 CATCAAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (20 bp):
TTGCTATCTATCAATAGATA
Found at i:9292578 original size:28 final size:29
Alignment explanation
Indices: 9292537--9292596 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
9292527 GTCTATGGGC
*
9292537 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
9292565 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
9292595 AA
1 AA
9292597 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:9296646 original size:18 final size:19
Alignment explanation
Indices: 9296623--9296662 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
9296613 CACAAGGAAA
9296623 ATTTTA-GAATAAAATAAT
1 ATTTTATGAATAAAATAAT
* *
9296641 ATTTTATTAATAAAATATT
1 ATTTTATGAATAAAATAAT
9296660 ATT
1 ATT
9296663 AAAATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
ATTTTATGAATAAAATAAT
Found at i:9303253 original size:28 final size:30
Alignment explanation
Indices: 9303212--9303271 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
9303202 GTCTATGGGC
* *
9303212 AATTTTTCAGTTTT-TG-GGGCAAAAATGT
1 AATTTTTCACTTTTACGAGGGCAAAAATGT
* *
9303240 AATTTTTGACTTTTACGAGGGCAAAAGTGT
1 AATTTTTCACTTTTACGAGGGCAAAAATGT
9303270 AA
1 AA
9303272 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
29 1 0.04
30 13 0.50
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (30 bp):
AATTTTTCACTTTTACGAGGGCAAAAATGT
Found at i:9306365 original size:13 final size:13
Alignment explanation
Indices: 9306333--9306378 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
9306323 AAACCATCAT
9306333 TCAATTT-TAAAA
1 TCAATTTATAAAA
9306345 -CAATTTTATAAAA
1 TCAA-TTTATAAAA
*
9306358 TCAATTTATTAAA
1 TCAATTTATAAAA
9306371 TCATATTT
1 TCA-ATTT
9306379 TGTTTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 3 0.10
12 3 0.10
13 16 0.55
14 7 0.24
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (13 bp):
TCAATTTATAAAA
Found at i:9307147 original size:21 final size:20
Alignment explanation
Indices: 9307112--9307152 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
9307102 TTCAGCTAGC
9307112 CATGAATTTACCAT-GAAAA
1 CATGAATTTACCATGGAAAA
9307131 CATGAAATTTAACCATGGAAAA
1 CATG-AATTT-ACCATGGAAAA
9307153 TAAAGAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 5 0.26
22 5 0.26
ACGTcount: A:0.49, C:0.15, G:0.12, T:0.24
Consensus pattern (20 bp):
CATGAATTTACCATGGAAAA
Found at i:9316836 original size:9 final size:9
Alignment explanation
Indices: 9316822--9316847 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9316812 CTAGTAAGTG
9316822 GTGGAGGAT
1 GTGGAGGAT
9316831 GTGGAGGAT
1 GTGGAGGAT
9316840 GTGGAGGA
1 GTGGAGGA
9316848 GTCTCTGCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.58, T:0.19
Consensus pattern (9 bp):
GTGGAGGAT
Found at i:9324850 original size:25 final size:25
Alignment explanation
Indices: 9324821--9324908 Score: 140
Period size: 25 Copynumber: 3.5 Consensus size: 25
9324811 CCCATTTATT
*
9324821 TTTATTTCCTATTGGGCCATGCCCA
1 TTTATTTTCTATTGGGCCATGCCCA
* *
9324846 CTTATTTTCTATTGGGTCATGCCCA
1 TTTATTTTCTATTGGGCCATGCCCA
*
9324871 TTTATTTTTTATTGGGCCATGCCCA
1 TTTATTTTCTATTGGGCCATGCCCA
9324896 TTTATTTTCTATT
1 TTTATTTTCTATT
9324909 TCTTTTCTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.16, C:0.22, G:0.14, T:0.49
Consensus pattern (25 bp):
TTTATTTTCTATTGGGCCATGCCCA
Found at i:9332275 original size:24 final size:25
Alignment explanation
Indices: 9332243--9332289 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
9332233 CTCAAATTTC
9332243 CAGCAACAAAACT-TCTCAATTTTGG
1 CAGCAACAAAACTGTC-CAATTTTGG
*
9332268 CAGC-ACAAATCTGTCCAATTTT
1 CAGCAACAAAACTGTCCAATTTT
9332290 CCTGTACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.30
Consensus pattern (25 bp):
CAGCAACAAAACTGTCCAATTTTGG
Found at i:9332335 original size:36 final size:36
Alignment explanation
Indices: 9332286--9332359 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
9332276 ATCTGTCCAA
*
9332286 TTTTCCTGTACAAACT-ACCAGCAAACAGCTCAAATT
1 TTTTCCTGCACAAACTGA-CAGCAAACAGCTCAAATT
* *
9332322 TTTTTCTGCACAAATTGACAGCAAACAGCTCAAATT
1 TTTTCCTGCACAAACTGACAGCAAACAGCTCAAATT
9332358 TT
1 TT
9332360 CAGCAGCCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.31
Consensus pattern (36 bp):
TTTTCCTGCACAAACTGACAGCAAACAGCTCAAATT
Found at i:9332786 original size:22 final size:23
Alignment explanation
Indices: 9332739--9332795 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
9332729 CATTTCTTCA
*
9332739 TTCTTCTCTTTTGTTTTCTTTGCT
1 TTCTT-TCTTTTGTTTTCTTTCCT
*
9332763 TT-TTTTTTTTGTCTTTC-TTCCT
1 TTCTTTCTTTTGT-TTTCTTTCCT
9332785 TTCTTTCTTTT
1 TTCTTTCTTTT
9332796 ATTCTTGTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 13 0.46
23 13 0.46
24 2 0.07
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.75
Consensus pattern (23 bp):
TTCTTTCTTTTGTTTTCTTTCCT
Found at i:9340204 original size:10 final size:10
Alignment explanation
Indices: 9340169--9340215 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
9340159 AAATGAAGAT
9340169 TTTTCATTTTA
1 TTTTC-TTTTA
* *
9340180 TTTTC-CTTG
1 TTTTCTTTTA
9340189 TTTTCTTTTA
1 TTTTCTTTTA
*
9340199 TTTTCTTTTC
1 TTTTCTTTTA
9340209 TTTTCTT
1 TTTTCTT
9340216 ACTTCCTCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 7 0.23
10 18 0.60
11 5 0.17
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:9340212 original size:20 final size:19
Alignment explanation
Indices: 9340169--9340215 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
9340159 AAATGAAGAT
*
9340169 TTTTCATTTTATTTTCCTTG
1 TTTTC-TTTTATTTTCCTTC
*
9340189 TTTTCTTTTATTTTCTTTTC
1 TTTTCTTTTATTTTC-CTTC
9340209 TTTTCTT
1 TTTTCTT
9340216 ACTTCCTCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTCTTTTATTTTCCTTC
Found at i:9341126 original size:34 final size:34
Alignment explanation
Indices: 9341016--9341204 Score: 116
Period size: 37 Copynumber: 5.2 Consensus size: 34
9341006 GCAGTATGGA
*
9341016 AGTGCACATGACGGTGATAGTGGTGTGCTGTGTG
1 AGTGCACATGATGGTGATAGTGGTGTGCTGTGTG
* * * *
9341050 AGTGCGCACACTAATGAT-ATA-TGCCTTGTGCGGTGTGGG
1 AGT--GCACA-TGATGGTGATAGTG--GTGTGC--TGTGTG
*
9341089 AGTGCACATGATGGTGATAGTGGTGTGTTGTGTG
1 AGTGCACATGATGGTGATAGTGGTGTGCTGTGTG
* * * *
9341123 AGTGCACACACTGATGAT-ATATTGCCTTGTGCGGTGTGGG
1 AGTG--CACA-TGATGGTGATAGTG--GTGTGC--TGTGTG
*
9341163 AGTGCACATGATGGTGATAGTGGTGCT-CTATGTG
1 AGTGCACATGATGGTGATAGTGGTG-TGCTGTGTG
9341197 AGTGCACA
1 AGTGCACA
9341205 CACTGATGAT
Statistics
Matches: 117, Mismatches: 20, Indels: 36
0.68 0.12 0.21
Matches are distributed among these distances:
34 24 0.21
35 2 0.02
36 29 0.25
37 30 0.26
38 15 0.13
39 8 0.07
40 9 0.08
ACGTcount: A:0.20, C:0.14, G:0.36, T:0.30
Consensus pattern (34 bp):
AGTGCACATGATGGTGATAGTGGTGTGCTGTGTG
Found at i:9341166 original size:40 final size:39
Alignment explanation
Indices: 9341044--9341244 Score: 156
Period size: 40 Copynumber: 5.4 Consensus size: 39
9341034 AGTGGTGTGC
* * *
9341044 TGTGTGAGTGCGCACACTAATGATATATGCCTTGTGCGG
1 TGTGGGAGTGCACACACTGATGATATATGCCTTGTGCGG
* * * *
9341083 TGTGGGAGTG--CACA-TGATGGTGATA-G--TGGTGTGT
1 TGTGGGAGTGCACACACTGATGAT-ATATGCCTTGTGCGG
*
9341117 TGTGTGAGTGCACACACTGATGATATATTGCCTTGTGCGG
1 TGTGGGAGTGCACACACTGATGATATA-TGCCTTGTGCGG
* * **
9341157 TGTGGGAGTG--CACA-TGATGGTGATA-G--TGGTGCTC
1 TGTGGGAGTGCACACACTGATGAT-ATATGCCTTGTGCGG
* *
9341191 TATGTGAGTGCACACACTGATGATATATTGCCTTGTGCGG
1 TGTGGGAGTGCACACACTGATGATATA-TGCCTTGTGCGG
9341231 TGTGGGAGTGCACA
1 TGTGGGAGTGCACA
9341245 TGAGCTGGTG
Statistics
Matches: 122, Mismatches: 24, Indels: 31
0.69 0.14 0.18
Matches are distributed among these distances:
34 27 0.22
36 21 0.17
37 25 0.20
38 9 0.07
39 9 0.07
40 31 0.25
ACGTcount: A:0.20, C:0.14, G:0.35, T:0.31
Consensus pattern (39 bp):
TGTGGGAGTGCACACACTGATGATATATGCCTTGTGCGG
Found at i:9341185 original size:74 final size:74
Alignment explanation
Indices: 9341016--9341247 Score: 396
Period size: 74 Copynumber: 3.1 Consensus size: 74
9341006 GCAGTATGGA
* * *
9341016 AGTGCACATGACGGTGATAGTGGTGTGCTGTGTGAGTGCGCACACTAATGATATA-TGCCTTGTG
1 AGTGCACATGATGGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGATATATTGCCTTGTG
9341080 CGGTGTGGG
66 CGGTGTGGG
*
9341089 AGTGCACATGATGGTGATAGTGGTGTGTTGTGTGAGTGCACACACTGATGATATATTGCCTTGTG
1 AGTGCACATGATGGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGATATATTGCCTTGTG
9341154 CGGTGTGGG
66 CGGTGTGGG
*
9341163 AGTGCACATGATGGTGATAGTGGTGCT-CTATGTGAGTGCACACACTGATGATATATTGCCTTGT
1 AGTGCACATGATGGTGATAGTGGTG-TGCTGTGTGAGTGCACACACTGATGATATATTGCCTTGT
9341227 GCGGTGTGGG
65 GCGGTGTGGG
9341237 AGTGCACATGA
1 AGTGCACATGA
9341248 GCTGGTGAGA
Statistics
Matches: 151, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
73 51 0.34
74 99 0.66
75 1 0.01
ACGTcount: A:0.20, C:0.14, G:0.35, T:0.30
Consensus pattern (74 bp):
AGTGCACATGATGGTGATAGTGGTGTGCTGTGTGAGTGCACACACTGATGATATATTGCCTTGTG
CGGTGTGGG
Found at i:9348165 original size:28 final size:29
Alignment explanation
Indices: 9348122--9348191 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
9348112 GGAGTGTAAA
*
9348122 AGAGAAACCAAAGAACAAAGAAGAAA-CG-G
1 AGAGAAA-GAAAGAACAAAG-AGAAACCGAG
9348151 AGAGAAAGAAAGAACAAAGAGAAAGCCGAG
1 AGAGAAAGAAAGAACAAAGAGAAA-CCGAG
9348181 AGAGAAAGAAA
1 AGAGAAAGAAA
9348192 AATAAAAGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
27 5 0.14
28 11 0.30
29 9 0.24
30 12 0.32
ACGTcount: A:0.63, C:0.10, G:0.27, T:0.00
Consensus pattern (29 bp):
AGAGAAAGAAAGAACAAAGAGAAACCGAG
Found at i:9348293 original size:34 final size:34
Alignment explanation
Indices: 9348248--9348330 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
9348238 TTCAAGAAGG
9348248 AAAAGAGAGCCATTTAAGGGCTGGTTTTGGAGGCT
1 AAAA-AGAGCCATTTAAGGGCTGGTTTTGGAGGCT
****
9348283 AAAAAGAGCCATTTTTTTGCTGGTTTTGGAGGCT
1 AAAAAGAGCCATTTAAGGGCTGGTTTTGGAGGCT
** *
9348317 GGAAAGTGCCATTT
1 AAAAAGAGCCATTT
9348331 TTCTACTAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
34 37 0.90
35 4 0.10
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (34 bp):
AAAAAGAGCCATTTAAGGGCTGGTTTTGGAGGCT
Found at i:9348331 original size:34 final size:34
Alignment explanation
Indices: 9348267--9348356 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 34
9348257 CCATTTAAGG
*
9348267 GCTGGTTTTGGAGGCTAAAAAGAGCCATTTTTTT
1 GCTGGTTTTGGAGGCTAAAAAGAGCCATTTTTCT
** *
9348301 GCTGGTTTTGGAGGCTGGAAAGTGCCATTTTTCT
1 GCTGGTTTTGGAGGCTAAAAAGAGCCATTTTTCT
* * *
9348335 ACTAGTTTTGGAGGCCAAAAAG
1 GCTGGTTTTGGAGGCTAAAAAG
9348357 TGTAAAATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.34
Consensus pattern (34 bp):
GCTGGTTTTGGAGGCTAAAAAGAGCCATTTTTCT
Found at i:9348706 original size:5 final size:4
Alignment explanation
Indices: 9348663--9348705 Score: 59
Period size: 4 Copynumber: 10.0 Consensus size: 4
9348653 TGGACGGTGG
9348663 GAAA GAAA GAAA GAAA GAAA GAAA GAAAA GAAAA GAAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA G-AAA G-AAA G-AAA GAAA
9348706 AAAAAATAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 24 0.63
5 14 0.37
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:9348711 original size:5 final size:5
Alignment explanation
Indices: 9348664--9348710 Score: 52
Period size: 4 Copynumber: 10.6 Consensus size: 5
9348654 GGACGGTGGG
9348664 AAAG- AAAG- AAAG- AAAG- AAAG- AAAGA AAAGA AAAGA AAAGA AAA-A
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA
9348708 AAA
1 AAA
9348711 ATAACAAGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 24 0.57
5 18 0.43
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:9350041 original size:20 final size:19
Alignment explanation
Indices: 9349999--9350041 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
9349989 AAAATGGAAT
* * *
9349999 ATTTTATTTAATATTTTTT
1 ATTTTATTTAATAGTTATC
9350018 ATTTTATTCTAATAGTTATC
1 ATTTTATT-TAATAGTTATC
9350038 ATTT
1 ATTT
9350042 CACCTTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (19 bp):
ATTTTATTTAATAGTTATC
Found at i:9350838 original size:21 final size:21
Alignment explanation
Indices: 9350814--9350853 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9350804 TCGCCAGTCG
9350814 CACCT-TTAGTGCCACCACCCC
1 CACCTCTT-GTGCCACCACCCC
*
9350835 CACCTCTTGTTCCACCACC
1 CACCTCTTGTGCCACCACC
9350854 AGTGCCGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.17, C:0.53, G:0.07, T:0.23
Consensus pattern (21 bp):
CACCTCTTGTGCCACCACCCC
Found at i:9359616 original size:23 final size:23
Alignment explanation
Indices: 9359586--9359645 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
9359576 NNNNNNNGTG
* * *
9359586 ATGATGATGATGTGATGGTGTGT
1 ATGATGATGATGGGATGATGTGC
9359609 ATGATGATGATGGGATGATGTGC
1 ATGATGATGATGGGATGATGTGC
*
9359632 ATGATAATGATGGG
1 ATGATGATGATGGG
9359646 TATACGTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.38, T:0.33
Consensus pattern (23 bp):
ATGATGATGATGGGATGATGTGC
Found at i:9362890 original size:816 final size:815
Alignment explanation
Indices: 9361319--9362949 Score: 3244
Period size: 816 Copynumber: 2.0 Consensus size: 815
9361309 AAAGCCTTGT
9361319 GGGGTTTCAGTTAGCATTCCGAATAATGAATGTTTATCGAGACATCGCGGCGGTTGTCTTGGGAT
1 GGGGTTTCAGTTAGCATTCCGAATAATGAATGTTTATCGAGACATCGCGGCGGTTGTCTTGGGAT
9361384 AGAGGAGAGTACCGAGTCGTGACAGTCACTCTGTTGATAGTCAAGGTTTTTTGTATGTGTATATG
66 AGAGGAGAGTACCGAGTCGTGACAGTCACTCTGTTGATAGTCAAGGTTTTTTGTATGTGTATATG
9361449 GCTATTTAAATGTAATTCATGAAATTTGTTGTAAACACTACATGTTTGGCTTGAATAGTAATATT
131 GCTATTTAAATGTAATTCATGAAATTTGTTGTAAACACTACATGTTTGGCTTGAATAGTAATATT
9361514 GCCATAGGTTGGCAAATGGTAATATTATTTGTGAACGGTATATGTTCAGTTGCCATGATTTATTC
196 GCCATAGGTTGGCAAATGGTAATATTATTTGTGAACGGTATATGTTCAGTTGCCATGATTTATTC
9361579 TTAAAAATAAATTATTTTTGATAATTATGAATTAAGAACCTTCAAGTTAAATGAAGGACAGATGG
261 TTAAAAATAAATTATTTTTGATAATTATGAATTAAGAACCTTCAAGTTAAATGAAGGACAGATGG
9361644 TCTAATGAACAAGTTTTCATAGAAAGGCTTGCTTGGGCTTGATGGGATATGCTTATTAGGTCCAT
326 TCTAATGAACAAGTTTTCATAGAAAGGCTTGCTTGGGCTTGATGGGATATGCTTATTAGGTCCAT
9361709 GCACCGGTCATGGCCTCGAGATTGGTGTCAAACCTTGTTCTATAAAATAATTATGACGTCATTTA
391 GCACCGGTCATGGCCTCGAGATTGGTGTCAAACCTTGTTCTATAAAATAATTATGACGTCATTTA
9361774 CATGCTCAATAGAATGGTTGCATATTTAGGAAGTTTGAGAAATCGTTAAAAGATGATATTGCCCA
456 CATGCTCAATAGAATGGTTGCATATTTAGGAAGTTTGAGAAATCGTTAAAAGATGATATTGCCCA
9361839 TAATGGTATCATTAAGTCGATTAAGCCTCGAACTAGTTCAAATAGGAATTTTAAGGTGAAATTGA
521 TAATGGTATCATTAAGTCGATTAAGCCTCGAACTAGTTCAAATAGGAATTTTAAGGTGAAATTGA
9361904 GAGTTTTACGATCCAGGGATGACTCAAAATGGTAATTCGGAGTTCGAGGATCAATTTAGAGTCAA
586 GAGTTTTACGATCCAGGGATGACTCAAAATGGTAATTCGGAGTTCGAGGATCAATTTAGAGTCAA
9361969 ATCGAAATTTTCATTATCTAGGGGCAAAATGGTCATTTGCCACTTGGAGACAAAATGAAAATTTT
651 ATCGAAATTTTCATTATCTAGGGGCAAAATGGTCATTTGCCACTTGGAGACAAAATGAAAATTTT
9362034 TAAAAAAGAGTTTTTTGGTCCCATTTGACTTATTGGAGTATGATTTGAGGTTTAGAAGTGAAAAA
716 TAAAAAAGAGTTTTTTGGTCCCATTTGACTTATTGGAGTATGATTTGAGGTTTAGAAGTGAAAAA
9362099 TTTTTAATTCTGGTATAATTTGGAGCATACGGGTG
781 TTTTTAATTCTGGTATAATTTGGAGCATACGGGTG
9362134 NGGGGTTTCAGTTAGCATTCCGAATAATGAATGTTTATCGAGACATCGCGGCGGTTGTCTTGGGA
1 -GGGGTTTCAGTTAGCATTCCGAATAATGAATGTTTATCGAGACATCGCGGCGGTTGTCTTGGGA
9362199 TAGAGGAGAGTACCGAGTCGTGACAGTCACTCTGTTGATAGTCAAGGTTTTTTGTATGTGTATAT
65 TAGAGGAGAGTACCGAGTCGTGACAGTCACTCTGTTGATAGTCAAGGTTTTTTGTATGTGTATAT
9362264 GGCTATTTAAATGTAATTCATGAAATTTGTTGTAAACACTACATGTTTGGCTTGAATAGTAATAT
130 GGCTATTTAAATGTAATTCATGAAATTTGTTGTAAACACTACATGTTTGGCTTGAATAGTAATAT
9362329 TGCCATAGGTTGGCAAATGGTAATATTATTTGTGAACGGTATATGTTCAGTTGCCATGATTTATT
195 TGCCATAGGTTGGCAAATGGTAATATTATTTGTGAACGGTATATGTTCAGTTGCCATGATTTATT
*
9362394 CTTAAAAATAAATTATTTTTGATAATTATGAATTAAGAACCTTCGAGTTAAATGAAGGACAGATG
260 CTTAAAAATAAATTATTTTTGATAATTATGAATTAAGAACCTTCAAGTTAAATGAAGGACAGATG
9362459 GTCTAATGAACAAGTTTTCATAGAAAGGCTTGCTTGGGCTTGATGGGATATGCTTATTAGGTCCA
325 GTCTAATGAACAAGTTTTCATAGAAAGGCTTGCTTGGGCTTGATGGGATATGCTTATTAGGTCCA
9362524 TGCACCGGTCATGGCCTCGAGATTGGTGTCAAACCTTGTTCTATAAAATAATTATGACGTCATTT
390 TGCACCGGTCATGGCCTCGAGATTGGTGTCAAACCTTGTTCTATAAAATAATTATGACGTCATTT
9362589 ACATGCTCAATAGAATGGTTGCATATTTAGGAAGTTTGAGAAATCGTTAAAAGATGATATTGCCC
455 ACATGCTCAATAGAATGGTTGCATATTTAGGAAGTTTGAGAAATCGTTAAAAGATGATATTGCCC
9362654 ATAATGGTATCATTAAGTCGATTAAGCCTCGAACTAGTTCAAATAGGAATTTTAAGGTGAAATTG
520 ATAATGGTATCATTAAGTCGATTAAGCCTCGAACTAGTTCAAATAGGAATTTTAAGGTGAAATTG
9362719 AGAGTTTTACGATCCAGGGATGACTCAAAATGGTAATTCGGAGTTCGAGGATCAATTTAGAGTCA
585 AGAGTTTTACGATCCAGGGATGACTCAAAATGGTAATTCGGAGTTCGAGGATCAATTTAGAGTCA
9362784 AATCGAAATTTTCATTATCTAGGGGCAAAATGGTCATTTGCCACTTGGAGACAAAATGAAAATTT
650 AATCGAAATTTTCATTATCTAGGGGCAAAATGGTCATTTGCCACTTGGAGACAAAATGAAAATTT
9362849 TTAAAAAAGAGTTTTTTGGTCCCATTTGACTTATTGGAGTATGATTTGAGGTTTAGAAGTGAAAA
715 TTAAAAAAGAGTTTTTTGGTCCCATTTGACTTATTGGAGTATGATTTGAGGTTTAGAAGTGAAAA
9362914 ATTTTTAATTCTGGTATAATTTGGAGCATACGGGTG
780 ATTTTTAATTCTGGTATAATTTGGAGCATACGGGTG
9362950 AAATGGTAAT
Statistics
Matches: 814, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
816 814 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (815 bp):
GGGGTTTCAGTTAGCATTCCGAATAATGAATGTTTATCGAGACATCGCGGCGGTTGTCTTGGGAT
AGAGGAGAGTACCGAGTCGTGACAGTCACTCTGTTGATAGTCAAGGTTTTTTGTATGTGTATATG
GCTATTTAAATGTAATTCATGAAATTTGTTGTAAACACTACATGTTTGGCTTGAATAGTAATATT
GCCATAGGTTGGCAAATGGTAATATTATTTGTGAACGGTATATGTTCAGTTGCCATGATTTATTC
TTAAAAATAAATTATTTTTGATAATTATGAATTAAGAACCTTCAAGTTAAATGAAGGACAGATGG
TCTAATGAACAAGTTTTCATAGAAAGGCTTGCTTGGGCTTGATGGGATATGCTTATTAGGTCCAT
GCACCGGTCATGGCCTCGAGATTGGTGTCAAACCTTGTTCTATAAAATAATTATGACGTCATTTA
CATGCTCAATAGAATGGTTGCATATTTAGGAAGTTTGAGAAATCGTTAAAAGATGATATTGCCCA
TAATGGTATCATTAAGTCGATTAAGCCTCGAACTAGTTCAAATAGGAATTTTAAGGTGAAATTGA
GAGTTTTACGATCCAGGGATGACTCAAAATGGTAATTCGGAGTTCGAGGATCAATTTAGAGTCAA
ATCGAAATTTTCATTATCTAGGGGCAAAATGGTCATTTGCCACTTGGAGACAAAATGAAAATTTT
TAAAAAAGAGTTTTTTGGTCCCATTTGACTTATTGGAGTATGATTTGAGGTTTAGAAGTGAAAAA
TTTTTAATTCTGGTATAATTTGGAGCATACGGGTG
Found at i:9365506 original size:15 final size:15
Alignment explanation
Indices: 9365461--9365506 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
9365451 AGATAAGAGA
9365461 TTTTGGTTTTAAAG-
1 TTTTGGTTTTAAAGT
*
9365475 CTTTGGATTTTAAAGT
1 TTTTGG-TTTTAAAGT
9365491 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
9365506 T
1 T
9365507 GTTTTAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 5 0.18
15 18 0.64
16 5 0.18
ACGTcount: A:0.22, C:0.02, G:0.20, T:0.57
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:9372216 original size:29 final size:29
Alignment explanation
Indices: 9372183--9372238 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
9372173 GCAAAGAGAG
**
9372183 AAAAGAAGAAAGAAGAAAGGAGAAAGGGA
1 AAAAGAAGAAAGAAGAAAAAAGAAAGGGA
* *
9372212 AAAAGGAGGAAGAAGAAAAAAGAAAGG
1 AAAAGAAGAAAGAAGAAAAAAGAAAGG
9372239 AAGGTTCGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (29 bp):
AAAAGAAGAAAGAAGAAAAAAGAAAGGGA
Done.