Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 233 of 332
Found at i:77324843 original size:27 final size:27
Alignment explanation
Indices: 77324813--77325018 Score: 128
Period size: 27 Copynumber: 7.6 Consensus size: 27
77324803 CAAATTGTAA
*
77324813 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
*** *
77324840 AATTACCGTTTTACCCCCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
*** *
77324867 AATTACCGTTTTATCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
**** * *
77324894 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACCAAATTACCCTCGATTTATAG
* ** * *
77324921 AATTACTATTTTACCCTCGATTTACAA
1 AATTACCAAATTACCCTCGATTTATAG
* * * *
77324948 AATTACTAAAATACCCTC-AGTTTACAA
1 AATTACCAAATTACCCTCGA-TTTATAG
* * *
77324975 AATTACCAAAATACCCTCGA-TCAGTAA
1 AATTACCAAATTACCCTCGATTTA-TAG
*
77325002 AATTACCAAAATACCCT
1 AATTACCAAATTACCCT
77325019 AGTCTGTAAA
Statistics
Matches: 156, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.02
27 152 0.97
28 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.34
Consensus pattern (27 bp):
AATTACCAAATTACCCTCGATTTATAG
Found at i:77324855 original size:54 final size:54
Alignment explanation
Indices: 77324797--77324910 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
77324787 ATTACTGAAA
*
77324797 TACCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTT
* * * * **** * *
77324851 TACCCCCGATTTATAGAATTACCGTTTTATCCTCGATTTATAGAATTACTGTTT
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTT
77324905 TACCCT
1 TACCCT
77324911 TGATTTACAG
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.38
Consensus pattern (54 bp):
TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTT
Found at i:77324916 original size:54 final size:54
Alignment explanation
Indices: 77324824--77324954 Score: 181
Period size: 54 Copynumber: 2.4 Consensus size: 54
77324814 ATTACCAAAG
* * *
77324824 TACCCTCGATTTATAGAATTACCGTTTTACCCCCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCCCGATTTACAGAATTACCATTT
* ** *
77324878 TATCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCCCGATTTACAGAATTACCATTT
* *
77324932 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
77324955 AAAATACCCT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACTGTTTTACCCCCGATTTACAGAATTACCATTT
Found at i:77325017 original size:81 final size:79
Alignment explanation
Indices: 77324932--77325195 Score: 287
Period size: 81 Copynumber: 3.3 Consensus size: 79
77324922 ATTACTATTT
** * * *
77324932 TACCCTCGATTTACAAAATTACTAAAATACCCTCAGTTTACAAAATTACCAAAATACCCTCGATC
1 TACCC-CGATTTACAAAATTACTAAAATACCCT-AGTTTGTAAAATTACCGAAATACCCTCAATT
*
77324997 AGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
* * ** * * *
77325013 TA-CCCTAGTCTGTAAAATTGCTAAAATACCCATGGTTTGTAAAATTACTGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACCC-TAGTTTGTAAAATTACCGAAATACCCTCAATT
77325077 TGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
* ** * *
77325093 TACCCCTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACC-CTAGTTTGTAAAATTACCGAAATACCCTCAATT
77325158 TGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
*
77325174 TACCCCTGATTTACAAAGTTAC
1 TACCCC-GATTTACAAAATTAC
77325196 AGAATTACCC
Statistics
Matches: 155, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
79 2 0.01
80 62 0.40
81 89 0.57
82 2 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (79 bp):
TACCCCGATTTACAAAATTACTAAAATACCCTAGTTTGTAAAATTACCGAAATACCCTCAATTTG
TAAAATTACCAAAA
Found at i:77325058 original size:27 final size:26
Alignment explanation
Indices: 77324946--77325178 Score: 259
Period size: 27 Copynumber: 8.7 Consensus size: 26
77324936 CTCGATTTAC
* **
77324946 AAAATTACTAAAATACCCTCAGTTTAC
1 AAAATTACCAAAATACCCT-AGTTTGT
* **
77324973 AAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTAG-TTTGT
*
77325000 AAAATTACCAAAATACCCTAGTCTGT
1 AAAATTACCAAAATACCCTAGTTTGT
* * *
77325026 AAAATTGCTAAAATACCCATGGTTTGT
1 AAAATTACCAAAATACCC-TAGTTTGT
** *
77325053 AAAATTACTGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
77325080 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATA-CCCTAGTTTGT
77325107 AAAATTACCAAAATACCACTAGTTTGT
1 AAAATTACCAAAATACC-CTAGTTTGT
* * *
77325134 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
77325161 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
77325179 CTGATTTACA
Statistics
Matches: 176, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.15
27 146 0.83
28 4 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:77325205 original size:54 final size:54
Alignment explanation
Indices: 77324932--77325206 Score: 171
Period size: 54 Copynumber: 5.1 Consensus size: 54
77324922 ATTACTATTT
* ** *
77324932 TACCCTCGATTTACAAAATTACTAAAATACC-CTCAGTTT-ACAAAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACT-AGTTTGAC-AAATTA-CAGAAA
* ** * *
77324986 TACCCTCGATCAGTAAAATTACCAAAATACC-CTAGTCTGTA-AAATTGCTA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTAGTTTG-ACAAATTAC-AGAAA
** ** *
77325039 TACCCAT-GGTTTGTAAAATTACTGAAATACC-CTCAATTTGTA-AAATTACCA-AAA
1 TACCC-TCAATTTGTAAAATTACCAAAATACCACT-AGTTTG-ACAAATTA-CAGAAA
* ** *
77325093 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCACTAGTTTGACAAATTACAGAAA
* *
77325147 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTT-ACAAAGTTACAGAAT
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTAG-TTTGACAAA-TTACAGAAA
77325201 TACCCT
1 TACCCT
77325207 TGACTTTCTA
Statistics
Matches: 180, Mismatches: 27, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
52 1 0.01
53 44 0.24
54 130 0.72
55 5 0.03
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCACTAGTTTGACAAATTACAGAAA
Found at i:77325356 original size:27 final size:27
Alignment explanation
Indices: 77325321--77325409 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
77325311 ATACCCCTAT
77325321 TAGGG-AAAGAGACCGTAAAGCCCCTG
1 TAGGGTAAAGAGACCGTAAAGCCCCTG
* *
77325347 TAGGGTAAAGAGACCGTAAAGCCTCTA
1 TAGGGTAAAGAGACCGTAAAGCCCCTG
*
77325374 TAGGGTAAAGTGACCGTAATA-CCCCTG
1 TAGGGTAAAGAGACCGTAA-AGCCCCTG
*
77325401 TATGGTAAA
1 TAGGGTAAA
77325410 ATGACGAATG
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.09
27 49 0.89
28 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (27 bp):
TAGGGTAAAGAGACCGTAAAGCCCCTG
Found at i:77326291 original size:52 final size:51
Alignment explanation
Indices: 77326213--77326343 Score: 205
Period size: 52 Copynumber: 2.6 Consensus size: 51
77326203 GAGGAAGTGC
77326213 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAATTTACCG
* *
77326265 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCG
*
77326316 AAAAGGGCTT-TACCCCAG-TTATT-AAAAG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG
77326344 AGGGTAGGCC
Statistics
Matches: 76, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
48 5 0.07
49 5 0.07
50 7 0.09
51 23 0.30
52 36 0.47
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCG
Found at i:77326310 original size:25 final size:26
Alignment explanation
Indices: 77326213--77326343 Score: 171
Period size: 26 Copynumber: 5.2 Consensus size: 26
77326203 GAGGAAGTGC
77326213 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
77326239 AAAAGGGCTTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
77326265 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
77326291 AAAAGGGCTT-TGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
77326316 AAAAGGGCTT-TACCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
77326339 AAAAG
1 AAAAG
77326344 AGGGTAGGCC
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
23 5 0.05
24 3 0.03
25 28 0.30
26 56 0.61
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:77326631 original size:31 final size:31
Alignment explanation
Indices: 77326554--77326632 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
77326544 CGTTTACAGT
*
77326554 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
*
77326585 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAGTGATATGATTTATGA
77326616 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCAGCCCAGT
77326633 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTGATATGATTTATGA
Found at i:77333072 original size:39 final size:39
Alignment explanation
Indices: 77333018--77333106 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
77333008 TCTCCCTAGA
* *
77333018 GGAAGCATTTTTCACCACGTTAGCAAAATGCACTTACAT
1 GGAAGCATTTTTCACCACGTCAGCAAAACGCACTTACAT
* *
77333057 GGAAGCATTTTTCACCACGTCAGCAAAACGCGCTTACGT
1 GGAAGCATTTTTCACCACGTCAGCAAAACGCACTTACAT
*
77333096 GGAAGCGTTTT
1 GGAAGCATTTT
77333107 GCTGATGTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (39 bp):
GGAAGCATTTTTCACCACGTCAGCAAAACGCACTTACAT
Found at i:77333577 original size:54 final size:53
Alignment explanation
Indices: 77333480--77333608 Score: 185
Period size: 54 Copynumber: 2.4 Consensus size: 53
77333470 GTAACAGTTT
77333480 ATTTTGAA-TTTTGAATTTTTTAAATATTTTTTTCATTATTGTAATTTTAATTA
1 ATTTT-AATTTTTGAATTTTTTAAATATTTTTTTCATTATTGTAATTTTAATTA
77333533 ATTTTAATTTTTGAATATTATTT-AATATTTTTTTCATT-TATGTAATTTTAATTA
1 ATTTTAATTTTTGAAT-TT-TTTAAATATTTTTTTCATTAT-TGTAATTTTAATTA
77333587 ATTTTAATTTTAT-AATTTTTTA
1 ATTTTAATTTT-TGAATTTTTTA
77333609 TAACAGTCTG
Statistics
Matches: 70, Mismatches: 0, Indels: 12
0.85 0.00 0.15
Matches are distributed among these distances:
52 5 0.07
53 16 0.23
54 45 0.64
55 4 0.06
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (53 bp):
ATTTTAATTTTTGAATTTTTTAAATATTTTTTTCATTATTGTAATTTTAATTA
Found at i:77334527 original size:7 final size:7
Alignment explanation
Indices: 77334515--77334539 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
77334505 AGTCGTTTCA
77334515 TATTTAG
1 TATTTAG
77334522 TATTTAG
1 TATTTAG
77334529 TATTTAG
1 TATTTAG
77334536 TATT
1 TATT
77334540 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:77334644 original size:49 final size:49
Alignment explanation
Indices: 77334587--77334684 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
77334577 TTCAATGGAC
*
77334587 ACCATACGAGGATTCGGT-AATACTGGCAGTAATTCTGGAAGAATTCTTT
1 ACCATACGAGGA-TCCGTCAATACTGGCAGTAATTCTGGAAGAATTCTTT
77334636 ACCATACGAGGATCCGTCAATACTGGCAGTAATTCTGGAAGAATTCTTT
1 ACCATACGAGGATCCGTCAATACTGGCAGTAATTCTGGAAGAATTCTTT
77334685 CAAAATCTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 4 0.09
49 43 0.91
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (49 bp):
ACCATACGAGGATCCGTCAATACTGGCAGTAATTCTGGAAGAATTCTTT
Found at i:77335543 original size:21 final size:21
Alignment explanation
Indices: 77335494--77335544 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
77335484 CCCATAACCG
**
77335494 GAGCAACCATAACCCCCGCTG
1 GAGCAACCATAACCCCCGCCA
*
77335515 GAGCAACCATAACCCTCGCCA
1 GAGCAACCATAACCCCCGCCA
*
77335536 GAGGAACCA
1 GAGCAACCA
77335545 AGGAGGAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.39, G:0.20, T:0.08
Consensus pattern (21 bp):
GAGCAACCATAACCCCCGCCA
Found at i:77338979 original size:126 final size:126
Alignment explanation
Indices: 77338754--77339004 Score: 378
Period size: 126 Copynumber: 2.0 Consensus size: 126
77338744 AGGCAAGCAT
* *
77338754 GAACTTCTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGAAATTTTACTGACATTGCATC
* *
77338819 CTGCTTAGAGCGTTTTTTACATTATTTTTTCAGAAACGTCTTCTCAAAATTATTTTTTCAC
66 CTGCTTAGAGCGTTTTTGACATTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAC
* * * *** *
77338880 GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCTTTATTTTTACTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGAAATTTTACTGACATTGCATC
*
77338945 CTGCTT-GAAGTGTTTTTGACATTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCA
66 CTGCTTAG-AGCGTTTTTGACATTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCA
77339005 GGGTAAAAAT
Statistics
Matches: 112, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
125 1 0.01
126 111 0.99
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGAAATTTTACTGACATTGCATC
CTGCTTAGAGCGTTTTTGACATTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAC
Found at i:77339097 original size:28 final size:29
Alignment explanation
Indices: 77339051--77339138 Score: 79
Period size: 28 Copynumber: 3.0 Consensus size: 29
77339041 CAATGTTATT
** *
77339051 TTTAAAAAACTAAACCCTAATTTAATTAA
1 TTTAAAACCCTAAAACCTAATTTAATTAA
* * * * *
77339080 TTT-TAACCTTAAATCCTAACTTAATTTA
1 TTTAAAACCCTAAAACCTAATTTAATTAA
*
77339108 TTTAAAACCCTAAAACCTTAATTTACTTAA
1 TTTAAAACCCTAAAACC-TAATTTAATTAA
77339138 T
1 T
77339139 CTATTTAAAA
Statistics
Matches: 44, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
28 21 0.48
29 13 0.30
30 10 0.23
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (29 bp):
TTTAAAACCCTAAAACCTAATTTAATTAA
Found at i:77339163 original size:33 final size:34
Alignment explanation
Indices: 77339098--77339165 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
77339088 TTAAATCCTA
* * * *
77339098 ACTTAATTTATTTAAAACCCTAAAACCTTAATTT
1 ACTTAATCTATTTAAAAACATAAAACCCTAATTT
77339132 ACTTAATCTATTTAAAAACAT-AAACCCTAATTT
1 ACTTAATCTATTTAAAAACATAAAACCCTAATTT
77339165 A
1 A
77339166 ATAAACCCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 12 0.40
34 18 0.60
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (34 bp):
ACTTAATCTATTTAAAAACATAAAACCCTAATTT
Found at i:77339199 original size:22 final size:22
Alignment explanation
Indices: 77339174--77339226 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
77339164 TAATAAACCC
*
77339174 TAAACCCTAATTTAATTTATTT
1 TAAACCCTAACTTAATTTATTT
* *
77339196 TAAACCTTAACTTAATTTGTTT
1 TAAACCCTAACTTAATTTATTT
*
77339218 AAAACCCTA
1 TAAACCCTA
77339227 GAACCCTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAACCCTAACTTAATTTATTT
Found at i:77339223 original size:107 final size:107
Alignment explanation
Indices: 77339088--77339701 Score: 960
Period size: 107 Copynumber: 5.7 Consensus size: 107
77339078 AATTTTAACC
* * *
77339088 TTAAATCCTAACTTAATTTATTTAAAACCCTAAAACCTTAATTTACTTAATCTATTTAAAAACAT
1 TTAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAACAT
77339153 AAACCCTAATTTAATAAACCCTAAACCCTAATTTAATTTATT
66 AAACCCTAATTTAATAAACCCTAAACCCTAATTTAATTTATT
* *
77339195 TTAAACCTTAACTTAATTTGTTTAAAACCCTAGAACCCTAATTTACTTAAT-TATTTAAAAAACA
1 TTAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTT-AAAAACA
* * * *
77339259 TAAGCCCTGATTTGATAAACCCAAAACCCTAATTTAATTTATT
65 TAAACCCTAATTTAATAAACCCTAAACCCTAATTTAATTTATT
* *
77339302 TTAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAAATA
1 TTAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTT-AAAAACA
*
77339367 TAAACCTTAATTTAATAAACCCTAAACCCTAATTTAATTTATT
65 TAAACCCTAATTTAATAAACCCTAAACCCTAATTTAATTTATT
* *
77339410 TTAAACCCTAAATTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATTTATTTAAAAACAT
1 TTAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAACAT
* *
77339475 AAACCCTAATTTGATAAACCCAAAACCCTAATTTAATTTATT
66 AAACCCTAATTTAATAAACCCTAAACCCTAATTTAATTTATT
* * *
77339517 TAAAACCCTATCTTAATTTATTTAAAACCCTAGAACTCTAATTTACTTAATCTATTTAAAAACAT
1 TTAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAACAT
*
77339582 AAACCCTAATTTAACAAACCCTAAACCCTAATTTAATTTATT
66 AAACCCTAATTTAATAAACCCTAAACCCTAATTTAATTTATT
* * * * * *
77339624 TTAAACACTAACTTAATTTTTTTTAAATCCTAGAACCCTAATTTACTTAATATATTTAAAACCAT
1 TTAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAACAT
*
77339689 AAGCCCTAATTTA
66 AAACCCTAATTTA
77339702 TTTAAAACCC
Statistics
Matches: 462, Mismatches: 43, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
106 5 0.01
107 353 0.76
108 104 0.23
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (107 bp):
TTAAACCCTAACTTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAACAT
AAACCCTAATTTAATAAACCCTAAACCCTAATTTAATTTATT
Found at i:77339307 original size:22 final size:22
Alignment explanation
Indices: 77339282--77339441 Score: 96
Period size: 22 Copynumber: 7.4 Consensus size: 22
77339272 GATAAACCCA
77339282 AAACCCTAATTTAATTTATTTT
1 AAACCCTAATTTAATTTATTTT
* *
77339304 AAACCCTAACTTAATTTATTTA
1 AAACCCTAATTTAATTTATTTT
** *
77339326 AAACCCTAAAACCCTAATTTA-CTT
1 AAACCCT--AA-TTTAATTTATTTT
* ** * *
77339350 -AA-TCT-ATTTAA-AAAATAT
1 AAACCCTAATTTAATTTATTTT
* ** ***
77339368 AAACCTTAATTTAATAAACCCT
1 AAACCCTAATTTAATTTATTTT
77339390 AAACCCTAATTTAATTTATTTT
1 AAACCCTAATTTAATTTATTTT
* *
77339412 AAACCCTAAATTAATTTATTTA
1 AAACCCTAATTTAATTTATTTT
77339434 AAACCCTA
1 AAACCCTA
77339442 GAACCCTAAT
Statistics
Matches: 105, Mismatches: 25, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
17 1 0.01
18 4 0.04
19 3 0.03
20 1 0.01
21 6 0.06
22 77 0.73
23 2 0.02
24 3 0.03
25 8 0.08
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (22 bp):
AAACCCTAATTTAATTTATTTT
Found at i:77339372 original size:34 final size:34
Alignment explanation
Indices: 77339312--77339380 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
77339302 TTAAACCCTA
* **
77339312 ACTTAATTTATTTAAAACCCTAAAACCCTAATTT
1 ACTTAATCTATTTAAAACAATAAAACCCTAATTT
*
77339346 ACTTAATCTATTTAAAA-AATATAAACCTTAATTT
1 ACTTAATCTATTTAAAACAATA-AAACCCTAATTT
77339380 A
1 A
77339381 ATAAACCCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 2 0.07
34 28 0.93
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (34 bp):
ACTTAATCTATTTAAAACAATAAAACCCTAATTT
Found at i:77339438 original size:215 final size:213
Alignment explanation
Indices: 77339088--77339700 Score: 1019
Period size: 215 Copynumber: 2.9 Consensus size: 213
77339078 AATTTTAACC
* *
77339088 TTAAATCCTAACTTAATTTATTTAAAACCCTAAAACCTTAATTTACTTAATCTATTTAAAAACAT
1 TTAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAACAT
* *
77339153 AAACCCTAATTTAATAAACCCTAAACCCTAATTTAATTTATTTTAAACCTTAACTTAATTTGTTT
66 AAACCCTAATTTAATAAACCCTAAACCCTAATTTAATTTATTTTAAACCCTAACTTAATTTATTT
*
77339218 AAAACCCTAGAACCCTAATTTACTTAATTATTTAAAAAACATAAGCCCTGATTTGATAAACCCAA
131 AAAACCCTAGAACCCTAATTTACTTAATTATTT-AAAAACATAAGCCCTAATTTGATAAACCCAA
77339283 AACCCTAATTTAATTTATT
195 AACCCTAATTTAATTTATT
*
77339302 TTAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAAATA
1 TTAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATCTATTT-AAAAACA
* *
77339367 TAAACCTTAATTTAATAAACCCTAAACCCTAATTTAATTTATTTTAAACCCTAAATTAATTTATT
65 TAAACCCTAATTTAATAAACCCTAAACCCTAATTTAATTTATTTTAAACCCTAACTTAATTTATT
*
77339432 TAAAACCCTAGAACCCTAATTTACTTAATTTATTTAAAAACATAAACCCTAATTTGATAAACCCA
130 TAAAACCCTAGAACCCTAATTTACTTAA-TTATTTAAAAACATAAGCCCTAATTTGATAAACCCA
77339497 AAACCCTAATTTAATTTATT
194 AAACCCTAATTTAATTTATT
* * * *
77339517 TAAAACCCTATCTTAATTTATTTAAAACCCTAGAACTCTAATTTACTTAATCTATTTAAAAACAT
1 TTAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAACAT
* * *
77339582 AAACCCTAATTTAACAAACCCTAAACCCTAATTTAATTTATTTTAAACACTAACTTAATTTTTTT
66 AAACCCTAATTTAATAAACCCTAAACCCTAATTTAATTTATTTTAAACCCTAACTTAATTTATTT
* * *
77339647 TAAATCCTAGAACCCTAATTTACTTAATATATTTAAAACCATAAGCCCTAATTT
131 AAAACCCTAGAACCCTAATTTACTTAAT-TATTTAAAAACATAAGCCCTAATTT
77339701 ATTTAAAACC
Statistics
Matches: 373, Mismatches: 23, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
213 1 0.00
214 170 0.46
215 196 0.53
216 6 0.02
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.38
Consensus pattern (213 bp):
TTAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAACAT
AAACCCTAATTTAATAAACCCTAAACCCTAATTTAATTTATTTTAAACCCTAACTTAATTTATTT
AAAACCCTAGAACCCTAATTTACTTAATTATTTAAAAACATAAGCCCTAATTTGATAAACCCAAA
ACCCTAATTTAATTTATT
Found at i:77339454 original size:322 final size:322
Alignment explanation
Indices: 77339088--77339684 Score: 971
Period size: 322 Copynumber: 1.9 Consensus size: 322
77339078 AATTTTAACC
* * *
77339088 TTAAATCCTAACTTAATTTATTTAAAACCCTAAAACCTTAATTTACTTAATCTATTTAAAAACAT
1 TTAAACCCTAAATTAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAACAT
* * * *
77339153 AAACCCTAATTTAATAAACCCTAAACCCTAATTTAATTTATTTTAAACCTTAACTTAATTTGTTT
66 AAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTTAAAACCCTAACTTAATTTATTT
* * * *
77339218 AAAACCCTAGAACCCTAATTTACTTAAT-TATTTAAAAAACATAAGCCCTGATTTGATAAACCCA
131 AAAACCCTAGAACCCTAATTTACTTAATCTATTT-AAAAACATAAACCCTAATTTAACAAACCCA
*
77339282 AAACCCTAATTTAATTTATTTTAAACCCTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTA
195 AAACCCTAATTTAATTTATTTTAAACACTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTA
*
77339347 CTTAATCTATTTAAAAAATATAAACCTTAATTTAATAAACCCTAAACCCTAATTTAATTTATT
260 CTTAATATATTTAAAAAATATAAACCTTAATTTAATAAACCCTAAACCCTAATTTAATTTATT
* *
77339410 TTAAACCCTAAATTAATTTATTTAAAACCCTAGAACCCTAATTTACTTAATTTATTTAAAAACAT
1 TTAAACCCTAAATTAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAACAT
* *
77339475 AAACCCTAATTTGATAAACCCAAAACCCTAATTTAATTTATTTAAAACCCTATCTTAATTTATTT
66 AAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTTAAAACCCTAACTTAATTTATTT
* *
77339540 AAAACCCTAGAACTCTAATTTACTTAATCTATTTAAAAACATAAACCCTAATTTAACAAACCCTA
131 AAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAACATAAACCCTAATTTAACAAACCCAA
* * * *
77339605 AACCCTAATTTAATTTATTTTAAACACTAACTTAATTTTTTTTAAATCCTAGAACCCTAATTTAC
196 AACCCTAATTTAATTTATTTTAAACACTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAC
77339670 TTAATATATTTAAAA
261 TTAATATATTTAAAA
77339685 CCATAAGCCC
Statistics
Matches: 251, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
322 246 0.98
323 5 0.02
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.38
Consensus pattern (322 bp):
TTAAACCCTAAATTAATTTATTTAAAACCCTAAAACCCTAATTTACTTAATCTATTTAAAAACAT
AAACCCTAATTTAATAAACCCAAAACCCTAATTTAATTTATTTAAAACCCTAACTTAATTTATTT
AAAACCCTAGAACCCTAATTTACTTAATCTATTTAAAAACATAAACCCTAATTTAACAAACCCAA
AACCCTAATTTAATTTATTTTAAACACTAACTTAATTTATTTAAAACCCTAAAACCCTAATTTAC
TTAATATATTTAAAAAATATAAACCTTAATTTAATAAACCCTAAACCCTAATTTAATTTATT
Found at i:77339485 original size:33 final size:34
Alignment explanation
Indices: 77339422--77339486 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
77339412 AAACCCTAAA
* *
77339422 TTAATTTATTTAAAACCCTAGAACCCTAATTTAC
1 TTAATTTATTTAAAAACATAGAACCCTAATTTAC
77339456 TTAATTTATTTAAAAACATA-AACCCTAATTT
1 TTAATTTATTTAAAAACATAGAACCCTAATTT
77339487 GATAAACCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 11 0.38
34 18 0.62
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.40
Consensus pattern (34 bp):
TTAATTTATTTAAAAACATAGAACCCTAATTTAC
Found at i:77339521 original size:22 final size:23
Alignment explanation
Indices: 77339496--77339566 Score: 92
Period size: 22 Copynumber: 3.1 Consensus size: 23
77339486 TGATAAACCC
77339496 AAAACCCTAAT-TTAATTTATTT
1 AAAACCCTAATCTTAATTTATTT
77339518 AAAACCCT-ATCTTAATTTATTT
1 AAAACCCTAATCTTAATTTATTT
* *
77339540 AAAACCCTAGAACTCTAATTTACTT
1 AAAACCCTA-ATCT-TAATTTATTT
77339565 AA
1 AA
77339567 TCTATTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
21 2 0.05
22 27 0.63
24 3 0.07
25 11 0.26
ACGTcount: A:0.41, C:0.18, G:0.01, T:0.39
Consensus pattern (23 bp):
AAAACCCTAATCTTAATTTATTT
Found at i:77339567 original size:34 final size:33
Alignment explanation
Indices: 77339528--77339594 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
77339518 AAAACCCTAT
* * * *
77339528 CTTAATTTATTTAAAACCCTAGAACTCTAATTTA
1 CTTAATCTATTTAAAAACATA-AACCCTAATTTA
77339562 CTTAATCTATTTAAAAACATAAACCCTAATTTA
1 CTTAATCTATTTAAAAACATAAACCCTAATTTA
77339595 ACAAACCCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 11 0.38
34 18 0.62
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.39
Consensus pattern (33 bp):
CTTAATCTATTTAAAAACATAAACCCTAATTTA
Found at i:77339628 original size:22 final size:22
Alignment explanation
Indices: 77339603--77339655 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
77339593 TAACAAACCC
*
77339603 TAAACCCTAATTTAATTTATTT
1 TAAACCCTAACTTAATTTATTT
* *
77339625 TAAACACTAACTTAATTTTTTT
1 TAAACCCTAACTTAATTTATTT
*
77339647 TAAATCCTA
1 TAAACCCTA
77339656 GAACCCTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAACCCTAACTTAATTTATTT
Found at i:77339723 original size:22 final size:22
Alignment explanation
Indices: 77339668--77339730 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 22
77339658 ACCCTAATTT
*
77339668 ACTTAATATATTTAAAACCATA
1 ACTTAATTTATTTAAAACCATA
* *
77339690 AGCCCTAATTTATTTAAAACCCTA
1 A--CTTAATTTATTTAAAACCATA
77339714 ACTTAATTTATTTAAAA
1 ACTTAATTTATTTAAAA
77339731 TTAATTAACC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 16 0.46
24 19 0.54
ACGTcount: A:0.44, C:0.16, G:0.02, T:0.38
Consensus pattern (22 bp):
ACTTAATTTATTTAAAACCATA
Found at i:77345977 original size:21 final size:21
Alignment explanation
Indices: 77345953--77346007 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
77345943 AATTAAAATA
77345953 TTTTATATGTAAATATTATTC
1 TTTTATATGTAAATATTATTC
*
77345974 TTTTGATA-GAAAATATTATTC
1 TTTT-ATATGTAAATATTATTC
*
77345995 TTTAATAT-TAAAT
1 TTTTATATGTAAAT
77346008 TGATGTGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 7 0.24
21 19 0.66
22 3 0.10
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTTATATGTAAATATTATTC
Found at i:77356814 original size:40 final size:40
Alignment explanation
Indices: 77356729--77356820 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
77356719 GACTATGTTC
77356729 GGCACTAAGTGTGCGATTCGAAATAGCTTCAACTATAAATA
1 GGCACTAAGTGTGCGATTCGAAATAGCTTCAACTAT-AATA
* **
77356770 -GCACTAAGTGTGCGAATT-GGAATAGCTTCGGCTAT-ATGA
1 GGCACTAAGTGTGCG-ATTCGAAATAGCTTCAACTATAAT-A
77356809 GGCACTAAGTGT
1 GGCACTAAGTGT
77356821 ACTATACCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 39 0.87
41 3 0.07
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (40 bp):
GGCACTAAGTGTGCGATTCGAAATAGCTTCAACTATAATA
Found at i:77358473 original size:40 final size:40
Alignment explanation
Indices: 77358393--77358481 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
77358383 CTTTTCAATG
* *
77358393 GATTCAGTAGGTATGGCTCGAAAGCGAATATATTTCAGTA
1 GATTCAATAGGTATGGCTCGAAAGCGAATACATTTCAGTA
* * *
77358433 GATTCAATAGGTATGGCTTGATAGCGCATACATGTT-AGTA
1 GATTCAATAGGTATGGCTCGAAAGCGAATACAT-TTCAGTA
*
77358473 GATCCAATA
1 GATTCAATA
77358482 AATATTGATC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 40 0.95
41 2 0.05
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (40 bp):
GATTCAATAGGTATGGCTCGAAAGCGAATACATTTCAGTA
Found at i:77363450 original size:46 final size:46
Alignment explanation
Indices: 77363398--77363709 Score: 372
Period size: 46 Copynumber: 7.0 Consensus size: 46
77363388 AGTGTGTTCT
*
77363398 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
77363444 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCGAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
77363490 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAA-
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
77363535 C---C-TG---TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
77363574 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
77363620 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
77363666 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
77363710 TCACGTCAAA
Statistics
Matches: 229, Mismatches: 28, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
38 31 0.14
39 1 0.00
41 2 0.01
42 1 0.00
43 2 0.01
45 1 0.00
46 191 0.83
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:77363596 original size:84 final size:85
Alignment explanation
Indices: 77363453--77363709 Score: 302
Period size: 84 Copynumber: 3.0 Consensus size: 85
77363443 CCTGATATGA
* * * *
77363453 GATGTGTAAGACCATGGTTGAAAGATACCATGGCGACGTGACATGAAAAGAATAAGACCATGGTT
1 GATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGGTT
77363518 GAAAGATACCATGGCAACCT
66 GAAAGATACCATGGCAACCT
* * * *
77363538 G-TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTT
1 GATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGGTT
* *
77363602 GAAAGATACCATGACAACGT
66 GAAAGATACCATGGCAACCT
*
77363622 GACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGA
1 G--ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGTAAGA
* * *
77363686 CCATAGTTGAAAGACACTATGGCA
58 CCATGGTTGAAAGATACCATGGCA
77363710 TCACGTCAAA
Statistics
Matches: 145, Mismatches: 18, Indels: 11
0.83 0.10 0.06
Matches are distributed among these distances:
84 75 0.52
85 1 0.01
87 2 0.01
90 1 0.01
91 1 0.01
92 65 0.45
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (85 bp):
GATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGTAAGACCATGGTT
GAAAGATACCATGGCAACCT
Found at i:77363642 original size:130 final size:130
Alignment explanation
Indices: 77363409--77363665 Score: 496
Period size: 130 Copynumber: 2.0 Consensus size: 130
77363399 TGATATGAAA
77363409 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGA
* *
77363474 AAGATACCATGGCGACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACCTG
66 AAGATACCATGACAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACCTG
77363539 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGA
77363604 AAGATACCATGACAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
66 AAGATACCATGACAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
77363666 ATGACAGAAA
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 125 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.21
Consensus pattern (130 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTGA
AAGATACCATGACAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:77364015 original size:23 final size:25
Alignment explanation
Indices: 77363970--77364016 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
77363960 AATAAATATA
*
77363970 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
77363995 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
77364017 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:77368511 original size:11 final size:12
Alignment explanation
Indices: 77368488--77368517 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
77368478 TCAAGGATAG
77368488 GGGAAGAGGAAA
1 GGGAAGAGGAAA
77368500 GGGAAG-GGAAA
1 GGGAAGAGGAAA
77368511 GGGAAGA
1 GGGAAGA
77368518 TAGATGTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GGGAAGAGGAAA
Found at i:77373861 original size:150 final size:150
Alignment explanation
Indices: 77373691--77373995 Score: 513
Period size: 150 Copynumber: 2.0 Consensus size: 150
77373681 CAATGAGGAG
* *
77373691 GAAGAGGAAGAGGTGAGAGAGGTTGTTAGATTGAAAAGAGAACGGATATCTTCGGTAAGGGAGAG
1 GAAGAGGAAGAGGTGAGAGAGGTTGTTAGATTGAAAAGAGAACGGATATCTTCAGAAAGGGAGAG
*
77373756 GAAGATT-CTGGATAAAAAATCTGTAAAGCGGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAG
66 GAAGATTGC-GGATAAAAAATCTGTAAAGCAGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAG
*
77373820 GATTTTCAGGAGGAAGAAGAA
130 GATTATCAGGAGGAAGAAGAA
*
77373841 GAAGAGGAAGAGGTGAGAGAGGTTGTTAGGTTGAAAAGAGAACGGATATCTTCAGAAAGGGAGAG
1 GAAGAGGAAGAGGTGAGAGAGGTTGTTAGATTGAAAAGAGAACGGATATCTTCAGAAAGGGAGAG
* *
77373906 GAAGATTGCGGATAAAAAATCTGTCAAGCAGGAAAGCTTGTCTGTTGAAGAAGATGAAGACAAGG
66 GAAGATTGCGGATAAAAAATCTGTAAAGCAGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAGG
* *
77373971 ATTATGAGGAGGAGGAAGAA
131 ATTATCAGGAGGAAGAAGAA
77373991 GAAGA
1 GAAGA
77373996 AAAGGAAGAT
Statistics
Matches: 145, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
150 144 0.99
151 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.35, T:0.18
Consensus pattern (150 bp):
GAAGAGGAAGAGGTGAGAGAGGTTGTTAGATTGAAAAGAGAACGGATATCTTCAGAAAGGGAGAG
GAAGATTGCGGATAAAAAATCTGTAAAGCAGGAAAGCATGTCTGTTGAAGAAGATGAAGACAAGG
ATTATCAGGAGGAAGAAGAA
Found at i:77374052 original size:36 final size:36
Alignment explanation
Indices: 77374012--77374128 Score: 164
Period size: 36 Copynumber: 3.2 Consensus size: 36
77374002 AGATGATGAT
* * *
77374012 GATGAGGAGTTCACTCCAGATGTAGAAGATTGTTTG
1 GATGAGGAATTCACTCCAGATGAAGAGGATTGTTTG
*
77374048 GATGAGGAATTTACTCCAGATGAAGAGGATTGTTTG
1 GATGAGGAATTCACTCCAGATGAAGAGGATTGTTTG
* *
77374084 GATGAAGAATTCACT-CAGGATGAAGAGGATTGTTTA
1 GATGAGGAATTCACTCCA-GATGAAGAGGATTGTTTG
77374120 GATGAGGAA
1 GATGAGGAA
77374129 GAGGAATTGA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
35 2 0.03
36 70 0.97
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (36 bp):
GATGAGGAATTCACTCCAGATGAAGAGGATTGTTTG
Found at i:77374123 original size:18 final size:18
Alignment explanation
Indices: 77374065--77374124 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
77374055 AATTTACTCC
77374065 AGATGAAGAGGATTGTTT
1 AGATGAAGAGGATTGTTT
* ** *
77374083 GGATGAAGA--ATTCACTC
1 AGATGAAGAGGATT-GTTT
77374100 AGGATGAAGAGGATTGTTT
1 A-GATGAAGAGGATTGTTT
77374119 AGATGA
1 AGATGA
77374125 GGAAGAGGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
16 3 0.10
17 1 0.03
18 21 0.70
19 2 0.07
20 3 0.10
ACGTcount: A:0.35, C:0.05, G:0.32, T:0.28
Consensus pattern (18 bp):
AGATGAAGAGGATTGTTT
Found at i:77381758 original size:18 final size:17
Alignment explanation
Indices: 77381725--77381766 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
77381715 AGCTCCTCAG
* *
77381725 AAATACTTTTGGGATAA
1 AAATATTTTTGAGATAA
77381742 AAAGTATTTTTGAGATAA
1 AAA-TATTTTTGAGATAA
77381760 AAATATT
1 AAATATT
77381767 GTTAAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.38
Consensus pattern (17 bp):
AAATATTTTTGAGATAA
Found at i:77384001 original size:43 final size:43
Alignment explanation
Indices: 77383922--77384070 Score: 165
Period size: 43 Copynumber: 3.4 Consensus size: 43
77383912 CAATGACATA
* * * ** * *
77383922 TCCCAGATATGGTCCTACATGTTATCACATATCGATGCCATTG
1 TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATG
* *
77383965 TCCCAGACAGGGTCTTACACGAAATCATATAACGATGCCAATG
1 TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATG
* * *
77384008 TCCCAGACATGGTATTTACACGTAATCACA-ATACAATGCCAATG
1 TCCCAGACATGGT-CTTACACGAAATCACATA-ACGATGCCAATG
77384052 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
77384071 TATAATCACA
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 52 0.58
44 37 0.42
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCACATAACGATGCCAATG
Found at i:77384047 original size:44 final size:43
Alignment explanation
Indices: 77383956--77384070 Score: 151
Period size: 44 Copynumber: 2.7 Consensus size: 43
77383946 TCACATATCG
* * * *
77383956 ATGCCATTGTCCCAGACAGGGTCTTACACGAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAACA
* *
77383999 ATGCCAATGTCCCAGACATGGTATTTACACGTAATCACAAT-ACA
1 ATGCCAATGTCCCAGACATGGT-CTTACACGAAATCA-AATAACA
77384043 ATGCCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
77384071 TATAATCACA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
43 25 0.40
44 36 0.57
45 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATAACA
Found at i:77387359 original size:18 final size:18
Alignment explanation
Indices: 77387315--77387353 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
77387305 TTAATAATAC
* *
77387315 AAAAATTATAAAAATTGT
1 AAAAAATATAAAAAATGT
77387333 AAAAAATATAAAAAATGT
1 AAAAAATATAAAAAATGT
77387351 AAA
1 AAA
77387354 TTATATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAAATATAAAAAATGT
Found at i:77388590 original size:10 final size:10
Alignment explanation
Indices: 77388558--77388596 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
77388548 AAGCCTATAT
77388558 TAAATATTTA
1 TAAATATTTA
*
77388568 TAAAACATATTA
1 T-AAATAT-TTA
77388580 TAAATATTTA
1 TAAATATTTA
77388590 TAAATAT
1 TAAATAT
77388597 CTTCTTACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 11 0.44
11 10 0.40
12 4 0.16
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (10 bp):
TAAATATTTA
Found at i:77388911 original size:5 final size:5
Alignment explanation
Indices: 77388901--77388927 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
77388891 TAAACATTCG
77388901 ATCGA ATCGA ATCGA ATCGA ATCGA AT
1 ATCGA ATCGA ATCGA ATCGA ATCGA AT
77388928 TGAAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
ATCGA
Found at i:77389954 original size:9 final size:9
Alignment explanation
Indices: 77389940--77389976 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
77389930 TATAGTTTGA
77389940 TATTCGAAT
1 TATTCGAAT
77389949 TATTCGAAT
1 TATTCGAAT
*
77389958 TATTCGAGT
1 TATTCGAAT
77389967 TATTCGAAT
1 TATTCGAAT
77389976 T
1 T
77389977 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:77390053 original size:18 final size:18
Alignment explanation
Indices: 77390027--77390061 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
77390017 ATTCGAGTTG
*
77390027 ACTCGAATAACTCGATTA
1 ACTCAAATAACTCGATTA
77390045 ACTCAAATAACTCGATT
1 ACTCAAATAACTCGATT
77390062 CGTTTAACTC
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:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:77394275 original size:22 final size:22
Alignment explanation
Indices: 77394247--77394292 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
77394237 CTTGAGATTG
77394247 CTTATATACATGACATTCTTAA
1 CTTATATACATGACATTCTTAA
77394269 CTTATATACATGACATTCTTAA
1 CTTATATACATGACATTCTTAA
77394291 CT
1 CT
77394293 ACTCTTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (22 bp):
CTTATATACATGACATTCTTAA
Found at i:77395540 original size:49 final size:49
Alignment explanation
Indices: 77395411--77395543 Score: 176
Period size: 49 Copynumber: 2.7 Consensus size: 49
77395401 TGCCTTAGGT
* ** *
77395411 TGAAAACCATCATTGTCGGGCTATTTGGGATGGTAGGATAAGTAAATTG
1 TGAAAACCATCATTTTCGGGCTATCAGTGATGGTAGGATAAGTAAATTG
* * * *
77395460 TGAAAACCATCGTTTTCGGGCCAGCCGTGATGGTAGGATAAGTAAATTG
1 TGAAAACCATCATTTTCGGGCTATCAGTGATGGTAGGATAAGTAAATTG
* *
77395509 TGAAAACCATCATTTTGGGGCTATCAATGATGGTA
1 TGAAAACCATCATTTTCGGGCTATCAGTGATGGTA
77395544 AAATGTAAGA
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (49 bp):
TGAAAACCATCATTTTCGGGCTATCAGTGATGGTAGGATAAGTAAATTG
Found at i:77397104 original size:20 final size:20
Alignment explanation
Indices: 77397066--77397113 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
77397056 TAAATTCCAA
* **
77397066 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
77397086 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
77397106 AAA-ATAAA
1 AAAGATAAA
77397114 ATCCTAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:77398976 original size:42 final size:42
Alignment explanation
Indices: 77398920--77399019 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
77398910 TCTAAGGCTA
*
77398920 GAATAGGACTGTTTGGC-TCCAGAGATATAGCATTCTGGACTG
1 GAATAGAACTGTTTGGCAT-CAGAGATATAGCATTCTGGACTG
* * * **
77398962 GAATAGAACTGTTTGGCATCAGGGATATGGCATTTTGGGTTG
1 GAATAGAACTGTTTGGCATCAGAGATATAGCATTCTGGACTG
77399004 GAATAGAACTGTTTGG
1 GAATAGAACTGTTTGG
77399020 TACCATGGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 50 0.98
43 1 0.02
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.31
Consensus pattern (42 bp):
GAATAGAACTGTTTGGCATCAGAGATATAGCATTCTGGACTG
Found at i:77399136 original size:10 final size:10
Alignment explanation
Indices: 77399123--77399184 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 10
77399113 ATTAATATTT
77399123 AAATAAAATA
1 AAATAAAATA
77399133 AAATAAAATAA
1 AAATAAAAT-A
77399144 TAAATAATAA-A
1 -AAATAA-AATA
*
77399155 TAATAAAATA
1 AAATAAAATA
*
77399165 AAAAATAAATAA
1 AAATA-AAAT-A
77399177 AAATAAAA
1 AAATAAAA
77399185 AGAAAGATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
9 2 0.05
10 18 0.43
11 9 0.21
12 11 0.26
13 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAATAAAATA
Found at i:77399147 original size:22 final size:22
Alignment explanation
Indices: 77399122--77399184 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
77399112 TATTAATATT
77399122 TAAATAAAATAAAATAAAATAA
1 TAAATAAAATAAAATAAAATAA
*
77399144 TAAATAATAA-ATAATAAAATAA
1 TAAATAA-AATAAAATAAAATAA
*
77399166 AAAAT-AAATAAAAATAAAA
1 TAAATAAAAT-AAAATAAAA
77399185 AGAAAGATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 2 0.06
21 1 0.03
22 30 0.86
23 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAATAAAATAAAATAAAATAA
Found at i:77399150 original size:7 final size:7
Alignment explanation
Indices: 77399138--77399182 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
77399128 AAATAAAATA
77399138 AAATAAT
1 AAATAAT
77399145 AAATAAT
1 AAATAAT
77399152 AAATAAT
1 AAATAAT
77399159 -AA-AAT
1 AAATAAT
*
77399164 AAAAAAT
1 AAATAAT
77399171 AAATAA-
1 AAATAAT
77399177 AAATAA
1 AAATAA
77399183 AAAGAAAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
5 3 0.09
6 10 0.29
7 22 0.63
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (7 bp):
AAATAAT
Found at i:77399157 original size:19 final size:18
Alignment explanation
Indices: 77399123--77399185 Score: 76
Period size: 19 Copynumber: 3.5 Consensus size: 18
77399113 ATTAATATTT
*
77399123 AAATAAAATA-AAATAAA
1 AAATAAAAAATAAATAAA
*
77399140 ATAATAAATAATAAATAATA
1 A-AATAAAAAATAAATAA-A
77399160 AAATAAAAAATAAAT-AA
1 AAATAAAAAATAAATAAA
77399177 AAATAAAAA
1 AAATAAAAA
77399186 GAAAGATTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 11 0.28
18 8 0.20
19 19 0.47
20 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AAATAAAAAATAAATAAA
Found at i:77399185 original size:7 final size:7
Alignment explanation
Indices: 77399123--77399173 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
77399113 ATTAATATTT
77399123 AAATAAA
1 AAATAAA
77399130 ATAA-AATA
1 A-AATAA-A
*
77399138 AAATAAT
1 AAATAAA
*
77399145 AAATAAT
1 AAATAAA
77399152 AAATAATA
1 AAATAA-A
77399160 AAATAAA
1 AAATAAA
77399167 AAATAAA
1 AAATAAA
77399174 TAAAAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 26 0.68
8 12 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (7 bp):
AAATAAA
Found at i:77402938 original size:20 final size:20
Alignment explanation
Indices: 77402900--77402947 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
77402890 TAAATTCTAA
* **
77402900 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
77402920 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
77402940 AAA-ATAAA
1 AAAGATAAA
77402948 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:77403713 original size:17 final size:17
Alignment explanation
Indices: 77403691--77403723 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
77403681 GAACCCCCTG
77403691 ACGTCATGACATCAACA
1 ACGTCATGACATCAACA
77403708 ACGTCATGACATCAAC
1 ACGTCATGACATCAAC
77403724 TTGAACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.30, G:0.12, T:0.18
Consensus pattern (17 bp):
ACGTCATGACATCAACA
Found at i:77408880 original size:28 final size:28
Alignment explanation
Indices: 77408848--77408909 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
77408838 ATTTACTAGA
*
77408848 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
77408876 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
77408904 ATACCC
1 ATACCC
77408910 TAGGGTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:77409054 original size:28 final size:28
Alignment explanation
Indices: 77409014--77409099 Score: 138
Period size: 28 Copynumber: 3.1 Consensus size: 28
77409004 TGGAGGAAGC
77409014 GTCCTGGTGGCTATGCCACAAATTATCT
1 GTCCTGGTGGCTATGCCACAAATTATCT
77409042 GTCCTGGTGGCTATGCCACAAATTATCT
1 GTCCTGGTGGCTATGCCACAAATTATCT
* *
77409070 GTTCTGGTGGC-ACTGCCACAAAATATCT
1 GTCCTGGTGGCTA-TGCCACAAATTATCT
77409098 GT
1 GT
77409100 ATCTAGTGAC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 1 0.02
28 54 0.98
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (28 bp):
GTCCTGGTGGCTATGCCACAAATTATCT
Found at i:77410210 original size:11 final size:10
Alignment explanation
Indices: 77410182--77410215 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
77410172 AGCCTGTAAG
77410182 TATTCTGAAT
1 TATTCTGAAT
*
77410192 TTTTCTGAAT
1 TATTCTGAAT
77410202 ATATTCTGAAT
1 -TATTCTGAAT
77410213 TAT
1 TAT
77410216 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:77416731 original size:28 final size:28
Alignment explanation
Indices: 77416699--77416763 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
77416689 ATTTACTAGA
*
77416699 ATACCCCTATGAATGCAAAATTACCATT
1 ATACCCCTATGAATGCAAAATGACCATT
* * *
77416727 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGAATGCAAAATGACCATT
77416755 ATACCCCTA
1 ATACCCCTA
77416764 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGAATGCAAAATGACCATT
Found at i:77416957 original size:29 final size:28
Alignment explanation
Indices: 77416869--77416959 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
77416859 AGGAAGCGTC
*
77416869 CTGGTGGCTATGCCACAAATTATCTGTC
1 CTGGTGGCTATGCCACAAATTATCTGTT
77416897 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGTT
*
77416925 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAATTATCTGT-T
77416954 CTGGTG
1 CTGGTG
77416960 ACTCTGTCAC
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.02
28 51 0.86
29 7 0.12
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCTATGCCACAAATTATCTGTT
Found at i:77416970 original size:29 final size:28
Alignment explanation
Indices: 77416869--77416970 Score: 132
Period size: 28 Copynumber: 3.6 Consensus size: 28
77416859 AGGAAGCGTC
* *
77416869 CTGGTGGCTATGCCACAAATTATCTGTC
1 CTGGTGGCTCTGCCACAAATTATCTGTT
*
77416897 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCTCTGCCACAAATTATCTGTT
* *
77416925 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCTCTGCCACAAATTATCTGT-T
* *
77416954 CTGGTGACTCTGTCACA
1 CTGGTGGCTCTGCCACA
77416971 TTTTCTGTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
28 51 0.77
29 15 0.23
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.31
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAAATTATCTGTT
Found at i:77416984 original size:56 final size:55
Alignment explanation
Indices: 77416869--77416984 Score: 128
Period size: 56 Copynumber: 2.1 Consensus size: 55
77416859 AGGAAGCGTC
* *
77416869 CTGGTGGCTATGCCACAAATTATCTGTCCTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTCCTGGTGACTATGCCAC-AATTATCTGTT
* * * *
77416925 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-CCTGGTGACTATGCCACAATTATCTGT-T
77416981 CTGG
1 CTGG
77416985 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
55 9 0.18
56 29 0.57
57 13 0.25
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTCCTGGTGACTATGCCACAATTATCTGTT
Found at i:77420782 original size:32 final size:32
Alignment explanation
Indices: 77420715--77420775 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
77420705 TTTTTAGAGG
* * *
77420715 TTGATTAATGCAAATCCTTAAAGAAATTAGAA
1 TTGATTAATACAAACCCCTAAAGAAATTAGAA
*
77420747 TTGATTAATACAAACCCCTGAAGAAATTA
1 TTGATTAATACAAACCCCTAAAGAAATTA
77420776 CGATTGAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (32 bp):
TTGATTAATACAAACCCCTAAAGAAATTAGAA
Found at i:77422264 original size:4 final size:4
Alignment explanation
Indices: 77422255--77422298 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
77422245 GTTTAATTTG
77422255 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
77422299 TTGAATTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:77423424 original size:24 final size:24
Alignment explanation
Indices: 77423392--77423441 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
77423382 TGGAATGGTA
77423392 TGTTTGATAAGATTATTAAATAGT
1 TGTTTGATAAGATTATTAAATAGT
*
77423416 TGTTTGATAAGATTATTAAGTAGT
1 TGTTTGATAAGATTATTAAATAGT
77423440 TG
1 TG
77423442 AACTTGTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (24 bp):
TGTTTGATAAGATTATTAAATAGT
Found at i:77442364 original size:323 final size:323
Alignment explanation
Indices: 77441775--77442379 Score: 1032
Period size: 323 Copynumber: 1.9 Consensus size: 323
77441765 CATTGAAAGC
*
77441775 ACAATCCAAGCTTTATGATGCAATGTTATAAAAATACTAACATAATTTCCTAAAATGCAACTAAA
1 ACAATCCAAGCTTTATGATACAATGTTATAAAAATACTAACATAATTTCCTAAAATGCAACTAAA
* *
77441840 TTTACTTAAGTACGAACAATTAACCAAGTTTAGAAGCCAGAAATATAACTCTTTTCAAGAGTTAT
66 TTTACTTAAGTACAAACAATTAACCAAGTTTAGAAGCCAGAAATATAAATCTTTTCAAGAGTTAT
* * *
77441905 CACGGATCACTATGGCGAAATCATTCAATGGGTATATTGACAAAAACTCCTTTAGATAATGCCTC
131 CACGGATCACTATGGAGAAATCATTAAATGGGTATATTGACAAAAACTACTTTAGATAATGCCTC
*
77441970 ACAACATGCCTAGGTCTTGCCACAAGGGTGGAATATCAAATCATCATTTAGGCGTTGTAAAATTA
196 ACAACATGCCTAGGTCTTGCCACAAGGGTGGAATATCAAATCATCATTTAGGCATTGTAAAATTA
77442035 ACAATACAGACCTTCCAGAAAATACTAACATAATTTTAGATTGTTGAATGAAAGTATCATTCA
261 ACAATACAGACCTTCCAGAAAATACTAACATAATTTTAGATTGTTGAATGAAAGTATCATTCA
*
77442098 ACAATCCAAGCTTTATGATACAATGTTATAAAAATACTAATATAATTTCCTAAAATGCAACTAAA
1 ACAATCCAAGCTTTATGATACAATGTTATAAAAATACTAACATAATTTCCTAAAATGCAACTAAA
77442163 TTTACTTAAGTACAAACAATTAACCAAGTTTAGAAGCCTA-AAATATAAATCTTTTCAAGAGTTA
66 TTTACTTAAGTACAAACAATTAACCAAGTTTAGAAGCC-AGAAATATAAATCTTTTCAAGAGTTA
* * * * * *
77442227 TCACGGATCACTATGGAGAAATCATTAAATTGGTGTATTGCCATAAGCTATTTTAGATAATGCCT
130 TCACGGATCACTATGGAGAAATCATTAAATGGGTATATTGACAAAAACTACTTTAGATAATGCCT
* * *
77442292 CATAACATGCCTAGGTCTTGCCATAAGGGTGGAATATCAAATCATCATTTAGGCATTGTAGAATT
195 CACAACATGCCTAGGTCTTGCCACAAGGGTGGAATATCAAATCATCATTTAGGCATTGTAAAATT
*
77442357 CACAATACAGACCTTCCAGAAAA
260 AACAATACAGACCTTCCAGAAAA
77442380 CTTGCCACAA
Statistics
Matches: 263, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
323 262 1.00
324 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (323 bp):
ACAATCCAAGCTTTATGATACAATGTTATAAAAATACTAACATAATTTCCTAAAATGCAACTAAA
TTTACTTAAGTACAAACAATTAACCAAGTTTAGAAGCCAGAAATATAAATCTTTTCAAGAGTTAT
CACGGATCACTATGGAGAAATCATTAAATGGGTATATTGACAAAAACTACTTTAGATAATGCCTC
ACAACATGCCTAGGTCTTGCCACAAGGGTGGAATATCAAATCATCATTTAGGCATTGTAAAATTA
ACAATACAGACCTTCCAGAAAATACTAACATAATTTTAGATTGTTGAATGAAAGTATCATTCA
Found at i:77451962 original size:37 final size:38
Alignment explanation
Indices: 77451911--77452012 Score: 122
Period size: 37 Copynumber: 2.8 Consensus size: 38
77451901 ATCACTTTTT
* * *
77451911 AATATATTAA-GTAAATA-CTATTTCCATGTCACGTTTC
1 AATATATCAATGTAAATATC-ATTTCCAAGACACGTTTC
* *
77451948 AATATGTC-ATGTAAATATCATTTCCAAGACATGTTTC
1 AATATATCAATGTAAATATCATTTCCAAGACACGTTTC
77451985 AATATATCAAT-TAAATATCATTTCCAAG
1 AATATATCAATGTAAATATCATTTCCAAG
77452013 TATTTCAAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
36 1 0.02
37 52 0.93
38 3 0.05
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (38 bp):
AATATATCAATGTAAATATCATTTCCAAGACACGTTTC
Found at i:77452413 original size:40 final size:38
Alignment explanation
Indices: 77452358--77452499 Score: 108
Period size: 40 Copynumber: 3.6 Consensus size: 38
77452348 CAAACATACC
*
77452358 AGTTTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAA
1 AGTTTGACACCCAGTGCCTCATCGGAT-ATTCAAAGTAA
* * * *
77452397 TAGTTTGACACCCAGTGTCTCATCGGCTATGCCGAAGT-A
1 -AGTTTGACACCCAGTGCCTCATCGGATAT-TCAAAGTAA
** * * *
77452436 A-TTTGGTACCCAGTACCTCATCGAATTTATTTAAAGTAA
1 AGTTTGACACCCAGTGCCTCATCGGA--TATTCAAAGTAA
* *
77452475 CAATTTGACACCCAGTGTCTCATCG
1 -AGTTTGACACCCAGTGCCTCATCG
77452500 ACTCTAAGTT
Statistics
Matches: 78, Mismatches: 18, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
37 18 0.23
38 5 0.06
39 7 0.09
40 30 0.38
41 18 0.23
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (38 bp):
AGTTTGACACCCAGTGCCTCATCGGATATTCAAAGTAA
Found at i:77452940 original size:33 final size:34
Alignment explanation
Indices: 77452876--77452967 Score: 89
Period size: 33 Copynumber: 2.7 Consensus size: 34
77452866 GTTTTCTTTG
* * *
77452876 TGCCATAACCCAGTTATGGTCTTTTCATTAAA-A-
1 TGCCATAGCCCAGCTATGGTC-TTACATTAAACAT
77452909 TGCCATAGCCCAGCTATGGTCTTACATTTAAACAT
1 TGCCATAGCCCAGCTATGGTCTTACA-TTAAACAT
* * * *
77452944 TGCCATGGTCCAACCATGGTCTTA
1 TGCCATAGCCCAGCTATGGTCTTA
77452968 TCCGTCCATT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
32 4 0.08
33 24 0.49
34 1 0.02
35 20 0.41
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (34 bp):
TGCCATAGCCCAGCTATGGTCTTACATTAAACAT
Found at i:77453883 original size:12 final size:12
Alignment explanation
Indices: 77453866--77453891 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
77453856 AAACATTAAG
77453866 AATATATATAAT
1 AATATATATAAT
77453878 AATATATATAAT
1 AATATATATAAT
77453890 AA
1 AA
77453892 ACTTATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATATATAAT
Found at i:77453903 original size:33 final size:34
Alignment explanation
Indices: 77453828--77453903 Score: 81
Period size: 33 Copynumber: 2.3 Consensus size: 34
77453818 TCATTTGTTT
*
77453828 TTAT-AATATAATATAATATAATATACTTAAACA
1 TTATAAATATAATATAATATAATATACATAAACA
77453861 TTA-AGAATAT-ATATAATAATATATATA-ATAAAC-
1 TTATA-AATATAATATAAT-ATA-ATATACATAAACA
77453894 TTATAAATAT
1 TTATAAATAT
77453904 CTAAATTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
33 18 0.49
34 14 0.38
35 5 0.14
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (34 bp):
TTATAAATATAATATAATATAATATACATAAACA
Found at i:77455453 original size:19 final size:19
Alignment explanation
Indices: 77455429--77455470 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
77455419 AGACAACAAA
77455429 ACTTATGTTTTGAGACATG
1 ACTTATGTTTTGAGACATG
77455448 ACTTATGTTTTGAGACATG
1 ACTTATGTTTTGAGACATG
77455467 ACTT
1 ACTT
77455471 GTTGTCTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (19 bp):
ACTTATGTTTTGAGACATG
Found at i:77462540 original size:56 final size:57
Alignment explanation
Indices: 77462439--77462582 Score: 200
Period size: 56 Copynumber: 2.5 Consensus size: 57
77462429 ACTTTCATGT
* * *
77462439 CATTTTCATTTGGGAGAAAACCATATTCATTTGCAAATGATTCCATTTCTCAATTTC
1 CATTTTCATTTCGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCAATTTC
* * * * *
77462496 CATTTTCATTTTGTAGAAAA-CATAATCATTTCCAAATGTTTCCATTTCTCCATTTT
1 CATTTTCATTTCGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCAATTTC
*
77462552 CATTATCATTTCGGAGAAAACCATAATCATT
1 CATTTTCATTTCGGAGAAAACCATAATCATT
77462583 AACCATAATC
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
56 48 0.63
57 28 0.37
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.41
Consensus pattern (57 bp):
CATTTTCATTTCGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCAATTTC
Found at i:77462588 original size:13 final size:13
Alignment explanation
Indices: 77462570--77462595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77462560 TTTCGGAGAA
77462570 AACCATAATCATT
1 AACCATAATCATT
77462583 AACCATAATCATT
1 AACCATAATCATT
77462596 TCCAAATGAT
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:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
AACCATAATCATT
Found at i:77469636 original size:16 final size:16
Alignment explanation
Indices: 77469595--77469646 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
77469585 AACATGGTTT
*
77469595 TGAGTGTTGTGATATA
1 TGAGTATTGTGATATA
*
77469611 TACGAATATTGTGATATA
1 T--GAGTATTGTGATATA
77469629 TGAGTATTGTGATATA
1 TGAGTATTGTGATATA
77469645 TG
1 TG
77469647 CTTAAATGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 17 0.55
18 14 0.45
ACGTcount: A:0.31, C:0.02, G:0.25, T:0.42
Consensus pattern (16 bp):
TGAGTATTGTGATATA
Found at i:77469673 original size:39 final size:39
Alignment explanation
Indices: 77469620--77469730 Score: 188
Period size: 39 Copynumber: 2.9 Consensus size: 39
77469610 ATACGAATAT
77469620 TGTGA-TATATGAGTATTGTGATATATGCTTAAATGTTA
1 TGTGATTATATGAGTATTGTGATATATGCTTAAATGTTA
77469658 TGTGATTATATGAGTATTGTGATATATGCTTAAATGTTA
1 TGTGATTATATGAGTATTGTGATATATGCTTAAATGTTA
* **
77469697 TGTGATTATATGTGTAAAGTGATATATGCTTAAA
1 TGTGATTATATGAGTATTGTGATATATGCTTAAA
77469731 AGTGAATATG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
38 5 0.07
39 64 0.93
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.44
Consensus pattern (39 bp):
TGTGATTATATGAGTATTGTGATATATGCTTAAATGTTA
Found at i:77473729 original size:64 final size:64
Alignment explanation
Indices: 77473648--77473831 Score: 183
Period size: 67 Copynumber: 2.8 Consensus size: 64
77473638 AGACATTATG
* *
77473648 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAAACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAAACAAGAGAGCTACGAGATAA
* * * * * * *
77473712 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAAACAAGAGAGCTACGAGAT
77473777 AA
63 AA
* * * * **
77473779 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAAACAAGAGAGC
77473832 CGAACTATAT
Statistics
Matches: 96, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
63 19 0.20
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAAACAAGAGAGCTACGAGATAA
Found at i:77489907 original size:22 final size:22
Alignment explanation
Indices: 77489879--77489920 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
77489869 CTTAAGGCTT
*
77489879 GAGGTTAAGTCTTGAGACATAG
1 GAGGTTAAGTCTCGAGACATAG
77489901 GAGGTTAAGTCTCGAGACAT
1 GAGGTTAAGTCTCGAGACAT
77489921 GGTCCTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (22 bp):
GAGGTTAAGTCTCGAGACATAG
Found at i:77495105 original size:18 final size:18
Alignment explanation
Indices: 77495061--77495113 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
77495051 CCGGCACTCT
* *
77495061 ATAATAGTCAGTTATGCA
1 ATAATAGTCAATTATTCA
* *
77495079 GTAATAGTCATTTATTCA
1 ATAATAGTCAATTATTCA
*
77495097 ATAACAGTCAATTATTC
1 ATAATAGTCAATTATTC
77495114 CGTAGCAATC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (18 bp):
ATAATAGTCAATTATTCA
Found at i:77495369 original size:48 final size:48
Alignment explanation
Indices: 77495251--77495359 Score: 166
Period size: 48 Copynumber: 2.3 Consensus size: 48
77495241 CCGTAACGGT
* * *
77495251 AACAGTCTCAGTCACGGTACACAAAGTACTTCATCGAAACGAATCCAG
1 AACAGTCACAGTCACGGTACACTAAGTACCTCATCGAAACGAATCCAG
*
77495299 AACAGTCACAGTCACGGTACACTAAGTACCTCATCGGAACGAATCC-G
1 AACAGTCACAGTCACGGTACACTAAGTACCTCATCGAAACGAATCCAG
77495346 AAACAGTCACAGTC
1 -AACAGTCACAGTC
77495360 TAGCGACACT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
47 1 0.02
48 55 0.98
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.17
Consensus pattern (48 bp):
AACAGTCACAGTCACGGTACACTAAGTACCTCATCGAAACGAATCCAG
Found at i:77495875 original size:16 final size:15
Alignment explanation
Indices: 77495853--77495891 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
77495843 CTTTTTCTCC
77495853 TTCTTTCTCCCCTGT
1 TTCTTTCTCCCCTGT
* *
77495868 TTCGTTTCTTCTCTGT
1 TTC-TTTCTCCCCTGT
77495884 TTCTTTCT
1 TTCTTTCT
77495892 ATTCTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (15 bp):
TTCTTTCTCCCCTGT
Found at i:77499926 original size:14 final size:14
Alignment explanation
Indices: 77499907--77499970 Score: 53
Period size: 13 Copynumber: 4.8 Consensus size: 14
77499897 ATGAATTGGT
*
77499907 TATATGGAAGTAGA
1 TATATGGAAATAGA
*
77499921 TATAT-GAAATAGT
1 TATATGGAAATAGA
* * *
77499934 TAAAT-GAATTAGT
1 TATATGGAAATAGA
*
77499947 TATATGGAACTAGA
1 TATATGGAAATAGA
77499961 TATAT-GAAAT
1 TATATGGAAAT
77499971 GAAACATTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 25 0.61
14 16 0.39
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.34
Consensus pattern (14 bp):
TATATGGAAATAGA
Found at i:77499935 original size:27 final size:27
Alignment explanation
Indices: 77499894--77499966 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
77499884 ATGAAATGAT
* *
77499894 TATATGAATTGGTTATATGGAAGTAGA
1 TATATGAAATAGTTATATGGAAGTAGA
* * *
77499921 TATATGAAATAGTTAAAT-GAATTAGT
1 TATATGAAATAGTTATATGGAAGTAGA
* *
77499947 TATATGGAACTAGATATATG
1 TATAT-GAAATAGTTATATG
77499967 AAATGAAACA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
26 11 0.31
27 25 0.69
ACGTcount: A:0.41, C:0.01, G:0.21, T:0.37
Consensus pattern (27 bp):
TATATGAAATAGTTATATGGAAGTAGA
Found at i:77499941 original size:40 final size:40
Alignment explanation
Indices: 77499884--77499972 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
77499874 AAATGAATAA
* * *
77499884 ATGAAATGATTATATGAATTGGTTATATGGAAGTAGATAT
1 ATGAAATGATTAAATGAATTAGTTATATGGAACTAGATAT
77499924 ATGAAAT-AGTTAAATGAATTAGTTATATGGAACTAGATAT
1 ATGAAATGA-TTAAATGAATTAGTTATATGGAACTAGATAT
77499964 ATGAAATGA
1 ATGAAATGA
77499973 AACATTGGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 1 0.02
40 42 0.95
41 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.20, T:0.35
Consensus pattern (40 bp):
ATGAAATGATTAAATGAATTAGTTATATGGAACTAGATAT
Found at i:77506056 original size:3 final size:3
Alignment explanation
Indices: 77506050--77506109 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
77506040 CCCGCTTTCC
77506050 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
77506098 ATT ATT ATT ATT
1 ATT ATT ATT ATT
77506110 TATCATTCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:77508662 original size:40 final size:40
Alignment explanation
Indices: 77508607--77508787 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
77508597 TATTCGGATG
* * *
77508607 ATATCCGGGCTAAGTCCGGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
77508647 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
77508687 ATATCTGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
77508727 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
77508767 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
77508788 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.10
40 112 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:77510669 original size:20 final size:20
Alignment explanation
Indices: 77510646--77510684 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
77510636 AACACTATTC
77510646 GGGTACTTGATGAACTATCA
1 GGGTACTTGATGAACTATCA
77510666 GGGTACTTGATGAACTATC
1 GGGTACTTGATGAACTATC
77510685 TTGCACACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (20 bp):
GGGTACTTGATGAACTATCA
Found at i:77516848 original size:39 final size:40
Alignment explanation
Indices: 77516768--77516946 Score: 258
Period size: 39 Copynumber: 4.5 Consensus size: 40
77516758 TATTCGGATG
* *
77516768 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
77516808 ATATCCGGGCTAAGTCCCG-AGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
77516847 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
77516887 ATATCCGGGCTAAG-ACCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
77516926 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
77516947 ATACTTGGGT
Statistics
Matches: 126, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
38 6 0.05
39 67 0.53
40 53 0.42
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:77516899 original size:79 final size:79
Alignment explanation
Indices: 77516768--77516946 Score: 256
Period size: 79 Copynumber: 2.3 Consensus size: 79
77516758 TATTCGGATG
** * *
77516768 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCG-AGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAG-ACCGAAGGCA
*
77516832 TTTGTGCTAG-TGACT
65 TTTGTGCGAGTTG-CT
*
77516847 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCGAAGGCAT
77516912 TTGTGCGAGTTGCT
66 TTGTGCGAGTTGCT
*
77516926 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
77516947 ATACTTGGGT
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
78 17 0.19
79 72 0.79
80 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCGAAGGCAT
TTGTGCGAGTTGCT
Found at i:77519347 original size:19 final size:17
Alignment explanation
Indices: 77519325--77519367 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
77519315 TTAAAAATAA
77519325 AAAAAAATATTTTAACTTT
1 AAAAAAATATTTTAA--TT
**
77519344 AAAAATTTATTTTAATT
1 AAAAAAATATTTTAATT
77519361 AAAAAAA
1 AAAAAAA
77519368 AAAGTAACCC
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 7 0.35
19 13 0.65
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAAAAATATTTTAATT
Found at i:77522623 original size:23 final size:23
Alignment explanation
Indices: 77522593--77522644 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
77522583 TGCAACTTGG
77522593 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
77522616 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
77522639 TTTCAT
1 TTTCAT
77522645 CTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:77527072 original size:23 final size:23
Alignment explanation
Indices: 77527042--77527093 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
77527032 TGCAACTTGG
77527042 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
77527065 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
77527088 TTTCAT
1 TTTCAT
77527094 CTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:77529529 original size:29 final size:29
Alignment explanation
Indices: 77529492--77529556 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
77529482 ATAAAACTTG
* * *
77529492 AAAAGTTAAAATAA-TATATAAGTTTTTA
1 AAAAATTAAAAAAATTATATAAATTTTTA
*
77529520 TAAAAATTAAAAAAATTATTTAAATTTTTA
1 -AAAAATTAAAAAAATTATATAAATTTTTA
77529550 AAAAATT
1 AAAAATT
77529557 GCTAAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (29 bp):
AAAAATTAAAAAAATTATATAAATTTTTA
Found at i:77529737 original size:17 final size:18
Alignment explanation
Indices: 77529717--77529766 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
77529707 AATTTAAGGT
77529717 TTTTTAATATTTTTA-AA
1 TTTTTAATATTTTTATAA
* * *
77529734 TTTTAAATA-ATTTATAT
1 TTTTTAATATTTTTATAA
77529751 TTTTTAAT-TTTTTATA
1 TTTTTAATATTTTTATA
77529767 TATTATTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTAATATTTTTATAA
Found at i:77529806 original size:22 final size:21
Alignment explanation
Indices: 77529748--77529804 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
77529738 AAATAATTTA
77529748 TATTTTTTAATTTTTTATATAT
1 TATTTTTT-ATTTTTTATATAT
* **
77529770 TA-TTTTGACATTTTATATAT
1 TATTTTTTATTTTTTATATAT
77529790 TATTTTTTATTTTTT
1 TATTTTTTATTTTTT
77529805 TAATTTTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 13 0.46
21 13 0.46
22 2 0.07
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TATTTTTTATTTTTTATATAT
Found at i:77530370 original size:54 final size:54
Alignment explanation
Indices: 77530311--77530420 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
77530301 ATTGTTTTCT
77530311 TTTCTAAATTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
1 TTTCTAAATTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
77530365 TTTCTAAATTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
1 TTTCTAAATTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
77530419 TT
1 TT
77530421 AAGAACATTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (54 bp):
TTTCTAAATTGCATGAGTTTTTAAACCAATAACTTTCAAATAATATAAAATTAA
Found at i:77532400 original size:49 final size:49
Alignment explanation
Indices: 77532327--77532511 Score: 217
Period size: 49 Copynumber: 3.7 Consensus size: 49
77532317 TAGCCGAAGC
* *
77532327 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *** *
77532376 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * ** *
77532427 TTTCGGGTATGCATAGTAGCCTGCACTTAATACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
77532476 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTAC
77532512 CACGTGACCT
Statistics
Matches: 109, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
49 70 0.64
50 2 0.02
51 37 0.34
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:77532451 original size:100 final size:100
Alignment explanation
Indices: 77532332--77532511 Score: 315
Period size: 100 Copynumber: 1.8 Consensus size: 100
77532322 GAAGCTATCT
* * *
77532332 GGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
77532397 TGCACTTAGTACTACACACATGATCACAGTTTTCG
66 TGCACTTAGTACTACACACATGATCACAGTTTTCG
* *
77532432 GGTATGCATAGTAGCCTGCACTTAATACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
77532497 TGCACTTAGTACTAC
66 TGCACTTAGTACTAC
77532512 CACGTGACCT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 75 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACATGATCACAGTTTTCG
Found at i:77538119 original size:37 final size:37
Alignment explanation
Indices: 77538069--77538218 Score: 246
Period size: 37 Copynumber: 4.1 Consensus size: 37
77538059 CTTTAGCTCA
* * *
77538069 GACAAAATCTCCACACGAAATTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
77538106 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
77538143 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
77538180 GACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
77538217 GA
1 GA
77538219 ATATATTTCC
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 107 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:77538484 original size:47 final size:47
Alignment explanation
Indices: 77538423--77538605 Score: 271
Period size: 47 Copynumber: 3.9 Consensus size: 47
77538413 TACATATATT
* * * *
77538423 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
77538470 TCACATTGGCCATTCGGCCTTATCAC--ACATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
77538515 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
77538562 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
77538606 CACAATTATC
Statistics
Matches: 122, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 41 0.34
47 81 0.66
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:77554652 original size:38 final size:38
Alignment explanation
Indices: 77554600--77554672 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
77554590 ACCAGATTGG
*
77554600 CACCCAATGCCTCATCGGAT-AGTTCGAAGCAAAGTTGA
1 CACCCAATGCCTCATCGGATGAG-CCGAAGCAAAGTTGA
* * *
77554638 CACCCAGTGTCTCATCGGCTGAGCCGAAGCAAAGT
1 CACCCAATGCCTCATCGGATGAGCCGAAGCAAAGT
77554673 GGTACCCAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 28 0.93
39 2 0.07
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (38 bp):
CACCCAATGCCTCATCGGATGAGCCGAAGCAAAGTTGA
Found at i:77554861 original size:18 final size:18
Alignment explanation
Indices: 77554840--77554907 Score: 70
Period size: 17 Copynumber: 3.9 Consensus size: 18
77554830 TTCAAATCAT
77554840 TTTCAATGTCAATTTCAC-
1 TTTCAAT-TCAATTTCACA
*
77554858 TTTCAATTCAAATTCACA
1 TTTCAATTCAATTTCACA
* *
77554876 ATTCAATTCAA-TTCTCA
1 TTTCAATTCAATTTCACA
*
77554893 -TTCAATTCAAATTCA
1 TTTCAATTCAATTTCA
77554908 TTTTTCCACT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
16 10 0.23
17 17 0.39
18 17 0.39
ACGTcount: A:0.35, C:0.22, G:0.01, T:0.41
Consensus pattern (18 bp):
TTTCAATTCAATTTCACA
Found at i:77554868 original size:34 final size:33
Alignment explanation
Indices: 77554830--77554911 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 33
77554820 AAATTCACAT
77554830 TTCAAA-TCATTTTCAATGTCAATT-TCACTTTCAA
1 TTCAAATTCATTTTCAAT-TCAATTCTCA--TTCAA
**
77554864 TTCAAATTCACAATTCAATTCAATTCTCATTCAA
1 TTCAAATTCA-TTTTCAATTCAATTCTCATTCAA
77554898 TTCAAATTCATTTT
1 TTCAAATTCATTTT
77554912 TCCACTTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
33 2 0.05
34 21 0.51
35 9 0.22
36 9 0.22
ACGTcount: A:0.34, C:0.21, G:0.01, T:0.44
Consensus pattern (33 bp):
TTCAAATTCATTTTCAATTCAATTCTCATTCAA
Found at i:77554873 original size:11 final size:11
Alignment explanation
Indices: 77554859--77554907 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
77554849 CAATTTCACT
77554859 TTCAATTCAAA
1 TTCAATTCAAA
77554870 TTCACAATTC-AA
1 TT--CAATTCAAA
**
77554882 TTCAATTCTCA
1 TTCAATTCAAA
77554893 TTCAATTCAAA
1 TTCAATTCAAA
77554904 TTCA
1 TTCA
77554908 TTTTTCCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 6 0.19
11 16 0.50
12 4 0.12
13 6 0.19
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (11 bp):
TTCAATTCAAA
Found at i:77556037 original size:17 final size:18
Alignment explanation
Indices: 77556017--77556054 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
77556007 TTCGAAATAG
77556017 CTTTTG-TTCTTTTTCTT
1 CTTTTGTTTCTTTTTCTT
*
77556034 C-TTTGTTTCTTTTTTTT
1 CTTTTGTTTCTTTTTCTT
77556051 CTTT
1 CTTT
77556055 ATTTCATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 4 0.22
17 12 0.67
18 2 0.11
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (18 bp):
CTTTTGTTTCTTTTTCTT
Found at i:77556059 original size:17 final size:17
Alignment explanation
Indices: 77556023--77556059 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
77556013 ATAGCTTTTG
*
77556023 TTCTTTTTCTTCTTTGT
1 TTCTTTTTCTTCTTTAT
*
77556040 TTCTTTTTTTTCTTTAT
1 TTCTTTTTCTTCTTTAT
77556057 TTC
1 TTC
77556060 ATATATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.03, C:0.16, G:0.03, T:0.78
Consensus pattern (17 bp):
TTCTTTTTCTTCTTTAT
Found at i:77556088 original size:3 final size:3
Alignment explanation
Indices: 77556080--77556118 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
77556070 ATATGTTAGT
*
77556080 TAA TAA TAA TAA TAA TAA TACA TTA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
77556119 AAAATATCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.88
4 2 0.06
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:77556280 original size:15 final size:15
Alignment explanation
Indices: 77556246--77556287 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
77556236 AATATGATAT
*
77556246 TTATAATAATT-TAA
1 TTATAATAATTATTA
77556260 TT-TAATAATTATTA
1 TTATAATAATTATTA
*
77556274 TTATAATAAATATT
1 TTATAATAATTATT
77556288 TTTAGCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 6 0.25
15 10 0.42
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATAATAATTATTA
Found at i:77561385 original size:21 final size:20
Alignment explanation
Indices: 77561355--77561393 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
77561345 TAAAACTTGT
77561355 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
77561375 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
77561394 CTAAATAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:77568820 original size:21 final size:20
Alignment explanation
Indices: 77568782--77568820 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
77568772 CAAAACTTGT
*
77568782 ATAACTATCATCATACATTC
1 ATAACTATCATCAAACATTC
*
77568802 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
77568821 CAAAATACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:77584384 original size:4 final size:4
Alignment explanation
Indices: 77584363--77584433 Score: 51
Period size: 4 Copynumber: 17.8 Consensus size: 4
77584353 ATTTCTCCTT
* *
77584363 TTTC TTTT TTTC -TTC TTTC TTTC TTTC TATTC TGTT- TCTTC TTTA TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC T-TTC T-TTC TTTC TTTC
*
77584412 TTT- TTCC TGTT- TTTC TTTC TTT
1 TTTC TTTC T-TTC TTTC TTTC TTT
77584434 TATTTATTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
3 7 0.13
4 38 0.72
5 8 0.15
ACGTcount: A:0.03, C:0.20, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:77584406 original size:26 final size:24
Alignment explanation
Indices: 77584371--77584433 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 24
77584361 TTTTTCTTTT
*
77584371 TTTCTTCTTTCTTTCTTTCTATTCTG
1 TTTCTTCTTTCTTTCTTT-T-TCCTG
*
77584397 TTTCTTCTTTATTTCTTTTTCCTG
1 TTTCTTCTTTCTTTCTTTTTCCTG
77584421 TTT-TTCTTTCTTT
1 TTTCTTCTTTCTTT
77584434 TATTTATTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.26
24 7 0.21
25 1 0.03
26 17 0.50
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.73
Consensus pattern (24 bp):
TTTCTTCTTTCTTTCTTTTTCCTG
Found at i:77584411 original size:22 final size:22
Alignment explanation
Indices: 77584378--77584437 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
77584368 TTTTTTCTTC
77584378 TTTCTTTCTTTCTATT-CTGTT
1 TTTCTTTCTTTCTATTCCTGTT
* *
77584399 TCTTCTTTATTTCTTTTTCCTGTT
1 T-TTCTTTCTTTC-TATTCCTGTT
77584423 TTTCTTTCTTT-TATT
1 TTTCTTTCTTTCTATT
77584438 TATTCTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
21 4 0.12
22 10 0.31
23 12 0.38
24 6 0.19
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.73
Consensus pattern (22 bp):
TTTCTTTCTTTCTATTCCTGTT
Found at i:77590985 original size:17 final size:17
Alignment explanation
Indices: 77590952--77590985 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
77590942 TTTTATTGTC
*
77590952 ATTACTACTATCGTATT
1 ATTACTACTATCATATT
*
77590969 ATTACTACTATTATATT
1 ATTACTACTATCATATT
77590986 TTCATCTACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTACTACTATCATATT
Found at i:77591030 original size:37 final size:37
Alignment explanation
Indices: 77590979--77591052 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
77590969 ATTACTACTA
77590979 TTATATTTTCATCTACATAGATTTTC-TTGTTACTTAT
1 TTATATTTTCATCTACATAGATTTTCGTTGTTA-TTAT
** *
77591016 TTATA-TTTCTATCTATTTATATTTTCGTTGTTATTAT
1 TTATATTTTC-ATCTACATAGATTTTCGTTGTTATTAT
77591053 ATTTTAAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 4 0.12
37 22 0.69
38 6 0.19
ACGTcount: A:0.23, C:0.11, G:0.05, T:0.61
Consensus pattern (37 bp):
TTATATTTTCATCTACATAGATTTTCGTTGTTATTAT
Found at i:77593831 original size:47 final size:47
Alignment explanation
Indices: 77593762--77594504 Score: 1189
Period size: 47 Copynumber: 15.6 Consensus size: 47
77593752 AGTATATGTG
* *
77593762 GAATGTGAAAGTATATATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
77593811 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
77593858 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
77593905 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
77593952 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
77594001 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
77594048 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
77594095 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
77594142 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
77594191 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
77594238 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
77594287 GAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
77594334 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
* *
77594383 GAATGTGAAGGTGTATATATGTGATAAGGCCTAATAGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * * * * * *
77594430 GAATGTGAAAGTGTATGTATGTGACAGGGCCGAGTGGCCAACGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
* * *
77594477 GGACGTGAAAGTGTATAAATGTGATAAG
1 GAATGTGAAAGTGTATATATGTGATAAG
77594505 TCCCGAAGGG
Statistics
Matches: 651, Mismatches: 35, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
47 458 0.70
49 193 0.30
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Done.