Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 20 of 128
Found at i:5927220 original size:43 final size:43
Alignment explanation
Indices: 5927173--5927308 Score: 125
Period size: 43 Copynumber: 3.2 Consensus size: 43
5927163 CAACCGATGG
5927173 AGGCAAGGCTTTGTTTTCGATCTACTTCACTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTACTTCACTGTTAACGCAGGA
* * ** * * * * *
5927216 AGGCAA-GATCTGCTTTTTTAGCCAGCTCCACTG-CAAC-CGATGA
1 AGGCAAGGCTTTG-TTTTCGATCTA-CTTCACTGTTAACGC-AGGA
* *
5927259 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA
1 AGGCAAGGCTTTGTTTTCGATCTACTTCACTGTTAACGCAGGA
5927302 AGGCAAG
1 AGGCAAG
5927309 ATCTGCTTCT
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
42 11 0.16
43 44 0.66
44 12 0.18
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCGATCTACTTCACTGTTAACGCAGGA
Found at i:5928772 original size:21 final size:21
Alignment explanation
Indices: 5928746--5928792 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
5928736 GGTATAGCAA
5928746 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
5928767 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
5928788 GATCA
1 GATCA
5928793 AATATTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:5928896 original size:13 final size:13
Alignment explanation
Indices: 5928878--5928930 Score: 70
Period size: 13 Copynumber: 4.0 Consensus size: 13
5928868 TTAGCCTCTC
5928878 CATTTTTCATTTT
1 CATTTTTCATTTT
5928891 CATTTTTCATTTT
1 CATTTTTCATTTT
* * *
5928904 TAATTCTCATTTTT
1 CATTTTTCA-TTTT
5928918 CATTTTTCATTTT
1 CATTTTTCATTTT
5928931 TTTTGACTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
13 23 0.70
14 10 0.30
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:5928901 original size:20 final size:20
Alignment explanation
Indices: 5928878--5928930 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
5928868 TTAGCCTCTC
5928878 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTTTCATTTTT
* *
5928898 CATTTTTAATTCTCATTTTT
1 CATTTTTCATTTTCATTTTT
5928918 CATTTTTCATTTT
1 CATTTTTCATTTT
5928931 TTTTGACTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (20 bp):
CATTTTTCATTTTCATTTTT
Found at i:5928932 original size:8 final size:7
Alignment explanation
Indices: 5928878--5928931 Score: 76
Period size: 7 Copynumber: 8.0 Consensus size: 7
5928868 TTAGCCTCTC
5928878 CATTTTT
1 CATTTTT
5928885 CA-TTTT
1 CATTTTT
5928891 CATTTTT
1 CATTTTT
5928898 CATTTTT
1 CATTTTT
* *
5928905 -AATTCT
1 CATTTTT
5928911 CATTTTT
1 CATTTTT
5928918 CATTTTT
1 CATTTTT
5928925 CATTTTT
1 CATTTTT
5928932 TTTGACTCAG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 10 0.24
7 31 0.76
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:5929805 original size:24 final size:24
Alignment explanation
Indices: 5929758--5929808 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
5929748 TTGATCTTGA
* *
5929758 TTTTGATTTTTTCTTCTTTCTTTT
1 TTTTGATTTTTTATTCTTTATTTT
* *
5929782 TTTTTATTTTTTATTTTTTATTTT
1 TTTTGATTTTTTATTCTTTATTTT
5929806 TTT
1 TTT
5929809 CATTTTCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.08, C:0.06, G:0.02, T:0.84
Consensus pattern (24 bp):
TTTTGATTTTTTATTCTTTATTTT
Found at i:5929814 original size:7 final size:7
Alignment explanation
Indices: 5929781--5929807 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
5929771 TTCTTTCTTT
5929781 TTTTTTA
1 TTTTTTA
5929788 TTTTTTA
1 TTTTTTA
5929795 TTTTTTA
1 TTTTTTA
5929802 TTTTTT
1 TTTTTT
5929808 TCATTTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:5932070 original size:39 final size:40
Alignment explanation
Indices: 5932013--5932092 Score: 153
Period size: 39 Copynumber: 2.0 Consensus size: 40
5932003 GTTTCTCGGA
5932013 ATATATTCGGGAAGTCGTATTATTTTCCACTTTATCAAGG
1 ATATATTCGGGAAGTCGTATTATTTTCCACTTTATCAAGG
5932053 ATATATTC-GGAAGTCGTATTATTTTCCACTTTATCAAGG
1 ATATATTCGGGAAGTCGTATTATTTTCCACTTTATCAAGG
5932092 A
1 A
5932093 ATTCGTATTC
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 32 0.80
40 8 0.20
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (40 bp):
ATATATTCGGGAAGTCGTATTATTTTCCACTTTATCAAGG
Found at i:5937409 original size:43 final size:42
Alignment explanation
Indices: 5937369--5937690 Score: 357
Period size: 43 Copynumber: 7.5 Consensus size: 42
5937359 ATAAACGCTA
*
5937369 CTATAGATCAGGACCTTTGGCGGCGCTTTCTCCACAAACGCCG
1 CTATAGATCAGGACCTTTAGCGGCGCTTT-TCCACAAACGCCG
* *
5937412 CTATAGATCAAGACCTTTAGCGGTGCTTTTCCCACAAACGCCG
1 CTATAGATCAGGACCTTTAGCGGCGCTTTT-CCACAAACGCCG
* *
5937455 CTATAGATCAAGACCTTTATCGGCGCTTTTCCCACAAACGCCG
1 CTATAGATCAGGACCTTTAGCGGCGCTTTT-CCACAAACGCCG
* *
5937498 CTATAGATCAAGACCTTTAGCGGCGCTTTTTCCGA-AAACGCTG
1 CTATAGATCAGGACCTTTAGCGGCGC-TTTTCC-ACAAACGCCG
* * *
5937541 CTATAGCTC-GAGACCTTTAGCGACACTTTTTCCACAAACGCCG
1 CTATAGATCAG-GACCTTTAGCGGCGC-TTTTCCACAAACGCCG
* * * *
5937584 CTATAGCTC-GAGACCTTTAACGGCACTTTTTCCATAAACGCCG
1 CTATAGATCAG-GACCTTTAGCGGCGC-TTTTCCACAAACGCCG
*
5937627 CTATAGCTC-GAGACCTTTAGCGGCGCTTTTCCCACAAACGCCG
1 CTATAGATCAG-GACCTTTAGCGGCGCTTTT-CCACAAACGCCG
* *
5937670 CTATAGAACA-AACCTTTAGCG
1 CTATAGATCAGGACCTTTAGCG
5937691 ACGCACCTGC
Statistics
Matches: 251, Mismatches: 21, Indels: 15
0.87 0.07 0.05
Matches are distributed among these distances:
42 16 0.06
43 230 0.92
44 5 0.02
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (42 bp):
CTATAGATCAGGACCTTTAGCGGCGCTTTTCCACAAACGCCG
Found at i:5937506 original size:86 final size:85
Alignment explanation
Indices: 5937369--5937690 Score: 423
Period size: 86 Copynumber: 3.8 Consensus size: 85
5937359 ATAAACGCTA
* *
5937369 CTATAGATCAGGACCTTTGGCGGCGC-TTTCTCCACAAACGCCGCTATAGATCAAGACCTTTAGC
1 CTATAGATCAAGACCTTTAGCGGCGCTTTTC-CCACAAACGCCGCTATAGATCAAGACCTTTAGC
*
5937433 GGTGCTTTTCCCACAAACGCCG
65 GGCGCTTTTCCCA-AAACGCCG
*
5937455 CTATAGATCAAGACCTTTATCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCG
1 CTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCG
* *
5937520 GCGCTTTTTCCGAAAACGCTG
66 GCGC-TTTTCCCAAAACGCCG
* * * * * * * *
5937541 CTATAGCTCGAGACCTTTAGCGACACTTTTTCCACAAACGCCGCTATAGCTCGAGACCTTTAACG
1 CTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCG
* *
5937606 GCACTTTTTCCATAAACGCCG
66 GCGCTTTTCCCA-AAACGCCG
* * *
5937627 CTATAGCTCGAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACAA-ACCTTTAGCG
1 CTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCG
5937691 ACGCACCTGC
Statistics
Matches: 207, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
85 15 0.07
86 181 0.87
87 11 0.05
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (85 bp):
CTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCG
GCGCTTTTCCCAAAACGCCG
Found at i:5937598 original size:129 final size:128
Alignment explanation
Indices: 5937369--5937692 Score: 434
Period size: 129 Copynumber: 2.5 Consensus size: 128
5937359 ATAAACGCTA
* * *
5937369 CTATAGATCAGGACCTTTGGCGGCGCTTTCTCCACAAACGCCGCTATAGATCAAGACCTTTAGCG
1 CTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATC-AGACCTTTAGCG
*** * *
5937434 GTGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTATCGGCGCTTTTCCCACAAACGCCG
65 ACACTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAACGGCACTTTTCCCACAAACGCCG
* *
5937498 CTATAGATCAAGACCTTTAGCGGCGCTTTTTCCGA-AAACGCTGCTATAGCTCGAGACCTTTAGC
1 CTATAGATCAAGACCTTTAGCGGCGCTTTTTCC-ACAAACGCCGCTATAGATC-AGACCTTTAGC
* * * * *
5937562 GACACTTTTTCCACAAACGCCGCTATAGCTCGAGACCTTTAACGGCACTTTTTCCATAAACGCCG
64 GACACTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAACGGCACTTTTCCCACAAACGCCG
* * * * *
5937627 CTATAGCTCGAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAACAAACCTTTAGCGA
1 CTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAGACCTTTAGCGA
5937692 C
66 C
5937693 GCACCTGCCT
Statistics
Matches: 170, Mismatches: 23, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
128 14 0.08
129 155 0.91
130 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (128 bp):
CTATAGATCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAGATCAGACCTTTAGCGA
CACTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAACGGCACTTTTCCCACAAACGCCG
Found at i:5942110 original size:7 final size:7
Alignment explanation
Indices: 5942098--5942259 Score: 71
Period size: 7 Copynumber: 22.9 Consensus size: 7
5942088 ACGAAGAACT
5942098 TAAACCC
1 TAAACCC
5942105 TAAACCC
1 TAAACCC
5942112 TAAACCC
1 TAAACCC
*
5942119 TTAACCC
1 TAAACCC
*
5942126 TTAACCCC
1 -TAAACCC
*
5942134 T-ATCCC
1 TAAACCC
5942140 ATAAACCC
1 -TAAACCC
***
5942148 TAAATTA
1 TAAACCC
* *
5942155 TAAAACA
1 TAAACCC
5942162 TAAATCCC
1 TAAA-CCC
*
5942170 TAACCCC
1 TAAACCC
*
5942177 TAACCCC
1 TAAACCC
*
5942184 T-AACCT
1 TAAACCC
*
5942190 TTAACCC
1 TAAACCC
5942197 -ATAACCC
1 TA-AACCC
*
5942204 TTAAACCT
1 -TAAACCC
5942212 TAAACCC
1 TAAACCC
*
5942219 T-AACCTT
1 TAAACC-C
*
5942226 TAAACCA
1 TAAACCC
* *
5942233 TAAATCA
1 TAAACCC
*
5942240 TAAACCA
1 TAAACCC
*
5942247 TAATCCC
1 TAAACCC
5942254 TAAACC
1 TAAACC
5942260 ATCGGAGTAA
Statistics
Matches: 119, Mismatches: 26, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
6 12 0.10
7 85 0.71
8 21 0.18
9 1 0.01
ACGTcount: A:0.41, C:0.36, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:5942244 original size:35 final size:35
Alignment explanation
Indices: 5942138--5942256 Score: 105
Period size: 35 Copynumber: 3.4 Consensus size: 35
5942128 AACCCCTATC
* * * *
5942138 CCATAAACCCTAA-ATTATAAAACATAAATCCCTAAC
1 CCATAAACCCTAACCTT-TAAACCATAAAT-CATAAA
* * * ** *
5942174 CCCTAACCCCTAACCTTTAACCCATAACCCTTAAA
1 CCATAAACCCTAACCTTTAAACCATAAATCATAAA
*
5942209 CCTTAAACCCTAACCTTTAAACCATAAATCATAAA
1 CCATAAACCCTAACCTTTAAACCATAAATCATAAA
*
5942244 CCATAATCCCTAA
1 CCATAAACCCTAA
5942257 ACCATCGGAG
Statistics
Matches: 65, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
35 44 0.68
36 19 0.29
37 2 0.03
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.24
Consensus pattern (35 bp):
CCATAAACCCTAACCTTTAAACCATAAATCATAAA
Found at i:5943364 original size:41 final size:41
Alignment explanation
Indices: 5943297--5943620 Score: 341
Period size: 41 Copynumber: 7.9 Consensus size: 41
5943287 GCTAAAAATA
*
5943297 GAGCATTAGCGACGCTTTCTCAAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCGCTTTCTC-AAAAACGCCGCTAAAGCCCT
* * *
5943339 GAGCATTAGTGGTGCTTTCTCAAAAAACGCCGCTAAATCCCT
1 GAGCATTAGCGGCGCTTTCTC-AAAAACGCCGCTAAAGCCCT
* * *
5943381 GAGCATTAGCGGCGCTTTCTCAAAAATGTCGTTAAAGCCAC-
1 GAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC-CT
* *
5943422 GAGCATTAGCGACG-TTTCCTCAAAAACGCCGCTAAAGCCCC
1 GAGCATTAGCGGCGCTTT-CTCAAAAACGCCGCTAAAGCCCT
* * * * * *
5943463 AAGCATTAGCGGCGCCTCCTCAAAAATGCCGCTAAATCCCC
1 GAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCT
* * * *
5943504 GAGCATTAGCGGCGCCTCCTCAAAAACACCGCTATAGCCCT
1 GAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCT
* *
5943545 AAGCATTAGCGGCGCTTT-TCCAAAAACGCCGCTAAATCCCT
1 GAGCATTAGCGGCGCTTTCT-CAAAAACGCCGCTAAAGCCCT
* * * * *
5943586 GAGCATTAGTGGCTCTTTAT-TAAAACGCTGCTAAA
1 GAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAA
5943621 TCCCCGAAAG
Statistics
Matches: 239, Mismatches: 37, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
40 18 0.08
41 161 0.67
42 60 0.25
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCT
Found at i:5949580 original size:12 final size:13
Alignment explanation
Indices: 5949556--5949584 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
5949546 GGGCTATAAC
5949556 TATTGCATTTATT
1 TATTGCATTTATT
5949569 TATTGC-TTTATT
1 TATTGCATTTATT
5949581 TATT
1 TATT
5949585 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:5959487 original size:13 final size:13
Alignment explanation
Indices: 5959461--5959504 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
5959451 TAATTGTGTT
5959461 AAATGTGTAAATG
1 AAATGTGTAAATG
5959474 AAATG-GTAAGATG
1 AAATGTGTAA-ATG
*
5959487 AAATGTTTAAATG
1 AAATGTGTAAATG
5959500 AAATG
1 AAATG
5959505 GTTTTACGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 4 0.14
13 21 0.75
14 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.23, T:0.30
Consensus pattern (13 bp):
AAATGTGTAAATG
Found at i:5962715 original size:61 final size:60
Alignment explanation
Indices: 5962598--5962756 Score: 169
Period size: 61 Copynumber: 2.6 Consensus size: 60
5962588 CGCACGGGTA
* * *
5962598 AGGGACACGGACGTGTGCCCAGGCCGTGTAACTCGCAGTTTGTGGTACAAGACCACATAGCT
1 AGGGACACGG-GGTGTGCCCAGGCCGTGTGACTCACAGTTTGTGGTACAAGACCACA-AGCT
* * *
5962660 AGGGACACGGGGTGTGCCCAGGCTGTGTGACTCACTA-TTTGTGGTACAA-AGCCACACGGT
1 AGGGACACGGGGTGTGCCCAGGCCGTGTGACTCAC-AGTTTGTGGTACAAGA-CCACAAGCT
* * * *
5962720 AGGGACATGGGAGTATACCCAGGCCGTGTGAGTCACA
1 AGGGACACGGG-GTGTGCCCAGGCCGTGTGACTCACA
5962757 TAGGCAGGGA
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
60 14 0.17
61 58 0.70
62 11 0.13
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.19
Consensus pattern (60 bp):
AGGGACACGGGGTGTGCCCAGGCCGTGTGACTCACAGTTTGTGGTACAAGACCACAAGCT
Found at i:5969855 original size:173 final size:173
Alignment explanation
Indices: 5969564--5969882 Score: 462
Period size: 173 Copynumber: 1.8 Consensus size: 173
5969554 GCTGCTGAGG
** * * * *
5969564 CCACACGGCCAGTTACACGGGCGTGTTCCCAGGCCGTGTGGTTGGCCGTGTAACTTACTGTTCAT
1 CCACACGGCCAGGGACACGGGCGTGTGCCCAAGCCGTGTGGTTGGCCATGTAACTCACTGTTCAT
* * *
5969629 CAATTTGAGGCCACACGGGAAAGGTACACAGCGGTGTGTCTAGGCCTTGTGTGGCCATATTAGAG
66 CAATTTGAGGCCACACAGGAAAGGCACACAGCGCTGTGTCTAGGCCTTGTGTGGCCATATTAGAG
* *
5969694 CAGAGTTGGGACGGGTGTGTACCTCACTGTTTATGGTACAAGA
131 CAGAGTTCGCACGGGTGTGTACCTCACTGTTTATGGTACAAGA
5969737 CCACACGGCCAGGGACACGGGCGTGTGCCCAAGCCGTGTGGTTGGCCATGTAACTCACTGTTCAT
1 CCACACGGCCAGGGACACGGGCGTGTGCCCAAGCCGTGTGGTTGGCCATGTAACTCACTGTTCAT
* * **
5969802 CAATTTGGGGCCACACAGGCAAGGCACATGGTC-CTGTGTCTAGG-CTGTGTGTGGCCATATTAG
66 CAATTTGAGGCCACACAGGAAAGGCACACAG-CGCTGTGTCTAGGCCT-TGTGTGGCCATATTAG
*
5969865 TGCAGAGTTCGCACGGGT
129 AGCAGAGTTCGCACGGGT
5969883 AAGGGACATG
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
172 2 0.02
173 125 0.98
174 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (173 bp):
CCACACGGCCAGGGACACGGGCGTGTGCCCAAGCCGTGTGGTTGGCCATGTAACTCACTGTTCAT
CAATTTGAGGCCACACAGGAAAGGCACACAGCGCTGTGTCTAGGCCTTGTGTGGCCATATTAGAG
CAGAGTTCGCACGGGTGTGTACCTCACTGTTTATGGTACAAGA
Found at i:5970426 original size:62 final size:62
Alignment explanation
Indices: 5970360--5970574 Score: 324
Period size: 62 Copynumber: 3.5 Consensus size: 62
5970350 CACACTGGTA
5970360 AGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACAGTTTGTGGTACAAGACCACACAACC
1 AGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACAGTTTGTGGTACAAGACCACACAACC
5970422 AGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACAGTTTGTGGTACAAGACCACACAACC
1 AGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACAGTTTGTGGTACAAGACCACACAACC
** * * **
5970484 AGGGACACGGGCGTGTGCTTAGGCTGTGTAACTCACTGTTTGTGGTACAA-AGCCACACGGCC
1 AGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACAGTTTGTGGTACAAGA-CCACACAACC
* * * *
5970546 AGGTACATGGGTGTGTACCCAGGCCGTGT
1 AGGGACACGGGCGTGTGCCCAGGCCGTGT
5970575 GAGTCACATG
Statistics
Matches: 139, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
61 1 0.01
62 138 0.99
ACGTcount: A:0.23, C:0.27, G:0.31, T:0.19
Consensus pattern (62 bp):
AGGGACACGGGCGTGTGCCCAGGCCGTGTAACTCACAGTTTGTGGTACAAGACCACACAACC
Found at i:5975774 original size:17 final size:18
Alignment explanation
Indices: 5975736--5975777 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
5975726 CCTATCGTGG
*
5975736 TTTAAAAAGCTATTCCCT
1 TTTAAAAAGCTATTACCT
*
5975754 TTTAAAAAGTTATTACC-
1 TTTAAAAAGCTATTACCT
5975771 TTTAAAA
1 TTTAAAA
5975778 CCTTATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (18 bp):
TTTAAAAAGCTATTACCT
Found at i:5976491 original size:22 final size:22
Alignment explanation
Indices: 5976448--5976512 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
5976438 TGCTAGTAAC
* * *
5976448 CAGAATGGCTAAGAGCCGTAAA
1 CAGAATAGCTAAAAGCCATAAA
* * *
5976470 CAGGATAGCTATAAGCTATAAA
1 CAGAATAGCTAAAAGCCATAAA
*
5976492 CAGAATGGCTAAAAGCCATAA
1 CAGAATAGCTAAAAGCCATAA
5976513 GTACAGTAAT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.17
Consensus pattern (22 bp):
CAGAATAGCTAAAAGCCATAAA
Found at i:5976560 original size:32 final size:32
Alignment explanation
Indices: 5976503--5976581 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
5976493 AGAATGGCTA
*
5976503 AAAGCCATAAGTA-CAGTAATATGATTGGCAC
1 AAAGCCATAAGTAGCAGTAATATGATTGGAAC
* *
5976534 AAAGCCATTAGTAGCAGTGATATGATTGGAAC
1 AAAGCCATAAGTAGCAGTAATATGATTGGAAC
*
5976566 ACAA-CCATCAGTAGCA
1 A-AAGCCATAAGTAGCA
5976582 TCGCAACAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 12 0.29
32 28 0.67
33 2 0.05
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.22
Consensus pattern (32 bp):
AAAGCCATAAGTAGCAGTAATATGATTGGAAC
Found at i:5976611 original size:26 final size:26
Alignment explanation
Indices: 5976581--5976634 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
5976571 CATCAGTAGC
5976581 ATCGCAACAAAGCTGCCAGCAACAGT
1 ATCGCAACAAAGCTGCCAGCAACAGT
** * *
5976607 ATCGCAGGAAAGCTGCTAGTAACAGT
1 ATCGCAACAAAGCTGCCAGCAACAGT
5976633 AT
1 AT
5976635 ATGTGGCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (26 bp):
ATCGCAACAAAGCTGCCAGCAACAGT
Found at i:5976777 original size:24 final size:24
Alignment explanation
Indices: 5976750--5976807 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
5976740 CCATGCTCAG
5976750 AATCAGTCATACAAATCACAAACA
1 AATCAGTCATACAAATCACAAACA
* **
5976774 AATCAGTCATACTAATCGTAAACA
1 AATCAGTCATACAAATCACAAACA
5976798 AA-CTAGTCAT
1 AATC-AGTCAT
5976808 TTACATCACG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 1 0.03
24 29 0.97
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.22
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAAACA
Found at i:5976911 original size:53 final size:50
Alignment explanation
Indices: 5976854--5977023 Score: 171
Period size: 53 Copynumber: 3.2 Consensus size: 50
5976844 GGCAAAATAG
* *
5976854 TCATTTACCCTCCAGGGACATTACGGTCATTTAACCTTACAGGGGTATTTCGA
1 TCATTTACCCT-CAGGG-CATTACGGTCATTTAACC-TACAGGGGCATTACGA
** *
5976907 TCATTTAGCCCTGTGGGGCATTACGGTCATTTTAACCTACAGGGGCATTACGG
1 TCATTTA-CCCT-CAGGGCATTACGGTCA-TTTAACCTACAGGGGCATTACGA
* *
5976960 TCATTTTACCCTACAGGGCATTACAGTCATTTTACCCTACAGGGGCATTAC-A
1 TCA-TTTACCCT-CAGGGCATTACGGTCA-TTTAACCTACAGGGGCATTACGA
5977012 GTCATTTTACCC
1 -TCA-TTTACCC
5977024 ATCGGAGGTA
Statistics
Matches: 101, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
53 83 0.82
54 18 0.18
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (50 bp):
TCATTTACCCTCAGGGCATTACGGTCATTTAACCTACAGGGGCATTACGA
Found at i:5976951 original size:27 final size:27
Alignment explanation
Indices: 5976853--5977023 Score: 197
Period size: 27 Copynumber: 6.4 Consensus size: 27
5976843 GGGCAAAATA
* *
5976853 GTCA-TTTACCCTCCAGGGACATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
5976879 GTCATTTAACCTTACAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACG
* **
5976906 ATCA-TTTAGCCCT-GTGGGGCATTACG
1 GTCATTTTA-CCCTACAGGGGCATTACG
*
5976932 GTCATTTTAACCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
5976959 GTCATTTTACCCTACA-GGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
*
5976985 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
5977012 GTCATTTTACCC
1 GTCATTTTACCC
5977024 ATCGGAGGTA
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
26 47 0.39
27 74 0.61
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:5977045 original size:27 final size:27
Alignment explanation
Indices: 5977015--5977165 Score: 124
Period size: 27 Copynumber: 5.3 Consensus size: 27
5977005 CATTACAGTC
5977015 ATTTTACCCATCGGAGGTATTTCGATA
1 ATTTTACCCATCGGAGGTATTTCGATA
* *
5977042 ATTTTACCCAT-TGAGGGTATTTCGCTA
1 ATTTTACCCATCGGA-GGTATTTCGATA
* * *
5977069 ATTTTACCAATTAAGGGTATCGTGGGTATTTTGATA
1 ATTTTACCCA-T--CGG-A-----GGTATTTCGATA
* *
5977105 ATTTTACCCATCGGGGGTATTTCGTTA
1 ATTTTACCCATCGGAGGTATTTCGATA
* *
5977132 ATTTTACCCTTCGAAGGTATTTCGATA
1 ATTTTACCCATCGGAGGTATTTCGATA
5977159 ATTTTAC
1 ATTTTAC
5977166 GGCCCAAGCC
Statistics
Matches: 99, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
26 2 0.02
27 71 0.72
28 1 0.01
31 1 0.01
32 1 0.01
33 2 0.02
35 1 0.01
36 20 0.20
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (27 bp):
ATTTTACCCATCGGAGGTATTTCGATA
Found at i:5983537 original size:29 final size:29
Alignment explanation
Indices: 5983496--5983551 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
5983486 AACTTAATAG
*
5983496 ACACATTTACGAACATAGTTCACCAAAAC
1 ACACATATACGAACATAGTTCACCAAAAC
*
5983525 ACACATATGCGAACATAGTTCACCAAA
1 ACACATATACGAACATAGTTCACCAAA
5983552 GAAATAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.45, C:0.27, G:0.09, T:0.20
Consensus pattern (29 bp):
ACACATATACGAACATAGTTCACCAAAAC
Found at i:5985904 original size:23 final size:23
Alignment explanation
Indices: 5985878--5985953 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
5985868 ATAAGTGTCT
* * *
5985878 CACTGGTATGTAGCCAAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
*
5985901 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
5985924 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
5985947 CACTGAT
1 CACTGAT
5985954 CAATAACTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:5988566 original size:23 final size:23
Alignment explanation
Indices: 5988540--5988614 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
5988530 TAAGTTCCTT
* *
5988540 ACTGGTATGTAGCCAAAGCTACC
1 ACTGATATGTAGCCGAAGCTACC
*
5988563 ACTGATATGTAGCCGTAGCTACC
1 ACTGATATGTAGCCGAAGCTACC
* *
5988586 ATTGAAATGTAGCCGAAGCTACC
1 ACTGATATGTAGCCGAAGCTACC
5988609 ACTGAT
1 ACTGAT
5988615 CAATAATACT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (23 bp):
ACTGATATGTAGCCGAAGCTACC
Found at i:5997261 original size:14 final size:14
Alignment explanation
Indices: 5997230--5997268 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
5997220 TTCAACCAAT
*
5997230 ATAATA-ATAAAAA
1 ATAATATATAATAA
5997243 ATAATATATAATAA
1 ATAATATATAATAA
*
5997257 TTAATATATAAT
1 ATAATATATAAT
5997269 GTACTACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATATATAATAA
Found at i:6006087 original size:7 final size:7
Alignment explanation
Indices: 6006075--6006190 Score: 99
Period size: 7 Copynumber: 16.6 Consensus size: 7
6006065 AGATTTAAAA
6006075 GAGAATT
1 GAGAATT
6006082 GAGAATT
1 GAGAATT
*
6006089 GAGATTT
1 GAGAATT
*
6006096 AAGAATT
1 GAGAATT
*
6006103 AAGAATT
1 GAGAATT
*
6006110 GAGGATT
1 GAGAATT
**
6006117 GATTATT
1 GAGAATT
6006124 GAGAATT
1 GAGAATT
*
6006131 GAGCATT
1 GAGAATT
6006138 GA-AGATT
1 GAGA-ATT
*
6006145 CAGAATT
1 GAGAATT
*
6006152 GAAAATT
1 GAGAATT
*
6006159 GAAAATT
1 GAGAATT
* *
6006166 AAGGATT
1 GAGAATT
*
6006173 GAAAATT
1 GAGAATT
6006180 GAGAATT
1 GAGAATT
6006187 GAGA
1 GAGA
6006191 CTATAGGATT
Statistics
Matches: 86, Mismatches: 21, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
7 85 0.99
8 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.24, T:0.30
Consensus pattern (7 bp):
GAGAATT
Found at i:6007634 original size:18 final size:18
Alignment explanation
Indices: 6007611--6007659 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
6007601 AATCATGTTG
6007611 TTCATTTTCAAAACATTA
1 TTCATTTTCAAAACATTA
* * *
6007629 TTCATTTACAAATCGTTA
1 TTCATTTTCAAAACATTA
*
6007647 TTCAATTTCAAAA
1 TTCATTTTCAAAA
6007660 TGTTTTCTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (18 bp):
TTCATTTTCAAAACATTA
Found at i:6008224 original size:23 final size:24
Alignment explanation
Indices: 6008174--6008266 Score: 95
Period size: 23 Copynumber: 3.9 Consensus size: 24
6008164 AAAATCCTAC
* * *
6008174 CCATCCAGCCTCTACACACCAT-CT
1 CCATCCAACC-CTACACTCTATGCT
6008198 CCATCCAACCCTACACTCTATGC-
1 CCATCCAACCCTACACTCTATGCT
*
6008221 CCATCCAGCCTCTACACATC-AT-CT
1 CCATCCAACC-CTACAC-TCTATGCT
6008245 CCATCCAACCCTACACTCTATG
1 CCATCCAACCCTACACTCTATG
6008267 TGGGGATATA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
22 2 0.03
23 27 0.47
24 27 0.47
25 2 0.03
ACGTcount: A:0.26, C:0.47, G:0.04, T:0.23
Consensus pattern (24 bp):
CCATCCAACCCTACACTCTATGCT
Found at i:6008226 original size:47 final size:47
Alignment explanation
Indices: 6008173--6008266 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
6008163 AAAAATCCTA
6008173 CCCATCCAGCCTCTACACACCATCTCCATCCAACCCTACACTCTATG
1 CCCATCCAGCCTCTACACACCATCTCCATCCAACCCTACACTCTATG
*
6008220 CCCATCCAGCCTCTACACATCATCTCCATCCAACCCTACACTCTATG
1 CCCATCCAGCCTCTACACACCATCTCCATCCAACCCTACACTCTATG
6008267 TGGGGATATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.26, C:0.48, G:0.04, T:0.22
Consensus pattern (47 bp):
CCCATCCAGCCTCTACACACCATCTCCATCCAACCCTACACTCTATG
Found at i:6008248 original size:24 final size:23
Alignment explanation
Indices: 6008174--6008260 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 23
6008164 AAAATCCTAC
* *
6008174 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACC-CTACACATCATCT
6008198 CCATCCAACCCTACAC-TCTATGC-
1 CCATCCAACCCTACACATC-AT-CT
*
6008221 CCATCCAGCCTCTACACATCATCT
1 CCATCCAACC-CTACACATCATCT
6008245 CCATCCAACCCTACAC
1 CCATCCAACCCTACAC
6008261 TCTATGTGGG
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.02
23 24 0.44
24 27 0.50
25 2 0.04
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.21
Consensus pattern (23 bp):
CCATCCAACCCTACACATCATCT
Found at i:6019529 original size:86 final size:87
Alignment explanation
Indices: 6019421--6019598 Score: 322
Period size: 86 Copynumber: 2.1 Consensus size: 87
6019411 TGTTTTATAA
6019421 GGTAAATTTGAATTGTGTTAAATGAATTATTACATTCAAAATTAAAATATTTATAACTTATAAAA
1 GGTAAATTTGAATTGTGTTAAATGAATTATTACATTCAAAATTAAAATATTTATAACTTATAAAA
6019486 TTCAAAATTATCTTAATCTGTC
66 TTCAAAATTATCTTAATCTGTC
* *
6019508 GGTAAATTTG-ATTGTTTTAAATTAATTATTACATTCAAAATTAAAATATTTATAACTTATAAAA
1 GGTAAATTTGAATTGTGTTAAATGAATTATTACATTCAAAATTAAAATATTTATAACTTATAAAA
6019572 TTCAAAATTATCTTAATCTGTC
66 TTCAAAATTATCTTAATCTGTC
*
6019594 TGTAA
1 GGTAA
6019599 CACCTCTTGC
Statistics
Matches: 88, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
86 78 0.89
87 10 0.11
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (87 bp):
GGTAAATTTGAATTGTGTTAAATGAATTATTACATTCAAAATTAAAATATTTATAACTTATAAAA
TTCAAAATTATCTTAATCTGTC
Found at i:6020310 original size:57 final size:57
Alignment explanation
Indices: 6020222--6020336 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 57
6020212 GATTGAAATC
* **
6020222 ATCAACTAAATAACATCAACTATAGCGAAAACCACACACCATTTAGTACATACACTA
1 ATCAACTAAATAACATCAACCATAGCGAAAACCACACACCACATAGTACATACACTA
* * **
6020279 ATCAACTAAATAACATCAACCATAGCTAAAACCATACATTACATAGTACATACACTA
1 ATCAACTAAATAACATCAACCATAGCGAAAACCACACACCACATAGTACATACACTA
6020336 A
1 A
6020337 GCTTCACATG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.49, C:0.25, G:0.04, T:0.22
Consensus pattern (57 bp):
ATCAACTAAATAACATCAACCATAGCGAAAACCACACACCACATAGTACATACACTA
Found at i:6030058 original size:5 final size:5
Alignment explanation
Indices: 6030039--6030081 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
6030029 GTAGGACATT
* * * *
6030039 ATATG ACATG ATATG TTATG ATATG ATATG ATAAG TTATG ATA
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATA
6030082 CTATATGAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:6030089 original size:20 final size:20
Alignment explanation
Indices: 6030039--6030081 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
6030029 GTAGGACATT
* *
6030039 ATATGACATGATATGTTATG
1 ATATGATATGATAAGTTATG
6030059 ATATGATATGATAAGTTATG
1 ATATGATATGATAAGTTATG
6030079 ATA
1 ATA
6030082 CTATATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (20 bp):
ATATGATATGATAAGTTATG
Found at i:6033011 original size:26 final size:25
Alignment explanation
Indices: 6032961--6033014 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
6032951 GGTATAAAAG
6032961 TATGAGTCAAAAGTATATTTGTTTT
1 TATGAGTCAAAAGTATATTTGTTTT
6032986 TATGAGTCATAAAGTA-ATTTGTTTT
1 TATGAGTCA-AAAGTATATTTGTTTT
6033011 TATG
1 TATG
6033015 TAAAGGAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 22 0.79
26 6 0.21
ACGTcount: A:0.31, C:0.04, G:0.17, T:0.48
Consensus pattern (25 bp):
TATGAGTCAAAAGTATATTTGTTTT
Found at i:6040422 original size:28 final size:28
Alignment explanation
Indices: 6040381--6040447 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
6040371 CTCGTGTGAG
6040381 CAGCATCGTGTAGCTTACA-TTCTGACCCA
1 CAGC-TCGTGTAGCTTACATTTC-GACCCA
6040410 CAGCTCGTGTAGCTTACATTTCGACCCA
1 CAGCTCGTGTAGCTTACATTTCGACCCA
6040438 CAGCTCGTGT
1 CAGCTCGTGT
6040448 GAGCAACGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
28 30 0.81
29 7 0.19
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.28
Consensus pattern (28 bp):
CAGCTCGTGTAGCTTACATTTCGACCCA
Found at i:6043468 original size:12 final size:12
Alignment explanation
Indices: 6043451--6043476 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6043441 CTCCACATGC
6043451 CCGTGTGTTAGG
1 CCGTGTGTTAGG
6043463 CCGTGTGTTAGG
1 CCGTGTGTTAGG
6043475 CC
1 CC
6043477 ATGCAACTCA
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:0.08, C:0.23, G:0.38, T:0.31
Consensus pattern (12 bp):
CCGTGTGTTAGG
Found at i:6053984 original size:20 final size:21
Alignment explanation
Indices: 6053947--6053985 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
6053937 AGAACAATAA
6053947 ATTTTAATTAAAATATTATTT
1 ATTTTAATTAAAATATTATTT
6053968 ATTTT-ATTATAAA-ATTAT
1 ATTTTAATTA-AAATATTAT
6053986 GTTAATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTAATTAAAATATTATTT
Found at i:6059668 original size:24 final size:24
Alignment explanation
Indices: 6059641--6059687 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6059631 ATTGAAATGG
6059641 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
6059665 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
6059688 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:6076320 original size:20 final size:20
Alignment explanation
Indices: 6076295--6076333 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
6076285 TACTTTCTTC
6076295 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
6076315 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
6076334 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:6076602 original size:50 final size:50
Alignment explanation
Indices: 6076543--6076728 Score: 210
Period size: 50 Copynumber: 3.6 Consensus size: 50
6076533 ACATGCCAAA
* ** *
6076543 GCCATGTCCCAGACATGGTCTTACATGAGAATTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCCAT
*** * * *
6076593 GCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCAGTACCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCCAT
* *
6076643 GCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAATGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---AGTGCCCAT
6076699 GCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
6076729 TCTCATTCCC
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
50 76 0.67
53 2 0.02
56 35 0.31
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCCAT
Found at i:6087164 original size:120 final size:120
Alignment explanation
Indices: 6086946--6087180 Score: 425
Period size: 120 Copynumber: 2.0 Consensus size: 120
6086936 TAGTTATGCA
* *
6086946 TTCCCATTTCCAAAGAGGAATCTTAACCGGCTGCAGTAAACCCGAAGGTAACTGATGCTCAGACT
1 TTCCCATTTCCAAAGAGGAATCTTAACCGACTGCAGCAAACCCGAAGGTAACTGATGCTCAGACT
6087011 TAACCTGCTGGCAAGTAGACATCTGCCCACAAAATTAGTAACCTCACGTTACGCG
66 TAACCTGCTGGCAAGTAGACATCTGCCCACAAAATTAGTAACCTCACGTTACGCG
* *
6087066 TTCCTATTTCCAAAGAGGAATCTTAACCGACTGCAGCAAACTCGAAGGTAACTGATGCTCAGACT
1 TTCCCATTTCCAAAGAGGAATCTTAACCGACTGCAGCAAACCCGAAGGTAACTGATGCTCAGACT
*
6087131 TAACTTGCTGGCAAGTAGACATCTGCCCACAAAATTAGTAACCTCACGTT
66 TAACCTGCTGGCAAGTAGACATCTGCCCACAAAATTAGTAACCTCACGTT
6087181 TCAACCTTGG
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (120 bp):
TTCCCATTTCCAAAGAGGAATCTTAACCGACTGCAGCAAACCCGAAGGTAACTGATGCTCAGACT
TAACCTGCTGGCAAGTAGACATCTGCCCACAAAATTAGTAACCTCACGTTACGCG
Found at i:6092898 original size:344 final size:344
Alignment explanation
Indices: 6092266--6092909 Score: 1144
Period size: 344 Copynumber: 1.9 Consensus size: 344
6092256 CATCGTTCCT
* ** *
6092266 AGTCGCTCGGTCGTGTGACCCAGTCTCAGTGACAGGCGACACTGGCATCTCGCTAGTGTCTAGAT
1 AGTCGCTCGATCACGTGACCCAGTCTCAGTGACAGGAGACACTGGCATCTCGCTAGTGTCTAGAT
6092331 TTGGCATACTCCCCAGTGAAGAGGACTCAGCTCGAGCCCCTCTACGACCTCTACCTCGGCCTCTA
66 TTGGCATACTCCCCAGTGAAGAGGACTCAGCTCGAGCCCCTCTACGACCTCTACCTCGGCCTCTA
* *
6092396 GTACCCCGTCCGCGAGTACCTCATGCGCTCATCGTCTAGTAGTGCTTATCTGTATTAAAAGTTTT
131 GTACCCCGTCCCCGAGTACCTCATGCGCTCATCGTCTAGTAGTGCTTATATGTATTAAAAGTTTT
*
6092461 ATGAATCAGTTTACAGTTTAATAGTTATTAGCAGATGTTTTATGGAAACAGTTTTAGTAGTTCAG
196 ATGAATCAGTTTACAGTTCAATAGTTATTAGCAGATGTTTTATGGAAACAGTTTTAGTAGTTCAG
6092526 AGTTTGTTTTCGTACAACGCAATGTCTACCAGTGTTTATCGATTTTATTACAGTATCATTATACA
261 AGTTTGTTTTCGTACAACGCAATGTCTACCAGTGTTTATCGATTTTATTACAGTATCATTATACA
6092591 CTAACCTGAGTGTTTCCCC
326 CTAACCTGAGTGTTTCCCC
* *
6092610 AGTCGCTCGATCACGTGACCCAGTCTCAGTGACAGGAGACACTGGCGTCTCGCTATTGTCTAGAT
1 AGTCGCTCGATCACGTGACCCAGTCTCAGTGACAGGAGACACTGGCATCTCGCTAGTGTCTAGAT
* * *
6092675 TTGGCATACTGCCCAGTGAAGAGGACTCAGCTCGAGCCCCTCTATGGCCTCTACCTCGGCCTCTA
66 TTGGCATACTCCCCAGTGAAGAGGACTCAGCTCGAGCCCCTCTACGACCTCTACCTCGGCCTCTA
*
6092740 GTACCCCGTCCCCGAGTACCTCGTGCGCTCATCGTCTAGTAGTGCTTATATGTATTAAAAGTTTT
131 GTACCCCGTCCCCGAGTACCTCATGCGCTCATCGTCTAGTAGTGCTTATATGTATTAAAAGTTTT
*
6092805 ATGAATCAGTTTACAGTTCAATAGTTATTAGCAGATGTTTTATGGAAATAGTTTTAGTAGTTCAG
196 ATGAATCAGTTTACAGTTCAATAGTTATTAGCAGATGTTTTATGGAAACAGTTTTAGTAGTTCAG
* *
6092870 AGTTTGTTTTCGTACGACGCAGTGTCTACCAGTGTTTATC
261 AGTTTGTTTTCGTACAACGCAATGTCTACCAGTGTTTATC
6092910 AGTTTTACCA
Statistics
Matches: 284, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
344 284 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (344 bp):
AGTCGCTCGATCACGTGACCCAGTCTCAGTGACAGGAGACACTGGCATCTCGCTAGTGTCTAGAT
TTGGCATACTCCCCAGTGAAGAGGACTCAGCTCGAGCCCCTCTACGACCTCTACCTCGGCCTCTA
GTACCCCGTCCCCGAGTACCTCATGCGCTCATCGTCTAGTAGTGCTTATATGTATTAAAAGTTTT
ATGAATCAGTTTACAGTTCAATAGTTATTAGCAGATGTTTTATGGAAACAGTTTTAGTAGTTCAG
AGTTTGTTTTCGTACAACGCAATGTCTACCAGTGTTTATCGATTTTATTACAGTATCATTATACA
CTAACCTGAGTGTTTCCCC
Found at i:6093268 original size:18 final size:18
Alignment explanation
Indices: 6093244--6093291 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
6093234 TGTCATTCGT
6093244 TTTCAAAACATTATTC-A
1 TTTCAAAACATTATTCAA
* *
6093261 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTCAA
6093280 TTTCAAAACATT
1 TTTCAAAACATT
6093292 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (18 bp):
TTTCAAAACATTATTCAA
Found at i:6098923 original size:16 final size:16
Alignment explanation
Indices: 6098901--6098940 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
6098891 CGTTTGGTTC
6098901 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
*
6098917 GCTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
6098933 ACTGTAAT
1 ACTGTAAT
6098941 AGTAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:6098986 original size:45 final size:44
Alignment explanation
Indices: 6098922--6099014 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
6098912 ATAGAGCTGT
6098922 AATGGAATAGAACTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
6098967 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
6099011 AATG
1 AATG
6099015 ATGTCGTAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.50
45 22 0.48
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:6108914 original size:18 final size:19
Alignment explanation
Indices: 6108891--6108942 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
6108881 GAATGAAGAA
6108891 ATGGTATCGATATAAAAT-
1 ATGGTATCGATATAAAATC
* *
6108909 ATGGTATTGATA-AAATTC
1 ATGGTATCGATATAAAATC
6108927 AGTAGGTATCGATATA
1 A-T-GGTATCGATATA
6108943 TTTCTAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.15
18 12 0.44
19 1 0.04
20 9 0.33
21 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.19, T:0.35
Consensus pattern (19 bp):
ATGGTATCGATATAAAATC
Found at i:6109574 original size:30 final size:30
Alignment explanation
Indices: 6109539--6109620 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
6109529 TTAATTGGAC
6109539 ATTTTTTTTTAGATAATTTTA-TTTAATTTG
1 ATTTTTTTTTA-ATAATTTTATTTTAATTTG
*
6109569 ATTTTTGGTTTAATTAA-TTTATTTTAATTTG
1 ATTTTT-TTTTAA-TAATTTTATTTTAATTTG
* *
6109600 ATTTTTTGTAATATAATTTTA
1 ATTTTTTTTTA-ATAATTTTA
6109621 AATTACTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
30 16 0.37
31 27 0.63
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (30 bp):
ATTTTTTTTTAATAATTTTATTTTAATTTG
Found at i:6109888 original size:35 final size:35
Alignment explanation
Indices: 6109842--6109928 Score: 138
Period size: 35 Copynumber: 2.5 Consensus size: 35
6109832 CGGTCAAGAT
*
6109842 TCAGTAGATCATTTCCATGATGCCGCTCCGTAGAG
1 TCAGTAGATCATTTCCATGATGCCGCTCCGTAGAC
* *
6109877 TCAGTAGATCATTTTCATGATGCCGCTTCGTAGAC
1 TCAGTAGATCATTTCCATGATGCCGCTCCGTAGAC
*
6109912 CCAGTAGATCATTTCCA
1 TCAGTAGATCATTTCCA
6109929 ACCAAACTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (35 bp):
TCAGTAGATCATTTCCATGATGCCGCTCCGTAGAC
Found at i:6111124 original size:25 final size:25
Alignment explanation
Indices: 6111096--6111143 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
6111086 ATACCATTCA
*
6111096 ATAACAACAA-AATACAATACGTAGC
1 ATAA-AACAATAACACAATACGTAGC
*
6111121 ATAAATCAATAACACAATACGTA
1 ATAAAACAATAACACAATACGTA
6111144 CCATTGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (25 bp):
ATAAAACAATAACACAATACGTAGC
Found at i:6111987 original size:29 final size:30
Alignment explanation
Indices: 6111920--6111987 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
6111910 TTTTTAACCG
*
6111920 TTAACTGAACCGAAATTTTTTCAAAAAAAA
1 TTAACCGAACCGAAATTTTTTCAAAAAAAA
* *
6111950 TCAATCGAACCGAAATTTTTTC-AAAAAAA
1 TTAACCGAACCGAAATTTTTTCAAAAAAAA
6111979 TTAACCGAA
1 TTAACCGAA
6111988 TTAACCAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 14 0.42
30 19 0.58
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (30 bp):
TTAACCGAACCGAAATTTTTTCAAAAAAAA
Found at i:6112043 original size:9 final size:9
Alignment explanation
Indices: 6112025--6112109 Score: 109
Period size: 9 Copynumber: 9.4 Consensus size: 9
6112015 TTTGGTTAAA
6112025 AATTAACCG
1 AATTAACCG
*
6112034 AATTACCCG
1 AATTAACCG
6112043 AATTAACCG
1 AATTAACCG
*
6112052 GATTAACC-
1 AATTAACCG
*
6112060 AGATTACCCG
1 A-ATTAACCG
6112070 AATTAACCG
1 AATTAACCG
*
6112079 AATTACCCG
1 AATTAACCG
*
6112088 AATTAACCA
1 AATTAACCG
6112097 AATTAACCG
1 AATTAACCG
6112106 AATT
1 AATT
6112110 GAATCTGAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
9 63 0.98
10 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:6115613 original size:19 final size:19
Alignment explanation
Indices: 6115576--6115613 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6115566 TTAACAATAC
*
6115576 TTTTATCTCAAAAATATTT
1 TTTTATCTCAAAAACATTT
*
6115595 TTTTATCTCAAAAGCATTT
1 TTTTATCTCAAAAACATTT
6115614 CTTAAGAGTA
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:0.13, G:0.03, T:0.50
Consensus pattern (19 bp):
TTTTATCTCAAAAACATTT
Found at i:6116376 original size:18 final size:18
Alignment explanation
Indices: 6116350--6116385 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6116340 AAATTTTGGT
6116350 ATTAATATAATATTAAAA
1 ATTAATATAATATTAAAA
*
6116368 ATTATTATAATATTAAAA
1 ATTAATATAATATTAAAA
6116386 CTTTAGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTAATATAATATTAAAA
Found at i:6119517 original size:12 final size:12
Alignment explanation
Indices: 6119500--6119527 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6119490 TTTCCTCATT
6119500 TTTCTCATTTTG
1 TTTCTCATTTTG
6119512 TTTCTCATTTTG
1 TTTCTCATTTTG
6119524 TTTC
1 TTTC
6119528 ACGTCCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.18, G:0.07, T:0.68
Consensus pattern (12 bp):
TTTCTCATTTTG
Found at i:6126083 original size:16 final size:16
Alignment explanation
Indices: 6126055--6126091 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6126045 ATAAGTTAAG
6126055 ATTTTTTTAACTTTTA
1 ATTTTTTTAACTTTTA
6126071 ATTTATTTT-ACTTTT-
1 ATTT-TTTTAACTTTTA
6126086 ATTTTT
1 ATTTTT
6126092 GAGAAAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.10
15 4 0.20
16 10 0.50
17 4 0.20
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTTTTTAACTTTTA
Found at i:6133764 original size:37 final size:37
Alignment explanation
Indices: 6133723--6133822 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 37
6133713 TGTTGTAACA
* * * *
6133723 AGCAATATCCACTGATTCTATTGAATGTGC-ACAAATG
1 AGCAATATCCACTAATTCTACTAAATATGCTA-AAATG
*
6133760 AGCAATATCTACTAATTCTACTAAATATGCTAAAATG
1 AGCAATATCCACTAATTCTACTAAATATGCTAAAATG
* * *
6133797 ACCAATATCTATTAATTCTACTAAAT
1 AGCAATATCCACTAATTCTACTAAAT
6133823 GTTCGCTCGA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
37 54 0.98
38 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (37 bp):
AGCAATATCCACTAATTCTACTAAATATGCTAAAATG
Found at i:6139670 original size:30 final size:31
Alignment explanation
Indices: 6139620--6139687 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
6139610 CCCTGATCAT
* *
6139620 ATTAAATTATCACAATAGTTAACACATCCCA
1 ATTAAATTACCACAATAGTTAACACATCACA
* *
6139651 ATTAAATTACCAC-ATAGTTAATATATCACA
1 ATTAAATTACCACAATAGTTAACACATCACA
6139681 ATTAAAT
1 ATTAAAT
6139688 AAAAAAGTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (31 bp):
ATTAAATTACCACAATAGTTAACACATCACA
Found at i:6140745 original size:27 final size:27
Alignment explanation
Indices: 6140715--6140774 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
6140705 CGCCAATGGG
6140715 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* *
6140742 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
6140769 ATTGGC
1 ATTGGC
6140775 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:6141498 original size:76 final size:74
Alignment explanation
Indices: 6141407--6141552 Score: 179
Period size: 75 Copynumber: 1.9 Consensus size: 74
6141397 TATTTCGGGT
*
6141407 TTTTTACCAAAATATTACAAAAAATAAAAAAAAATACGAAAATATTATAA-ATTTTTTTATTTAC
1 TTTTTACCAAAATATTA-AAAAAAT-AAAAAAAA-ACCAAAATATTATAAGATTTTTTTATTTAC
*
6141471 CAGAATAATGGG
63 CAAAATAATGGG
* * * *
6141483 TTTTTA-CAAATATATTAAAAAAATTAAAAATAACCAAAATGTTATAAGTTTTTTTTTATTTACC
1 TTTTTACCAAA-ATATTAAAAAAATAAAAAAAAACCAAAATATTATAAG-ATTTTTTTATTTACC
6141547 AAAATA
64 AAAATA
6141553 TATATATATT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
73 13 0.21
74 6 0.10
75 30 0.49
76 12 0.20
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.38
Consensus pattern (74 bp):
TTTTTACCAAAATATTAAAAAAATAAAAAAAAACCAAAATATTATAAGATTTTTTTATTTACCAA
AATAATGGG
Found at i:6146942 original size:15 final size:12
Alignment explanation
Indices: 6146905--6146935 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6146895 AAAAAATTTT
*
6146905 ATACTCAAAATA
1 ATACACAAAATA
6146917 ATACACAAAATA
1 ATACACAAAATA
6146929 ATACACA
1 ATACACA
6146936 CTAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (12 bp):
ATACACAAAATA
Found at i:6147129 original size:3 final size:3
Alignment explanation
Indices: 6147121--6147164 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
6147111 TCTTAATACT
6147121 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
6147165 TAATAATAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:6147336 original size:10 final size:11
Alignment explanation
Indices: 6147296--6147335 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
6147286 AAAAAAATAC
6147296 CTTCTTTTTCT
1 CTTCTTTTTCT
*
6147307 CCTCTTTTTCT
1 CTTCTTTTTCT
6147318 C-TCTTTTTCT
1 CTTCTTTTTCT
6147328 CTTCTTTT
1 CTTCTTTT
6147336 CCGTAACAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:6147460 original size:27 final size:26
Alignment explanation
Indices: 6147415--6147479 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 26
6147405 AATACGAGTA
6147415 GTGCCGCCAATTAGTTTGGCACCATTG
1 GTGCCGCCAA-TAGTTTGGCACCATTG
*
6147442 GTGCCGCCAATGGTATTGGCACCATTG
1 GTGCCGCCAATAGT-TTGGCACCATTG
6147469 GTGCCGCCAAT
1 GTGCCGCCAAT
6147480 CCCATTGGCG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 3 0.08
27 33 0.92
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.26
Consensus pattern (26 bp):
GTGCCGCCAATAGTTTGGCACCATTG
Found at i:6147486 original size:27 final size:27
Alignment explanation
Indices: 6147430--6147488 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
6147420 GCCAATTAGT
***
6147430 TTGGCACCATTGGTGCCGCCAATGGTA
1 TTGGCACCATTGGTGCCGCCAATCCCA
6147457 TTGGCACCATTGGTGCCGCCAATCCCA
1 TTGGCACCATTGGTGCCGCCAATCCCA
6147484 TTGGC
1 TTGGC
6147489 GTGACCAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.31, G:0.27, T:0.25
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCCCA
Found at i:6147577 original size:22 final size:22
Alignment explanation
Indices: 6147552--6147596 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
6147542 GTTTTTTTTG
*
6147552 ATATATTTTGGTAAATAAAAAA
1 ATATATTTTGATAAATAAAAAA
6147574 ATATATTTTGATAAATAAAAAA
1 ATATATTTTGATAAATAAAAAA
6147596 A
1 A
6147597 AGTTATAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (22 bp):
ATATATTTTGATAAATAAAAAA
Found at i:6148423 original size:16 final size:16
Alignment explanation
Indices: 6148392--6148426 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6148382 GATTGATATA
6148392 TTTCTATTTTATTTAT
1 TTTCTATTTTATTTAT
6148408 TTTCT-TTTTATATTAT
1 TTTCTATTTTAT-TTAT
6148424 TTT
1 TTT
6148427 TGCATTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTATTTTATTTAT
Found at i:6149133 original size:31 final size:33
Alignment explanation
Indices: 6149068--6149144 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
6149058 ATTCTAAATT
*
6149068 ATTAAATTAATAATTTATTTTAATTATACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
* *
6149101 ATTAAATTATTAATTT-TTCTATTTA-ACTTAA
1 ATTAAATTAATAATTTATTCTAATTATACTTAA
6149132 ATTAAA-TAATAAT
1 ATTAAATTAATAAT
6149145 AACTTAAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
30 6 0.15
31 12 0.30
32 7 0.17
33 15 0.38
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (33 bp):
ATTAAATTAATAATTTATTCTAATTATACTTAA
Found at i:6149149 original size:20 final size:20
Alignment explanation
Indices: 6149124--6149163 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6149114 TTTTTCTATT
*
6149124 TAACTTAAATTAAATAATAA
1 TAACTTAAATGAAATAATAA
6149144 TAACTTAAATGAAATAATAA
1 TAACTTAAATGAAATAATAA
6149164 AAAATTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
TAACTTAAATGAAATAATAA
Found at i:6149202 original size:11 final size:11
Alignment explanation
Indices: 6149186--6149213 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
6149176 AGACTAAATA
6149186 TAAATAATAAC
1 TAAATAATAAC
6149197 TAAATAATAAC
1 TAAATAATAAC
6149208 TAAATA
1 TAAATA
6149214 GAAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAATAATAAC
Found at i:6149205 original size:3 final size:3
Alignment explanation
Indices: 6149188--6149298 Score: 65
Period size: 3 Copynumber: 36.3 Consensus size: 3
6149178 ACTAAATATA
6149188 AAT AAT AACT AAAT AAT AACT AAAT AGA- AAT AAT AAT -AT ATAT AAT
1 AAT AAT AA-T -AAT AAT AA-T -AAT A-AT AAT AAT AAT AAT A-AT AAT
* *
6149234 AAT -AT TAT AAG AAT AAT -AT AAT AAT AGAT AAT -AT AAT AAT AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT A-AT
*
6149278 -AG AAT AAT AA- AAT AAAT AAT A
1 AAT AAT AAT AAT AAT -AAT AAT A
6149299 TAGAAATATA
Statistics
Matches: 87, Mismatches: 5, Indels: 32
0.70 0.04 0.26
Matches are distributed among these distances:
2 12 0.14
3 55 0.63
4 16 0.18
5 4 0.05
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6149232 original size:12 final size:12
Alignment explanation
Indices: 6149217--6149300 Score: 75
Period size: 12 Copynumber: 6.9 Consensus size: 12
6149207 CTAAATAGAA
6149217 ATAATAATATAT
1 ATAATAATATAT
6149229 ATAATAATAT-T
1 ATAATAATATAT
*
6149240 ATAAGAATA-AT
1 ATAATAATATAT
6149251 ATAATAATAGATAAT
1 ATAATAAT--AT-AT
*
6149266 ATAATAATAGAT
1 ATAATAATATAT
* *
6149278 AGAATAATA-AA
1 ATAATAATATAT
6149289 ATAAATAATATA
1 AT-AATAATATA
6149301 GAAATATAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
11 19 0.32
12 27 0.46
13 3 0.05
15 10 0.17
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:6149248 original size:11 final size:11
Alignment explanation
Indices: 6149217--6149259 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
6149207 CTAAATAGAA
6149217 ATAATAATATAT
1 ATAATAATAT-T
6149229 ATAATAATATT
1 ATAATAATATT
* *
6149240 ATAAGAATAAT
1 ATAATAATATT
6149251 ATAATAATA
1 ATAATAATA
6149260 GATAATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (11 bp):
ATAATAATATT
Found at i:6149248 original size:29 final size:29
Alignment explanation
Indices: 6149219--6149272 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
6149209 AAATAGAAAT
*
6149219 AATAATAT-AT-ATA-ATAATATTATAAG
1 AATAATATAATAATAGATAATATAATAAG
6149245 AATAATATAATAATAGATAATATAATAA
1 AATAATATAATAATAGATAATATAATAA
6149273 TAGATAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 8 0.33
27 2 0.08
28 3 0.12
29 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (29 bp):
AATAATATAATAATAGATAATATAATAAG
Found at i:6149268 original size:15 final size:14
Alignment explanation
Indices: 6149188--6149298 Score: 94
Period size: 15 Copynumber: 8.1 Consensus size: 14
6149178 ACTAAATATA
6149188 AATAATAACTA-AAT
1 AATAATAA-TATAAT
6149202 AATAACTAA-ATAGA-
1 AATAA-TAATATA-AT
6149216 AATAATAATAT-AT
1 AATAATAATATAAT
*
6149229 -ATAATAATATTAT
1 AATAATAATATAAT
*
6149242 AAGAATAATATAAT
1 AATAATAATATAAT
6149256 AATAGATAATATAAT
1 AATA-ATAATATAAT
6149271 AATAGATAGA-ATAAT
1 AATA-ATA-ATATAAT
6149286 AA-AATAA-ATAAT
1 AATAATAATATAAT
6149298 A
1 A
6149299 TAGAAATATA
Statistics
Matches: 85, Mismatches: 3, Indels: 20
0.79 0.03 0.19
Matches are distributed among these distances:
12 18 0.21
13 9 0.11
14 28 0.33
15 29 0.34
16 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (14 bp):
AATAATAATATAAT
Found at i:6149297 original size:32 final size:37
Alignment explanation
Indices: 6149216--6149300 Score: 101
Period size: 37 Copynumber: 2.4 Consensus size: 37
6149206 ACTAAATAGA
*
6149216 AATAAT-AATATATATAATAATATTATAAGAATAATAT
1 AATAATAAATA-ATATAATAATATGATAAGAATAATAT
*
6149253 AATAATAGATAATATAATAATA-GAT-AGAAT-A-AT
1 AATAATAAATAATATAATAATATGATAAGAATAATAT
6149286 AA-AATAAATAATATA
1 AATAATAAATAATATA
6149301 GAAATATAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
32 12 0.27
33 4 0.09
34 1 0.02
35 5 0.11
36 2 0.05
37 17 0.39
38 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (37 bp):
AATAATAAATAATATAATAATATGATAAGAATAATAT
Found at i:6149341 original size:14 final size:14
Alignment explanation
Indices: 6149322--6149406 Score: 91
Period size: 14 Copynumber: 5.9 Consensus size: 14
6149312 TTATAAATCG
6149322 AAATATATTAATAT
1 AAATATATTAATAT
*
6149336 AAATATAATAATAT
1 AAATATATTAATAT
6149350 AAATATTATTAAT-T
1 AAATA-TATTAATAT
** *
6149364 ACTTAATATTAATACG
1 AAAT-ATATTAATA-T
6149380 AAATATATTAATAT
1 AAATATATTAATAT
6149394 AAATATTATTAAT
1 AAATA-TATTAAT
6149407 TCTTGACATT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
14 33 0.57
15 23 0.40
16 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (14 bp):
AAATATATTAATAT
Found at i:6149392 original size:44 final size:42
Alignment explanation
Indices: 6149326--6149420 Score: 136
Period size: 44 Copynumber: 2.2 Consensus size: 42
6149316 AAATCGAAAT
*
6149326 ATATTAATATAAATATAATAATATAAATATTATTAATTACTTA
1 ATATTAATAGAAATATAATAATATAAATATTATTAATT-CTTA
* *
6149369 ATATTAATACGAAATATATTAATATAAATATTATTAATTCTTG
1 ATATTAATA-GAAATATAATAATATAAATATTATTAATTCTTA
*
6149412 ACATTAATA
1 ATATTAATA
6149421 ACAAATAACA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
43 20 0.43
44 27 0.57
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (42 bp):
ATATTAATAGAAATATAATAATATAAATATTATTAATTCTTA
Found at i:6156056 original size:13 final size:13
Alignment explanation
Indices: 6156038--6156062 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6156028 CTATGATATA
6156038 AAACATAAGCAAC
1 AAACATAAGCAAC
6156051 AAACATAAGCAA
1 AAACATAAGCAA
6156063 ATTCATCTTA
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:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (13 bp):
AAACATAAGCAAC
Found at i:6159288 original size:55 final size:55
Alignment explanation
Indices: 6159109--6159296 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 55
6159099 ATTTGTAATT
* *
6159109 TTTATGATTGGGTTGGGTTGGGTTGGGTACTTGGGTTTATATATATTAGACTGGG
1 TTTATGATTGGGTTGGGTTGGGTTGGGTACTTGGGTTTATATATATTAGATTGAG
* ** * * *
6159164 TTTATG-TTGGATTGGGTTTGGG-TGAATA-GTGGCAATTTATATATTATAATTTTATTATTTGT
1 TTTATGATTGGGTTGGG-TTGGGTTGGGTACTTGG---GTT-TATA-TAT-A--TTA-GA-TTG-
*
6159226 AAT
54 -AG
6159229 TTTATGATTGGGTTGGGTTGGGTTGGGTACTTGGGTTTATATATATTAGATTGAG
1 TTTATGATTGGGTTGGGTTGGGTTGGGTACTTGGGTTTATATATATTAGATTGAG
6159284 TTTAT-ATTGGGTT
1 TTTATGATTGGGTT
6159297 TATATTGGAT
Statistics
Matches: 101, Mismatches: 16, Indels: 33
0.67 0.11 0.22
Matches are distributed among these distances:
53 3 0.03
54 21 0.21
55 17 0.17
56 2 0.02
57 7 0.07
58 4 0.04
59 4 0.04
61 4 0.04
62 4 0.04
63 6 0.06
64 2 0.02
65 11 0.11
66 13 0.13
67 3 0.03
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (55 bp):
TTTATGATTGGGTTGGGTTGGGTTGGGTACTTGGGTTTATATATATTAGATTGAG
Found at i:6160307 original size:2 final size:2
Alignment explanation
Indices: 6160302--6160377 Score: 107
Period size: 2 Copynumber: 38.0 Consensus size: 2
6160292 AGTACATAAG
6160302 CT CT CT CT CT CT CT CT 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 CT CT CT CT CT CT CT CT
* * * * *
6160344 CT CC CT GT CT CT CT CA CT CT CA CT CT CA CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6160378 TTTAAACATA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.04, C:0.50, G:0.01, T:0.45
Consensus pattern (2 bp):
CT
Found at i:6163628 original size:24 final size:24
Alignment explanation
Indices: 6163593--6163674 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 24
6163583 GTTCTGACCC
*
6163593 ACAGCTCGTGAGAGCATACCGATT
1 ACAGCTTGTGAGAGCATACCGATT
* * *
6163617 ACTGCTTGTGAGGGCATACCAATT
1 ACAGCTTGTGAGAGCATACCGATT
* * * *
6163641 AGAGCTCGAGTGAGCATACCGATT
1 ACAGCTTGTGAGAGCATACCGATT
6163665 CACAGCTTGT
1 -ACAGCTTGT
6163675 ATAAGCATAC
Statistics
Matches: 43, Mismatches: 14, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
24 37 0.86
25 6 0.14
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (24 bp):
ACAGCTTGTGAGAGCATACCGATT
Found at i:6167718 original size:137 final size:137
Alignment explanation
Indices: 6167472--6167744 Score: 458
Period size: 137 Copynumber: 2.0 Consensus size: 137
6167462 CTAAGTGATT
6167472 AACTAAGAAAATAAAAAGAAAAAATTCCAATGCACGATTTCAAAAAAATGAGTTTAATCAATATG
1 AACTAAGAAAATAAAAAGAAAAAATTCCAATGCACGATTTCAAAAAAATGAGTTTAATCAATATG
* *
6167537 ATATAAATGTGCTAGATCAGTTTTATTCTTTAACTTAGAATAATTAAAGTTGTGTTCATGTTGTT
66 ATATAAATGTGCTAGATCAATTTTATTCTTTAACTTAGAATAATTAAAGTTATGTTCATGTTGTT
6167602 ACGAATG
131 ACGAATG
* * *
6167609 AACTAAGAAAATAAAAAGTAAATATTCTAATGCACGATTTCAAAAAAAATGAGTTTAATCAATAT
1 AACTAAGAAAATAAAAAGAAAAAATTCCAATGCACGATTTC-AAAAAAATGAGTTTAATCAATAT
* *
6167674 GATATAAATGTGTTAGATCAATTTTATT-TTTAACTTAGAATAATTAGAGTTATGTTCATGTTGT
65 GATATAAATGTGCTAGATCAATTTTATTCTTTAACTTAGAATAATTAAAGTTATGTTCATGTTGT
*
6167738 TATGAAT
130 TACGAAT
6167745 AATTTCACAG
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
137 78 0.61
138 49 0.39
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (137 bp):
AACTAAGAAAATAAAAAGAAAAAATTCCAATGCACGATTTCAAAAAAATGAGTTTAATCAATATG
ATATAAATGTGCTAGATCAATTTTATTCTTTAACTTAGAATAATTAAAGTTATGTTCATGTTGTT
ACGAATG
Found at i:6174990 original size:47 final size:48
Alignment explanation
Indices: 6174929--6175023 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 48
6174919 CGCCGTAGTC
6174929 TTTGCATTGAAAATCTGGAGGCATTATCTGTACGGTGAGAAGTGTATT
1 TTTGCATTGAAAATCTGGAGGCATTATCTGTACGGTGAGAAGTGTATT
*
6174977 TTTGCA-TGGAAATCTGGAGGCATTATCTGTACGGTGAGAAGTGTATT
1 TTTGCATTGAAAATCTGGAGGCATTATCTGTACGGTGAGAAGTGTATT
6175024 ATCTAAACTA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 40 0.87
48 6 0.13
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (48 bp):
TTTGCATTGAAAATCTGGAGGCATTATCTGTACGGTGAGAAGTGTATT
Found at i:6183712 original size:20 final size:19
Alignment explanation
Indices: 6183688--6183756 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
6183678 TTGTATAGAC
6183688 GTACCCCTGTTTGTACTTT
1 GTACCCCTGTTTGTACTTT
* * **
6183707 GATACCCCTGATTGCACATAC
1 G-TACCCCTGTTTGTAC-TTT
* *
6183728 GTGCCCCTGTTTGTATTTT
1 GTACCCCTGTTTGTACTTT
6183747 GGTACCCCTG
1 -GTACCCCTG
6183757 ATTGAACATA
Statistics
Matches: 36, Mismatches: 11, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
19 2 0.06
20 32 0.89
21 2 0.06
ACGTcount: A:0.14, C:0.29, G:0.19, T:0.38
Consensus pattern (19 bp):
GTACCCCTGTTTGTACTTT
Found at i:6183782 original size:80 final size:80
Alignment explanation
Indices: 6183649--6183819 Score: 200
Period size: 80 Copynumber: 2.1 Consensus size: 80
6183639 TAGATGATCA
* * * ** * *
6183649 TGCCCCTATTTGTAATTTGGTACTCCTGATTGTATAGACGTACCCCTGTTTGTACTTTGATACCC
1 TGCCCCTATTTGTAATTTGGTACCCCTGATTGAACAGACGTACCCCTACTTGTACTCTGATACAC
6183714 CTGATTGCACATACG
66 CTGATTGCACATACG
* * * *
6183729 TGCCCCTGTTTGTATTTTGGTACCCCTGATTGAACATACGTGA-CCCTACTTGTACTCTGGTACA
1 TGCCCCTATTTGTAATTTGGTACCCCTGATTGAACAGACGT-ACCCCTACTTGTACTCTGATACA
* *
6183793 CTTGATTTCACATACG
65 CCTGATTGCACATACG
*
6183809 TACCCCTATTT
1 TGCCCCTATTT
6183820 ATACTTCGAT
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 74 0.99
81 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.37
Consensus pattern (80 bp):
TGCCCCTATTTGTAATTTGGTACCCCTGATTGAACAGACGTACCCCTACTTGTACTCTGATACAC
CTGATTGCACATACG
Found at i:6183816 original size:40 final size:40
Alignment explanation
Indices: 6183651--6183825 Score: 181
Period size: 40 Copynumber: 4.4 Consensus size: 40
6183641 GATGATCATG
* * * * *
6183651 CCCCTATTTGTAATTTGGTACTCCTGATTGTATAGACGTA
1 CCCCTATTTGTACTTTGGTACCCCTGATTGCACATACGTA
* * *
6183691 CCCCTGTTTGTACTTTGATACCCCTGATTGCACATACGTG
1 CCCCTATTTGTACTTTGGTACCCCTGATTGCACATACGTA
* * *
6183731 CCCCTGTTTGTATTTTGGTACCCCTGATTGAACATACGTGA
1 CCCCTATTTGTACTTTGGTACCCCTGATTGCACATACGT-A
* * * * *
6183772 -CCCTACTTGTACTCTGGTACACTTGATTTCACATACGTA
1 CCCCTATTTGTACTTTGGTACCCCTGATTGCACATACGTA
*
6183811 CCCCTATTTATACTT
1 CCCCTATTTGTACTT
6183826 CGATAATTTC
Statistics
Matches: 110, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 1 0.01
40 109 0.99
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (40 bp):
CCCCTATTTGTACTTTGGTACCCCTGATTGCACATACGTA
Found at i:6191164 original size:21 final size:21
Alignment explanation
Indices: 6191140--6191179 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6191130 GTTAGATAAT
**
6191140 TAAATAATTGGAATAATTAAA
1 TAAATAATTAAAATAATTAAA
*
6191161 TAAATTATTAAAATAATTA
1 TAAATAATTAAAATAATTA
6191180 GAATTAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
TAAATAATTAAAATAATTAAA
Found at i:6192993 original size:26 final size:26
Alignment explanation
Indices: 6192964--6193019 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
6192954 TTACCCACGC
6192964 TAAAATTTTGACGATTTTACCCTTAG
1 TAAAATTTTGACGATTTTACCCTTAG
* *
6192990 TAAAATTTTGACGATTTTGCCCTTGG
1 TAAAATTTTGACGATTTTACCCTTAG
6193016 TAAA
1 TAAA
6193020 TTTCAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (26 bp):
TAAAATTTTGACGATTTTACCCTTAG
Found at i:6209723 original size:23 final size:23
Alignment explanation
Indices: 6209697--6209829 Score: 81
Period size: 23 Copynumber: 5.8 Consensus size: 23
6209687 TTGTTTTGCA
*
6209697 GGTACATTTTGTTATGTTCGGAG
1 GGTACATTTTGTTGTGTTCGGAG
* * * *
6209720 GGTA-AATTGGTTGTATTTGGAG
1 GGTACATTTTGTTGTGTTCGGAG
* * * * *
6209742 CGTATACTTGGTTGTGTTCAGAG
1 GGTACATTTTGTTGTGTTCGGAG
* * * * *
6209765 GTTATATATATGGTTGTGTTTGAAG
1 GGTACAT-T-TTGTTGTGTTCGGAG
6209790 GGTACATTTTGTTGTGTTCGGAG
1 GGTACATTTTGTTGTGTTCGGAG
* *
6209813 GGTAGA-TTGGTTGTGTT
1 GGTACATTTTGTTGTGTT
6209830 TTATGGGTGA
Statistics
Matches: 84, Mismatches: 23, Indels: 7
0.74 0.20 0.06
Matches are distributed among these distances:
22 26 0.31
23 39 0.46
24 2 0.02
25 17 0.20
ACGTcount: A:0.18, C:0.05, G:0.33, T:0.44
Consensus pattern (23 bp):
GGTACATTTTGTTGTGTTCGGAG
Found at i:6209753 original size:93 final size:93
Alignment explanation
Indices: 6209627--6209826 Score: 262
Period size: 93 Copynumber: 2.2 Consensus size: 93
6209617 TATGTTAAAA
* * * *
6209627 GGTATATTGGTTTTGTTTGAAGGGTATACTTGGTTGTGTAC-GAAAGTTATATATATGG-TGTTG
1 GGTAAATTGGTTGTATTTGAAGCGTATACTTGGTTGTGTACAG-AAGTTATATATATGGTTG-TG
*
6209690 TTTTGCA-GGTACATTTTGTTATGTTCGGAG
64 -TTTGAAGGGTACATTTTGTTATGTTCGGAG
* * *
6209720 GGTAAATTGGTTGTATTTGGAGCGTATACTTGGTTGTGTTCAGAGGTTATATATATGGTTGTGTT
1 GGTAAATTGGTTGTATTTGAAGCGTATACTTGGTTGTGTACAGAAGTTATATATATGGTTGTGTT
*
6209785 TGAAGGGTACATTTTGTTGTGTTCGGAG
66 TGAAGGGTACATTTTGTTATGTTCGGAG
*
6209813 GGTAGATTGGTTGT
1 GGTAAATTGGTTGT
6209827 GTTTTATGGG
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
92 5 0.05
93 86 0.91
94 3 0.03
ACGTcount: A:0.20, C:0.05, G:0.32, T:0.44
Consensus pattern (93 bp):
GGTAAATTGGTTGTATTTGAAGCGTATACTTGGTTGTGTACAGAAGTTATATATATGGTTGTGTT
TGAAGGGTACATTTTGTTATGTTCGGAG
Found at i:6209804 original size:48 final size:47
Alignment explanation
Indices: 6209629--6209830 Score: 155
Period size: 48 Copynumber: 4.3 Consensus size: 47
6209619 TGTTAAAAGG
* * * * *
6209629 TATATTGGTTTTGTTTGAAGGGTATACTTGGTTGTGTACGAAAGTTA
1 TATATTGGTTGTGTTTGAAGGGTACACTTGGTTGTGTTCGGAGGTTA
* * * * *
6209676 TATATATGG-TGTTGTTTTGCA-GGTACATTTTGTTATGTTCGGAGGGTA
1 TATAT-TGGTTG-TG-TTTGAAGGGTACACTTGGTTGTGTTCGGAGGTTA
* * * * *
6209724 -A-ATTGGTTGTATTTGGAGCGTATACTTGGTTGTGTTCAGAGGTTA
1 TATATTGGTTGTGTTTGAAGGGTACACTTGGTTGTGTTCGGAGGTTA
* * *
6209769 TATATATGGTTGTGTTTGAAGGGTACATTTTGTTGTGTTCGGAGG--G
1 TATAT-TGGTTGTGTTTGAAGGGTACACTTGGTTGTGTTCGGAGGTTA
*
6209815 TAGATTGGTTGTGTTT
1 TATATTGGTTGTGTTT
6209831 TATGGGTGAT
Statistics
Matches: 119, Mismatches: 28, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
44 5 0.04
45 35 0.29
46 9 0.08
47 9 0.08
48 56 0.47
49 5 0.04
ACGTcount: A:0.19, C:0.05, G:0.31, T:0.45
Consensus pattern (47 bp):
TATATTGGTTGTGTTTGAAGGGTACACTTGGTTGTGTTCGGAGGTTA
Found at i:6212080 original size:16 final size:14
Alignment explanation
Indices: 6212058--6212099 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
6212048 ATTGGGATAG
6212058 ATAATTAAAATAAGA
1 ATAATTAAAATAA-A
6212073 ATTAATT-AAATAAA
1 A-TAATTAAAATAAA
6212087 AT-ATTAAAATAAA
1 ATAATTAAAATAAA
6212100 TAGAATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.12
13 8 0.32
14 2 0.08
15 7 0.28
16 5 0.20
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
ATAATTAAAATAAA
Found at i:6221153 original size:6 final size:6
Alignment explanation
Indices: 6221138--6221170 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
6221128 AAGCATGAAA
6221138 TCTG-T TCTGAT TCTGAT TCTGAT TCTGAT TCTG
1 TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT TCTG
6221171 TAAGAGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.52
Consensus pattern (6 bp):
TCTGAT
Found at i:6232276 original size:27 final size:27
Alignment explanation
Indices: 6232246--6232376 Score: 163
Period size: 27 Copynumber: 4.9 Consensus size: 27
6232236 TAAAATTATT
**
6232246 GAAATACCCCCATAGAATAAAATGACC
1 GAAATACCCCCATAGGGTAAAATGACC
* * **
6232273 GAAATACCCTCATAGGGTAAAATAATT
1 GAAATACCCCCATAGGGTAAAATGACC
6232300 GAAATACCCCCATAGGGTAAAATGACC
1 GAAATACCCCCATAGGGTAAAATGACC
* * * *
6232327 AAAATACACTCATAGGGTAAAATGATC
1 GAAATACCCCCATAGGGTAAAATGACC
*
6232354 GAAATACCCCTATAGGGTAAAAT
1 GAAATACCCCCATAGGGTAAAAT
6232377 AACTGTTATA
Statistics
Matches: 86, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (27 bp):
GAAATACCCCCATAGGGTAAAATGACC
Found at i:6232369 original size:54 final size:54
Alignment explanation
Indices: 6232234--6232376 Score: 214
Period size: 54 Copynumber: 2.6 Consensus size: 54
6232224 CCCTAAAATA
* ** * *
6232234 GGTAAAATTATTGAAATACCCCCATAGAATAAAATGACCGAAATACCCTCATAG
1 GGTAAAATAATTGAAATACCCCCATAGGGTAAAATGACCAAAATACACTCATAG
6232288 GGTAAAATAATTGAAATACCCCCATAGGGTAAAATGACCAAAATACACTCATAG
1 GGTAAAATAATTGAAATACCCCCATAGGGTAAAATGACCAAAATACACTCATAG
* * *
6232342 GGTAAAATGATCGAAATACCCCTATAGGGTAAAAT
1 GGTAAAATAATTGAAATACCCCCATAGGGTAAAAT
6232377 AACTGTTATA
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (54 bp):
GGTAAAATAATTGAAATACCCCCATAGGGTAAAATGACCAAAATACACTCATAG
Found at i:6232446 original size:25 final size:25
Alignment explanation
Indices: 6232418--6232483 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
6232408 GTTATGGTCT
6232418 TATGTTATGTATGACTGATTTACTC
1 TATGTTATGTATGACTGATTTACTC
*
6232443 TATGTTATGTACGACTGATTTACTC
1 TATGTTATGTATGACTGATTTACTC
*
6232468 TATGATATGTATGACT
1 TATGTTATGTATGACT
6232484 ATGATTGAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (25 bp):
TATGTTATGTATGACTGATTTACTC
Found at i:6246288 original size:42 final size:42
Alignment explanation
Indices: 6246235--6246316 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
6246225 GGACATAAAT
* * *
6246235 GTGTGCCCAGGCTGTGTGAGCCATACGAG-TAAGGACATGGGC
1 GTGTGCCCAGGCCGTGTGAGCCACACAAGCT-AGGACATGGGC
*
6246277 GTGTGCTCAGGCCGTGTGAGCCACACAAGCTAGGACATGG
1 GTGTGCCCAGGCCGTGTGAGCCACACAAGCTAGGACATGG
6246317 ACGTCTGTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.37, T:0.18
Consensus pattern (42 bp):
GTGTGCCCAGGCCGTGTGAGCCACACAAGCTAGGACATGGGC
Found at i:6246331 original size:42 final size:42
Alignment explanation
Indices: 6246242--6246331 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 42
6246232 AATGTGTGCC
* * * * *
6246242 CAGGCTGTGTGAGCCATACGAGTAAGGACATGGGCGTGTGCT
1 CAGGCCGTGTGAGCCACACAAGTAAGGACATGGACGTCTGCT
6246284 CAGGCCGTGTGAGCCACACAAGCT-AGGACATGGACGTCTG-T
1 CAGGCCGTGTGAGCCACACAAG-TAAGGACATGGACGTCTGCT
6246325 CTAGGCC
1 C-AGGCC
6246332 ATGTAACTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.05
42 38 0.93
43 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.34, T:0.19
Consensus pattern (42 bp):
CAGGCCGTGTGAGCCACACAAGTAAGGACATGGACGTCTGCT
Found at i:6247390 original size:20 final size:20
Alignment explanation
Indices: 6247343--6247390 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
6247333 ACATGTTATG
*
6247343 TTCTGTTCTGCTCTACTCTA
1 TTCTGTTCTGCTATACTCTA
* * **
6247363 CTCCGTTCTGCTATGTTCTA
1 TTCTGTTCTGCTATACTCTA
6247383 TTCTGTTC
1 TTCTGTTC
6247391 AGTATTGCTC
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.08, C:0.29, G:0.12, T:0.50
Consensus pattern (20 bp):
TTCTGTTCTGCTATACTCTA
Found at i:6255514 original size:27 final size:27
Alignment explanation
Indices: 6255374--6255518 Score: 157
Period size: 27 Copynumber: 5.4 Consensus size: 27
6255364 GGTATAACAA
* *
6255374 TCATTTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCTTATGAGGGTATTTCGG
* * *
6255401 CCATTTTACCTTATGGGGGTATTTCGA
1 TCATTTTACCTTATGAGGGTATTTCGG
* * * *
6255428 TTATTTTATCTTATGAGGTTATTTCGA
1 TCATTTTACCTTATGAGGGTATTTCGG
* * *
6255455 TCATTTTACCCTA-CAGGGGTATTTCAG
1 TCATTTTACCTTATGA-GGGTATTTCGG
6255482 TCATTTTACCTTATGAGGGTATTTCGG
1 TCATTTTACCTTATGAGGGTATTTCGG
*
6255509 TTATTTTACC
1 TCATTTTACC
6255519 CTATAAGGTT
Statistics
Matches: 95, Mismatches: 21, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
26 1 0.01
27 93 0.98
28 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.45
Consensus pattern (27 bp):
TCATTTTACCTTATGAGGGTATTTCGG
Found at i:6255528 original size:81 final size:81
Alignment explanation
Indices: 6255373--6255528 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
6255363 GGGTATAACA
* * *
6255373 ATCATTTTACCCTATGAGGGTATTTCAGCCATTTTACCTTATGGGGGTATTTCGATTATTTTATC
1 ATCATTTTACCCTAAGAGGGTATTTCAGCCATTTTACCTTATGAGGGTATTTCGATTATTTTACC
* *
6255438 TTATGAGGTTATTTCG
66 CTATAAGGTTATTTCG
* *
6255454 ATCATTTTACCCTACAG-GGGTATTTCAGTCATTTTACCTTATGAGGGTATTTCGGTTATTTTAC
1 ATCATTTTACCCTA-AGAGGGTATTTCAGCCATTTTACCTTATGAGGGTATTTCGATTATTTTAC
6255518 CCTATAAGGTT
65 CCTATAAGGTT
6255529 CTCGATGCAG
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
81 66 0.99
82 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (81 bp):
ATCATTTTACCCTAAGAGGGTATTTCAGCCATTTTACCTTATGAGGGTATTTCGATTATTTTACC
CTATAAGGTTATTTCG
Found at i:6257477 original size:22 final size:22
Alignment explanation
Indices: 6257442--6257590 Score: 99
Period size: 22 Copynumber: 6.5 Consensus size: 22
6257432 ATCACCCATA
* * *
6257442 AAACATAACTAATTTTCCCTCG
1 AAACACAACCAATTTACCCTCG
6257464 AAACACAACCAATTTACCCTCCG
1 AAACACAACCAATTTACCCT-CG
* * *
6257487 -AACACAAGCAAATGTACCCTCC
1 AAACACAA-CCAATTTACCCTCG
*
6257509 AAACACAACCATATATATAACCTCTG
1 AAACACAACCA-AT-T-TACCCTC-G
* *
6257535 -AACACAACAAAGTATT-CCCTCC
1 AAACACAACCAA-T-TTACCCTCG
6257557 AAACACAACCAATTTACCCTTCG
1 AAACACAACCAATTTACCC-TCG
*
6257580 -AACATAACCAA
1 AAACACAACCAA
6257591 ATGTACCTGC
Statistics
Matches: 100, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
21 2 0.02
22 41 0.41
23 37 0.37
24 2 0.02
25 18 0.18
ACGTcount: A:0.42, C:0.33, G:0.05, T:0.20
Consensus pattern (22 bp):
AAACACAACCAATTTACCCTCG
Found at i:6257504 original size:23 final size:22
Alignment explanation
Indices: 6257465--6257597 Score: 97
Period size: 23 Copynumber: 5.8 Consensus size: 22
6257455 TTTCCCTCGA
* *
6257465 AACACAACCAATTTACCCTCCG
1 AACACAACAAATGTACCCTCCG
*
6257487 AACACAAGCAAATGTACCCTCCA
1 AACACAA-CAAATGTACCCTCCG
* * *
6257510 AACACAACCATATATATAACCTCTG
1 AACACAA-CA-A-ATGTACCCTCCG
*
6257535 AACACAACAAA-GTATTCCCTCCA
1 AACACAACAAATGTA--CCCTCCG
* * *
6257558 AACACAACCAATTTACCCTTCG
1 AACACAACAAATGTACCCTCCG
*
6257580 AACATAACCAAATGTACC
1 AACACAA-CAAATGTACC
6257598 TGCAAAACAC
Statistics
Matches: 85, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
21 2 0.02
22 19 0.22
23 44 0.52
24 5 0.06
25 15 0.18
ACGTcount: A:0.42, C:0.34, G:0.05, T:0.19
Consensus pattern (22 bp):
AACACAACAAATGTACCCTCCG
Found at i:6257555 original size:48 final size:48
Alignment explanation
Indices: 6257457--6257665 Score: 181
Period size: 48 Copynumber: 4.5 Consensus size: 48
6257447 TAACTAATTT
* * * *
6257457 TCCCTCGAAACACAACCAAT-T-TACCCTCCGAACACAAGCAAATGTA
1 TCCCTCCAAACACAACCAATATATAACCTTCGAACACAACCAAATGTA
6257503 -CCCTCCAAACACAACCATATATATAACC-TCTGAACACAA-CAAA-GTA
1 TCCCTCCAAACACAACCA-ATATATAACCTTC-GAACACAACCAAATGTA
* *
6257549 TTCCCTCCAAACACAACCAAT-T-TACCCTTCGAACATAACCAAATGTA
1 -TCCCTCCAAACACAACCAATATATAACCTTCGAACACAACCAAATGTA
* * * * *
6257596 --CCTGCAAAACACTACCATACATATAACCTTCGAACATAATC-AA-GTA
1 TCCCT-CCAAACACAACCA-ATATATAACCTTCGAACACAACCAAATGTA
6257642 TACCCTCCAAACACAACCAATATA
1 T-CCCTCCAAACACAACCAATATA
6257666 CCCTTTAACA
Statistics
Matches: 134, Mismatches: 13, Indels: 31
0.75 0.07 0.17
Matches are distributed among these distances:
44 3 0.02
45 38 0.28
46 16 0.12
47 18 0.13
48 56 0.42
49 3 0.02
ACGTcount: A:0.42, C:0.33, G:0.05, T:0.20
Consensus pattern (48 bp):
TCCCTCCAAACACAACCAATATATAACCTTCGAACACAACCAAATGTA
Found at i:6257620 original size:93 final size:93
Alignment explanation
Indices: 6257456--6257670 Score: 292
Period size: 93 Copynumber: 2.3 Consensus size: 93
6257446 ATAACTAATT
* * * *
6257456 TTCCCTCGAAACACAACCAATTTACCCTCCGAACACAAGCAAATGTACCCTCCAAACACAACCAT
1 TTCCCTCCAAACACAACCAATTTACCCTTCGAACACAACCAAATGTACCCTCAAAACACAACCAT
*
6257521 ATATATAACC-TCTGAACACAA-CAAAGTA
66 ACATATAACCTTC-GAACACAATC-AAGTA
* *
6257549 TTCCCTCCAAACACAACCAATTTACCCTTCGAACATAACCAAATGTA-CCTGCAAAACACTACCA
1 TTCCCTCCAAACACAACCAATTTACCCTTCGAACACAACCAAATGTACCCT-CAAAACACAACCA
*
6257613 TACATATAACCTTCGAACATAATCAAGTA
65 TACATATAACCTTCGAACACAATCAAGTA
* *
6257642 TACCCTCCAAACACAACCAATATACCCTT
1 TTCCCTCCAAACACAACCAATTTACCCTT
6257671 TAACATATCC
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
92 3 0.03
93 103 0.94
94 3 0.03
ACGTcount: A:0.41, C:0.33, G:0.05, T:0.20
Consensus pattern (93 bp):
TTCCCTCCAAACACAACCAATTTACCCTTCGAACACAACCAAATGTACCCTCAAAACACAACCAT
ACATATAACCTTCGAACACAATCAAGTA
Found at i:6259700 original size:27 final size:27
Alignment explanation
Indices: 6259670--6259721 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
6259660 TTGTTGATTC
*
6259670 TCCCCTCTGTTGCATCACCGTCGACTG
1 TCCCCTCTGCTGCATCACCGTCGACTG
* *
6259697 TCCCTTCTGCTGCATCGCCGTCGAC
1 TCCCCTCTGCTGCATCACCGTCGAC
6259722 ACTCCTCTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.10, C:0.42, G:0.19, T:0.29
Consensus pattern (27 bp):
TCCCCTCTGCTGCATCACCGTCGACTG
Found at i:6267810 original size:43 final size:42
Alignment explanation
Indices: 6267733--6267909 Score: 169
Period size: 43 Copynumber: 4.1 Consensus size: 42
6267723 TAAAATTCAA
* * * * *
6267733 GTTCTTTAGTTGCGTTTATGGGGAAAGCGCCGCTAAAGGTCAT
1 GTTCTTTAGTGGTGTTTGT-GGGAAAACACCGCTAAAGGTCAT
* *
6267776 GTTCTTTAGTGGTGTTTGTGGGAAAAAAGTCGCTAAAGGTCAT
1 GTTCTTTAGTGGTGTTTGTGGGAAAACA-CCGCTAAAGGTCAT
* *
6267819 GTTCTATAGCT--TCGTTTGTGGGGAAACCACCGCTAAAGGTCAT
1 GTTCTTTAG-TGGT-GTTTGT-GGGAAAACACCGCTAAAGGTCAT
** * *
6267862 GTTCTTTAACGGCGTTAGTGGGAAAAGCACCGCTAAAGGTCAT
1 GTTCTTTAGTGGTGTTTGTGGGAAAA-CACCGCTAAAGGTCAT
6267905 GTTCT
1 GTTCT
6267910 ACAGCGACGT
Statistics
Matches: 110, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
42 13 0.12
43 89 0.81
44 8 0.07
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (42 bp):
GTTCTTTAGTGGTGTTTGTGGGAAAACACCGCTAAAGGTCAT
Found at i:6267883 original size:86 final size:86
Alignment explanation
Indices: 6267745--6267910 Score: 235
Period size: 86 Copynumber: 1.9 Consensus size: 86
6267735 TCTTTAGTTG
* * ** * * *
6267745 CGTTTATGGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGTGTTTGTGGGAAAA-AAGTCGC
1 CGTTTATGGGGAAACCACCGCTAAAGGTCATGTTCTTTAACGGCGTTAGTGGGAAAAGAA-CCGC
6267809 TAAAGGTCATGTTCTATAGCTT
65 TAAAGGTCATGTTCTATAGCTT
* *
6267831 CGTTTGTGGGGAAACCACCGCTAAAGGTCATGTTCTTTAACGGCGTTAGTGGGAAAAGCACCGCT
1 CGTTTATGGGGAAACCACCGCTAAAGGTCATGTTCTTTAACGGCGTTAGTGGGAAAAGAACCGCT
6267896 AAAGGTCATGTTCTA
66 AAAGGTCATGTTCTA
6267911 CAGCGACGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
86 69 0.99
87 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (86 bp):
CGTTTATGGGGAAACCACCGCTAAAGGTCATGTTCTTTAACGGCGTTAGTGGGAAAAGAACCGCT
AAAGGTCATGTTCTATAGCTT
Found at i:6273747 original size:14 final size:15
Alignment explanation
Indices: 6273712--6273741 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6273702 AAGAAGCTCT
*
6273712 AAATTTTTGTTTTAG
1 AAATTTTTGTTTAAG
6273727 AAATTTTTGTTTAAG
1 AAATTTTTGTTTAAG
6273742 GATTTTGCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (15 bp):
AAATTTTTGTTTAAG
Found at i:6274179 original size:13 final size:13
Alignment explanation
Indices: 6274144--6274194 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
6274134 CCCATTCTTC
* *
6274144 TCCCCTTTCCCCT
1 TCCCCTATCCCTT
*
6274157 TCTCCT-TCCCTT
1 TCCCCTATCCCTT
6274169 TCCCCTATCCCTT
1 TCCCCTATCCCTT
*
6274182 TCCCCTACCCCTT
1 TCCCCTATCCCTT
6274195 CCCTTTCCCG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
12 10 0.30
13 23 0.70
ACGTcount: A:0.04, C:0.57, G:0.00, T:0.39
Consensus pattern (13 bp):
TCCCCTATCCCTT
Found at i:6274179 original size:25 final size:25
Alignment explanation
Indices: 6274144--6274197 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
6274134 CCCATTCTTC
* * * *
6274144 TCCCCTTTCCCCTTCTCCTTCCCTT
1 TCCCCTATCCCCTTCCCCTACCCCT
*
6274169 TCCCCTATCCCTTTCCCCTACCCCT
1 TCCCCTATCCCCTTCCCCTACCCCT
6274194 TCCC
1 TCCC
6274198 TTTCCCGTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.04, C:0.59, G:0.00, T:0.37
Consensus pattern (25 bp):
TCCCCTATCCCCTTCCCCTACCCCT
Found at i:6274181 original size:18 final size:17
Alignment explanation
Indices: 6274146--6274199 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
6274136 CATTCTTCTC
6274146 CCCTTTCCCCTTCTCCTT
1 CCCTTTCCCCTTC-CCTT
6274164 CCCTTTCCCCTATCCCTTT
1 CCCTTTCCCCT-TCCC-TT
* *
6274183 CCCCTACCCCTTCCCTT
1 CCCTTTCCCCTTCCCTT
6274200 TCCCGTTTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 2 0.06
18 17 0.53
19 13 0.41
ACGTcount: A:0.04, C:0.57, G:0.00, T:0.39
Consensus pattern (17 bp):
CCCTTTCCCCTTCCCTT
Found at i:6276746 original size:20 final size:20
Alignment explanation
Indices: 6276713--6276752 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6276703 AAATATTTTC
** *
6276713 AGTAAATCGTTTTCTAGAAA
1 AGTAAATCACTTTCCAGAAA
6276733 AGTAAATCACTTTCCAGAAA
1 AGTAAATCACTTTCCAGAAA
6276753 TTATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (20 bp):
AGTAAATCACTTTCCAGAAA
Done.