Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 166 of 295
Found at i:52346713 original size:46 final size:45
Alignment explanation
Indices: 52346646--52346820 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
52346636 TGTAACCCGC
*
52346646 CCATAAGTGAACTCGGACTCAACTCAAGGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * *
52346692 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * *
52346738 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* *
52346785 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
52346821 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.65
47 33 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:52346782 original size:93 final size:93
Alignment explanation
Indices: 52346654--52346825 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
52346644 GCCCATAAGT
* * * * *
52346654 GAACTCGGACTCAACTCAAGGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
52346719 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
52346747 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
*
52346812 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
52346826 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:52363228 original size:30 final size:30
Alignment explanation
Indices: 52363193--52363250 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
52363183 CACGGCCATG
*
52363193 ACACACAGATGTGTGG-TCTACCCGTGTGTC
1 ACACACAGACGTGTGGCTC-ACCCGTGTGTC
* *
52363223 ACACACGGGCGTGTGGCTCACCCGTGTG
1 ACACACAGACGTGTGGCTCACCCGTGTG
52363251 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.22
Consensus pattern (30 bp):
ACACACAGACGTGTGGCTCACCCGTGTGTC
Found at i:52373120 original size:41 final size:41
Alignment explanation
Indices: 52373064--52373143 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
52373054 ATATTTAAGT
* * *
52373064 AAAAATTTTTTGATCATTTGTTCCTAAGTGGTGATTGATTA
1 AAAAAATTTTCGATCATTTGTTCCCAAGTGGTGATTGATTA
52373105 AAAAAATTTTCGATCATTTGTTCCCAAGTGGTGATTGAT
1 AAAAAATTTTCGATCATTTGTTCCCAAGTGGTGATTGAT
52373144 CCTCGTAGCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (41 bp):
AAAAAATTTTCGATCATTTGTTCCCAAGTGGTGATTGATTA
Found at i:52374892 original size:30 final size:30
Alignment explanation
Indices: 52374858--52374935 Score: 138
Period size: 30 Copynumber: 2.6 Consensus size: 30
52374848 GACATGGTCA
52374858 TGACACACGGGCGTGTGGTCTACCCGTGTG
1 TGACACACGGGCGTGTGGTCTACCCGTGTG
*
52374888 TGACACACGGGCGTGTGGTCTACCTGTGTG
1 TGACACACGGGCGTGTGGTCTACCCGTGTG
*
52374918 TGACACACGGGTGTGTGG
1 TGACACACGGGCGTGTGG
52374936 ATCACTCGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.14, C:0.23, G:0.38, T:0.24
Consensus pattern (30 bp):
TGACACACGGGCGTGTGGTCTACCCGTGTG
Found at i:52376850 original size:24 final size:24
Alignment explanation
Indices: 52376789--52376857 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
52376779 ATTATATTAT
* *
52376789 CAACCAAATTCGCACACATAGTGC
1 CAACTAAACTCGCACACATAGTGC
* * *
52376813 TAATTAAGCTCGCACACATAGTGC
1 CAACTAAACTCGCACACATAGTGC
52376837 CATACTAAAC-CGCACACATAG
1 CA-ACTAAACTCGCACACATAG
52376858 CACCTGAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.38, C:0.30, G:0.13, T:0.19
Consensus pattern (24 bp):
CAACTAAACTCGCACACATAGTGC
Found at i:52376912 original size:24 final size:24
Alignment explanation
Indices: 52376885--52376934 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
52376875 CATGCCTCGA
52376885 CATTCAAATCAGCACACATAGTGC
1 CATTCAAATCAGCACACATAGTGC
* * *
52376909 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCAGCACACATAGTGC
52376933 CA
1 CA
52376935 ATGTTAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (24 bp):
CATTCAAATCAGCACACATAGTGC
Found at i:52377013 original size:94 final size:90
Alignment explanation
Indices: 52376890--52377073 Score: 260
Period size: 94 Copynumber: 2.0 Consensus size: 90
52376880 CTCGACATTC
* *
52376890 AAATCAGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAAATCATTATAATAA
1 AAATCAGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAAATCATTATAATAA
52376955 GGCAATTTACTTAATTCAAATAGCATATA
66 GGC-A---ACTTAATTCAAATAGCATATA
* * * * * *
52376984 AAATCTGCATACAAAGTGACATTTAATTCCTCCCACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCAGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAAATCATTATAATAA
52377049 GGCAACTTAATTCAAATAGCATATA
66 GGCAACTTAATTCAAATAGCATATA
52377074 CGGTCACATT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
90 21 0.26
93 1 0.01
94 60 0.73
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (90 bp):
AAATCAGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAAATCATTATAATAA
GGCAACTTAATTCAAATAGCATATA
Found at i:52384469 original size:27 final size:27
Alignment explanation
Indices: 52384427--52384478 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
52384417 GAAATGTGAA
*
52384427 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
52384454 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
52384479 GGTTCATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:52384535 original size:103 final size:103
Alignment explanation
Indices: 52384350--52384614 Score: 415
Period size: 103 Copynumber: 2.6 Consensus size: 103
52384340 GTTGTACATA
** *
52384350 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
52384415 TTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGTTGCTATGTGCTGATTCCCCC
* *
52384453 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
52384518 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAA-GGGGTTGCTATGTGCTGATTCCCCC
* * *
52384556 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
52384615 AATAACGGTT
Statistics
Matches: 148, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
102 3 0.02
103 145 0.98
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGTTGCTATGTGCTGATTCCCCC
Found at i:52404123 original size:6 final size:6
Alignment explanation
Indices: 52404105--52404192 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
52404095 AAGAAACATT
*
52404105 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCACGTG A-CAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
52404154 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
52404193 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:52404150 original size:31 final size:31
Alignment explanation
Indices: 52404114--52404192 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
52404104 TATCAGAACT
*
52404114 AGAATCAGAATCAGAATCAGAATCACGTGAC
1 AGAATCAGAATCAGAATCAGAATCACGTAAC
* *
52404145 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCACGTAAC
*
52404176 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
52404193 GTGAATGCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCACGTAAC
Found at i:52404182 original size:25 final size:24
Alignment explanation
Indices: 52404119--52404165 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
52404109 GAACTAGAAT
52404119 CAGAATCAGAATCAGAATCACGTGA
1 CAGAATCAGAATCAGAATCA-GTGA
52404144 CAGAATCAGAATCAGAATCAGT
1 CAGAATCAGAATCAGAATCAGT
52404166 ATCAGGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.17
Consensus pattern (24 bp):
CAGAATCAGAATCAGAATCAGTGA
Found at i:52404642 original size:27 final size:27
Alignment explanation
Indices: 52404612--52404789 Score: 212
Period size: 27 Copynumber: 6.6 Consensus size: 27
52404602 TACCCCGTAA
* *
52404612 GGGTATCTCGGTAATTCCACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
**
52404639 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
52404666 GGGTATTTCGGTATTTCTACCCTACAT
1 GGGTATTTCGGTAATTCTACCCTACAG
** * *
52404693 GGGTATTTTAGTAATTCTACTCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
** * *
52404720 GGGTATTTAAGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
52404747 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
52404774 GGGTATTTCGGTAATT
1 GGGTATTTCGGTAATT
52404790 TTGTAAATCG
Statistics
Matches: 129, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 129 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:52404788 original size:81 final size:81
Alignment explanation
Indices: 52404610--52404789 Score: 270
Period size: 81 Copynumber: 2.2 Consensus size: 81
52404600 TTTACCCCGT
* * *
52404610 AAGGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
1 AAGGGTATTTCGGTAATTCCACCCTACAGGGGTATTTAAGTAATTCTACCCTACAAGGGTATTTC
52404675 GGTATTTCTACCCTAC
66 GGTATTTCTACCCTAC
* ** * * * *
52404691 ATGGGTATTTTAGTAATTCTACTCTATAGGGGTATTTAAGTATTTCTACCCTACAAGGGTATTTC
1 AAGGGTATTTCGGTAATTCCACCCTACAGGGGTATTTAAGTAATTCTACCCTACAAGGGTATTTC
52404756 GGTATTTCTACCCTAC
66 GGTATTTCTACCCTAC
52404772 AAGGGTATTTCGGTAATT
1 AAGGGTATTTCGGTAATT
52404790 TTGTAAATCG
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (81 bp):
AAGGGTATTTCGGTAATTCCACCCTACAGGGGTATTTAAGTAATTCTACCCTACAAGGGTATTTC
GGTATTTCTACCCTAC
Found at i:52404839 original size:27 final size:26
Alignment explanation
Indices: 52404773--52404843 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 26
52404763 CTACCCTACA
*
52404773 AGGGTATTTCGGTAATTTTGTAAATCG
1 AGGGTATTT-GGTAATTCTGTAAATCG
**
52404800 AGGGTAAAATGGTAATTCTGTAAATC-
1 AGGGT-ATTTGGTAATTCTGTAAATCG
52404826 AGGGGTACTTTGGTAATT
1 A-GGGTA-TTTGGTAATT
52404844 TTACAAGTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
26 2 0.06
27 32 0.89
28 2 0.06
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (26 bp):
AGGGTATTTGGTAATTCTGTAAATCG
Found at i:52404858 original size:27 final size:28
Alignment explanation
Indices: 52404821--52405166 Score: 263
Period size: 27 Copynumber: 12.8 Consensus size: 28
52404811 GTAATTCTGT
*
52404821 AAATCAGGGGTACTTTGGTAATTTTACA
1 AAATCAGGGGTATTTTGGTAATTTTACA
** * ***
52404849 AGTTGA-GGGTATTTCAATAATTTT-C-
1 AAATCAGGGGTATTTTGGTAATTTTACA
** * *
52404874 AGGTC-GAGGGTATTTTAGTAATTTCA-A
1 AAATCAG-GGGTATTTTGGTAATTTTACA
52404901 AAATCAGGGGTATTTTGGTAATTTTACA
1 AAATCAGGGGTATTTTGGTAATTTTACA
* *
52404929 AACT-AGGGGTATTTTGATAATTTTAC-
1 AAATCAGGGGTATTTTGGTAATTTTACA
*
52404955 AAACCAGGGGTATTTTGGTAATTTTAC-
1 AAATCAGGGGTATTTTGGTAATTTTACA
* * *
52404982 AAACCAGTGGTATTTTGGTAATTTTA-T
1 AAATCAGGGGTATTTTGGTAATTTTACA
* *
52405009 AAA-CAAAGGGTATTTTAGTAATTTTAC-
1 AAATC-AGGGGTATTTTGGTAATTTTACA
* * **
52405036 AAACCAGAGGTATTTTGGTAATTTT-GT
1 AAATCAGGGGTATTTTGGTAATTTTACA
* *
52405063 AAACCAAGGGTATTTTGGTAATTTTAC-
1 AAATCAGGGGTATTTTGGTAATTTTACA
* * *
52405090 AAACCAGGGGTATTTTGGTGATTTTA-T
1 AAATCAGGGGTATTTTGGTAATTTTACA
* * * *
52405117 AAACCAAGGGTATTCTAGTAATTTTAC-
1 AAATCAGGGGTATTTTGGTAATTTTACA
* *
52405144 AAACCAGGGGTATTTTGATAATT
1 AAATCAGGGGTATTTTGGTAATT
52405167 CTACCTTACA
Statistics
Matches: 261, Mismatches: 42, Indels: 31
0.78 0.13 0.09
Matches are distributed among these distances:
25 3 0.01
26 19 0.07
27 230 0.88
28 9 0.03
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (28 bp):
AAATCAGGGGTATTTTGGTAATTTTACA
Found at i:52404886 original size:26 final size:27
Alignment explanation
Indices: 52404839--52404897 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
52404829 GGTACTTTGG
*
52404839 TAATTTTACAAGTTGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * *
52404866 TAATTTT-CAGGTCGAGGGTATTTTAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
52404892 TAATTT
1 TAATTT
52404898 CAAAAATCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:52405186 original size:81 final size:81
Alignment explanation
Indices: 52404880--52405166 Score: 378
Period size: 81 Copynumber: 3.5 Consensus size: 81
52404870 TTTCAGGTCG
* * * *
52404880 AGGGTATTTTAGTAATTTCAAAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTG
*
52404945 ATAATTTTACAAACCA
66 GTAATTTTACAAACCA
* * * * * *
52404961 GGGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTG
52405026 GTAATTTTACAAACC-
66 GTAATTTTACAAACCA
* ** * *
52405041 AGAGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 AG-GGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACAAGGGGTATTTT
* *
52405106 GGTGATTTTATAAACCA
65 GGTAATTTTACAAACCA
* *
52405123 AGGGTATTCTAGTAATTTTACAAACCAGGGGTATTTTGATAATT
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
52405167 CTACCTTACA
Statistics
Matches: 176, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
80 1 0.01
81 173 0.98
82 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACAAGGGGTATTTTG
GTAATTTTACAAACCA
Found at i:52405193 original size:54 final size:54
Alignment explanation
Indices: 52404881--52405166 Score: 401
Period size: 54 Copynumber: 5.3 Consensus size: 54
52404871 TTCAGGTCGA
* * * * * * *
52404881 GGGTATTTTAGTAATTTCAAAAATCAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * * *
52404935 GGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
52404989 TGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
52405043 AGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
52405097 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
*
52405151 GGGTATTTTGATAATT
1 GGGTATTTTGGTAATT
52405167 CTACCTTACA
Statistics
Matches: 209, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 209 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:52407981 original size:49 final size:49
Alignment explanation
Indices: 52407908--52408095 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
52407898 TAGCCGAAGC
* *
52407908 TATCTGGTACGCATTGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
52407957 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * *
52408008 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
52408057 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
52408096 CGTGACCTCA
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 77 0.64
50 2 0.02
51 41 0.34
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:52408086 original size:100 final size:100
Alignment explanation
Indices: 52407913--52408100 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
52407903 GAAGCTATCT
* *
52407913 GGTACGCATTGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
52407978 TGCACTTAGTACTACACATGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
*
52408013 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
52408078 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
52408101 CCTCACAATA
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:52413216 original size:49 final size:49
Alignment explanation
Indices: 52413143--52413325 Score: 215
Period size: 49 Copynumber: 3.7 Consensus size: 49
52413133 TAGCCGAAGC
* *
52413143 TATCTAGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGACCAAT
1 TATCTAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
52413192 AATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * **
52413243 TTTC-GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
** *
52413291 TATCCGGTACACATAGTAGCCTGCATTTAGTACTA
1 TATCTAGTACACATAGTAGCCTGCACTTAGTACTA
52413326 GACACATGAC
Statistics
Matches: 111, Mismatches: 20, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
48 6 0.05
49 66 0.59
50 34 0.31
51 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (49 bp):
TATCTAGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:52416393 original size:22 final size:23
Alignment explanation
Indices: 52416350--52416397 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
52416340 GCACTACCAT
*
52416350 TTTTTTTAATAAATTTCTTTTTA
1 TTTTTTTAATAAATTTCATTTTA
52416373 TTTTTTTAA-AAATATT-ATTTTA
1 TTTTTTTAATAAAT-TTCATTTTA
52416395 TTT
1 TTT
52416398 AGTGGTACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTTTTAATAAATTTCATTTTA
Found at i:52416950 original size:107 final size:104
Alignment explanation
Indices: 52416768--52417035 Score: 328
Period size: 107 Copynumber: 2.6 Consensus size: 104
52416758 TTTTATGTTG
* * *
52416768 TTTTTAATTTATTTTAAAGTT-TTTTGTTAGTTACTATTATAAATTATTTGTTTAGTTTAATGTT
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTAATTGTTTAGTTTAAGGTT
* *
52416832 TATTGTGATTTGTTAGGTTATGAATATTAAT-TTTTATTAA
66 TATTGTGATTTGTTAGGTTATGAAT-GTAATCTTTAATT-A
* * * ** *
52416872 TTTTTAATTTCTTTTAAAGTTATTTTGTTAGTAAGTTTCTGATTAGGTTAATTGTTT-GTTTAGG
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTAT-T-A-TAAATTAATTGTTTAGTTTAAG
*
52416936 GTTTATTGTGATTTGTTAGGTTATGAATGTAATCTTTAATTT
63 GTTTATTGTGATTTGTTAGGTTATGAATGTAATCTTTAATTA
* * *
52416978 TTTTTAATTTATTTGAACGTTATTTTGTTAGTAACTATTATAAATTAATT-ATTAGTTT
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTAATTGTTTAGTTT
52417036 GTGATGACAC
Statistics
Matches: 138, Mismatches: 20, Indels: 13
0.81 0.12 0.08
Matches are distributed among these distances:
102 2 0.01
103 12 0.09
104 21 0.15
105 14 0.10
106 38 0.28
107 40 0.29
108 11 0.08
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.58
Consensus pattern (104 bp):
TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAACTATTATAAATTAATTGTTTAGTTTAAGGTT
TATTGTGATTTGTTAGGTTATGAATGTAATCTTTAATTA
Found at i:52417484 original size:261 final size:263
Alignment explanation
Indices: 52417014--52417538 Score: 955
Period size: 261 Copynumber: 2.0 Consensus size: 263
52417004 GTTAGTAACT
*
52417014 ATTATAAATTAATTATTAGTTTGTGATGACACCAGAGAAAAATAGATGAATAATAAAAATCGAGA
1 ATTATAAATTAATTATTAGTTTGTGATGACACCAGAGAAAAATAGATAAATAATAAAAATCGAGA
*
52417079 AAAAAATTTATTTTCTATCATAGATATTGGTAGAAATAGCAATAAATCTGATATTGTCTGATGAG
66 AAAAAATTTATTTTCTATCATAGATATTGGTAGAAATAGCAATAAATCTGATATTGCCTGATGAG
*
52417144 ATAACAACTTCAACATGAAGGGAGAAAGTTAATAAGATGATGAGAGAATTGTAAGATTACAAAAT
131 ATAACAACTTCAACATGAAGGGAGAAAGTTAATAAGATGATGAGAGAATTGCAAGATTACAAAAT
* *
52417209 GAAACCAAAAGAAGACATT-TTCAACACCTTATTACCGTAAATCAAAAGATGCAAAAAGTGTTAT
196 GAAACCAAAAGAAGAAATTGTTCAACACCTTATTACCGTAAATCAAAAGACGCAAAAAGTGTTAT
52417273 GGA
261 GGA
* *
52417276 ATTATAAATTAATTATTAGTTTGTGATGACATCAGAGAAAAATAGATAAATAATGAAAATCGAG-
1 ATTATAAATTAATTATTAGTTTGTGATGACACCAGAGAAAAATAGATAAATAATAAAAATCGAGA
52417340 AAAAAATTTATTTTCTATCATAGATATTGGTAGAAATAGCAATAAATCTGATATTGCCTGATGAG
66 AAAAAATTTATTTTCTATCATAGATATTGGTAGAAATAGCAATAAATCTGATATTGCCTGATGAG
*
52417405 ATAACAACTTCAACATGAAGGGAGAAAGTTGATAAGATGATGAGAGAATTGCAAGATTACAAAAT
131 ATAACAACTTCAACATGAAGGGAGAAAGTTAATAAGATGATGAGAGAATTGCAAGATTACAAAAT
*
52417470 GAAACCAGAAGAAGAAATTGTTCAACACCTTATTACCGTAAATCAAAAGACGCAAAAAGTGTTAT
196 GAAACCAAAAGAAGAAATTGTTCAACACCTTATTACCGTAAATCAAAAGACGCAAAAAGTGTTAT
52417535 GGA
261 GGA
52417538 A
1 A
52417539 GGGTCATGAA
Statistics
Matches: 253, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
261 144 0.57
262 109 0.43
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (263 bp):
ATTATAAATTAATTATTAGTTTGTGATGACACCAGAGAAAAATAGATAAATAATAAAAATCGAGA
AAAAAATTTATTTTCTATCATAGATATTGGTAGAAATAGCAATAAATCTGATATTGCCTGATGAG
ATAACAACTTCAACATGAAGGGAGAAAGTTAATAAGATGATGAGAGAATTGCAAGATTACAAAAT
GAAACCAAAAGAAGAAATTGTTCAACACCTTATTACCGTAAATCAAAAGACGCAAAAAGTGTTAT
GGA
Found at i:52421519 original size:37 final size:36
Alignment explanation
Indices: 52421457--52421538 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 36
52421447 CCTTGCCACA
52421457 GTCTTACACATATCACAATGCCATAGCCTC-GCTATG
1 GTCTTACACATATCACAATGCCATAGCC-CAGCTATG
* * *
52421493 GTCTTACACTTTATTACGATGCCATAGCCCAGCTATG
1 GTCTTACAC-ATATCACAATGCCATAGCCCAGCTATG
52421530 GTCTTACAC
1 GTCTTACAC
52421539 GTACACACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
36 10 0.24
37 31 0.76
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (36 bp):
GTCTTACACATATCACAATGCCATAGCCCAGCTATG
Found at i:52421571 original size:11 final size:11
Alignment explanation
Indices: 52421555--52421585 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
52421545 ACATGTACTT
52421555 CCATGGTCTAA
1 CCATGGTCTAA
52421566 CCATGGTCTAA
1 CCATGGTCTAA
52421577 CCATGGTCT
1 CCATGGTCT
52421586 TTTGTTCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (11 bp):
CCATGGTCTAA
Found at i:52424157 original size:39 final size:40
Alignment explanation
Indices: 52423903--52424165 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
52423893 TTGAATGCTG
* * * * * *
52423903 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
52423943 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
52423983 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
52424023 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
52424063 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * * *
52424103 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTCACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
52424142 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
52424166 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 34 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:52440116 original size:46 final size:46
Alignment explanation
Indices: 52440060--52440232 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
52440050 TAGTTGAGCA
*
52440060 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
52440106 TCTGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* * *
52440153 TCCGAACTCGTTAAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
52440199 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
52440233 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 2 0.02
46 55 0.54
47 24 0.24
48 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:52440216 original size:93 final size:93
Alignment explanation
Indices: 52440057--52440226 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
52440047 GGATAGTTGA
* * * *
52440057 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
52440122 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* * *
52440150 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
52440215 TGAGTTCGAGTT
66 TGAGTCCGAGTT
52440227 CACTTAGGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:52440494 original size:19 final size:20
Alignment explanation
Indices: 52440457--52440494 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52440447 ATAAGGTGGT
52440457 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
52440477 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
52440495 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:52447647 original size:46 final size:46
Alignment explanation
Indices: 52447597--52447766 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
52447587 TTGAGCATCT
* *
52447597 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGATC
* * * *
52447643 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACG-ATC
* * **
52447689 TGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCC
1 -GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGATC
*
52447736 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
52447767 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 57 0.55
47 27 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGATC
Found at i:52447750 original size:93 final size:93
Alignment explanation
Indices: 52447591--52447761 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
52447581 GGATGGTTGA
* **
52447591 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAGT
1 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
52447656 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
52447684 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
52447749 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52447762 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52448028 original size:19 final size:20
Alignment explanation
Indices: 52447991--52448028 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52447981 ATAAGGTGGT
52447991 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
52448011 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
52448029 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:52452567 original size:12 final size:12
Alignment explanation
Indices: 52452543--52452576 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
52452533 AATTATGGCC
52452543 TTAATATAATGGT
1 TTAATA-AATGGT
*
52452556 TTATTAAATGGT
1 TTAATAAATGGT
52452568 TTAATAAAT
1 TTAATAAAT
52452577 AGTCAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (12 bp):
TTAATAAATGGT
Found at i:52470406 original size:17 final size:17
Alignment explanation
Indices: 52470384--52470417 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
52470374 AGGTAAGTAC
52470384 ACTAAAATGTTGTCTAT
1 ACTAAAATGTTGTCTAT
52470401 ACTAAAATGTTGTCTAT
1 ACTAAAATGTTGTCTAT
52470418 GAAGACAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
ACTAAAATGTTGTCTAT
Found at i:52471780 original size:18 final size:16
Alignment explanation
Indices: 52471748--52471786 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
52471738 TTAGTAAATA
52471748 AATAATAAAATGTTAT
1 AATAATAAAATGTTAT
*
52471764 TATAATAATATATGTTAT
1 AATAATAA-A-ATGTTAT
52471782 AATAA
1 AATAA
52471787 AATTAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AATAATAAAATGTTAT
Found at i:52472714 original size:43 final size:43
Alignment explanation
Indices: 52472653--52472789 Score: 145
Period size: 43 Copynumber: 3.2 Consensus size: 43
52472643 AGGATTTCCA
**
52472653 ATATGTG-TTCTTGTGTAAGACCAAATCTGGGACATTGGCATCG
1 ATATGTGATT-TTGTGTAAGACCATGTCTGGGACATTGGCATCG
* * * *
52472696 ATATGTGATTTTGAGTAAGACCATGTCTAGGACATCGGTATC-
1 ATATGTGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCG
* *
52472738 ATAATTGTGA-TTTGTGTAAGACCCTGTCTGGGACAGTGGCATCG
1 AT-A-TGTGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCG
*
52472782 ACATGTGA
1 ATATGTGA
52472790 CTACATGTAA
Statistics
Matches: 77, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
42 7 0.09
43 62 0.81
44 8 0.10
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
ATATGTGATTTTGTGTAAGACCATGTCTGGGACATTGGCATCG
Found at i:52477220 original size:29 final size:28
Alignment explanation
Indices: 52477065--52477238 Score: 147
Period size: 28 Copynumber: 6.1 Consensus size: 28
52477055 ACATACATGC
* * *
52477065 ATATGGCCCACTAAGCCC-AATCTCATTT
1 ATATGGCCCATTAGGCCCAAATCACA-TT
* * *
52477093 AAATGGCCCATCT-GGCCCAACTCACGTT
1 ATATGGCCCAT-TAGGCCCAAATCACATT
* * * * *
52477121 CATATGGCCAACTAGACCC-AATTATATT
1 -ATATGGCCCATTAGGCCCAAATCACATT
* *
52477149 CACATGGCCCATTAGGCCGAAATCACATT
1 -ATATGGCCCATTAGGCCCAAATCACATT
*
52477178 ATATGGCCCTTTAGGCCCAAATCACAGTT
1 ATATGGCCCATTAGGCCCAAATCACA-TT
*
52477207 ATGTGGCCCATTAGGCCCAAATCACATT
1 ATATGGCCCATTAGGCCCAAATCACATT
52477235 ATAT
1 ATAT
52477239 TCATGCTCAC
Statistics
Matches: 113, Mismatches: 27, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
28 63 0.56
29 50 0.44
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAAATCACATT
Found at i:52478721 original size:7 final size:7
Alignment explanation
Indices: 52478709--52478741 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
52478699 TTTTATGAAA
52478709 CCCAAAG
1 CCCAAAG
52478716 CCCAAAG
1 CCCAAAG
52478723 CCCAAAG
1 CCCAAAG
52478730 CCCAAAG
1 CCCAAAG
52478737 CCCAA
1 CCCAA
52478742 TTCATCTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.45, G:0.12, T:0.00
Consensus pattern (7 bp):
CCCAAAG
Found at i:52481823 original size:29 final size:28
Alignment explanation
Indices: 52481781--52481839 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
52481771 TAATATTCAC
*
52481781 ATGGCCCATTAGGCCGAAATCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACA-TTAT
* *
52481810 ATGGGCCATTAGGCCCAAATCATATTAT
1 ATGGCCCATTAGGCCCAAATCACATTAT
52481838 AT
1 AT
52481840 TCATGCTCAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (28 bp):
ATGGCCCATTAGGCCCAAATCACATTAT
Found at i:52488231 original size:46 final size:46
Alignment explanation
Indices: 52488178--52488268 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
52488168 TATATATGCA
* * *
52488178 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
52488224 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
52488269 ATACACTTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:52488311 original size:22 final size:22
Alignment explanation
Indices: 52488285--52488360 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
52488275 TTCCACGTTC
52488285 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
52488307 ATCACATATATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
52488332 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
52488354 ATCACAT
1 ATCACAT
52488361 ATGTGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:52488313 original size:47 final size:47
Alignment explanation
Indices: 52488248--52488432 Score: 192
Period size: 47 Copynumber: 3.9 Consensus size: 47
52488238 TTCGCATTAA
* ** * *
52488248 CCATTCGGCTTTCCCACATATATACACT-TCCACGTTCATCACATTGG
1 CCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCACATTGG
* * *
52488295 CCATTCTGCCTTATCACATATATGCATGTTCACATTTATCACATTGG
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* * * **
52488342 CCATTCGGCCTTATCACATATGTGCATGTTCATATTCATCACATTTC
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
* * ** *
52488389 CCATTCGGCCTTAGCTCATATATACACATTCACATCCATCACAT
1 CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACAT
52488433 AAAATCCTAA
Statistics
Matches: 115, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
46 1 0.01
47 114 0.99
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.35
Consensus pattern (47 bp):
CCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATTGG
Found at i:52492627 original size:52 final size:50
Alignment explanation
Indices: 52492509--52492677 Score: 209
Period size: 52 Copynumber: 3.3 Consensus size: 50
52492499 ACTAGTGGCT
*
52492509 CAAGTGTGGTACTATGTGGAGGCCACTTTGAGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGT-GAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
*
52492558 CAAGTGTGGTACTATGTGACGACCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGA-GGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
* * **
52492610 CAAGTGTGGTACCATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTT-CACTA
1 CAAGTGTGGTACTATGTG-AGGCCACTTTGTGAAGAAGATAGCTTTGGTC-A
*
52492661 CAAGGGTGGTACTATGT
1 CAAGTGTGGTACTATGT
52492678 TCAAGCCACC
Statistics
Matches: 105, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
48 2 0.02
49 30 0.29
50 1 0.01
51 33 0.31
52 38 0.36
53 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:52492686 original size:51 final size:49
Alignment explanation
Indices: 52492509--52492686 Score: 173
Period size: 51 Copynumber: 3.5 Consensus size: 49
52492499 ACTAGTGGCT
* *
52492509 CAAGTGTGGTACTATGTGGAGGCCACTTTGAGAAG-AGATAGCTTGGT-C-A
1 CAAGTGTGGTACTATGT-GAAGCCACTTTGTGAAGAAGATAGCTT--TACTA
* **
52492558 CAAGTGTGGTACTATGTGACGACCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAG-CCACTTTGTGAAG-AAGATAGCTTTACT-A
* *
52492610 CAAGTGTGGTACCATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTCACTA
1 CAAGTGTGGTACTATGTGAA-GCCACTTTGTGAAGAAGATAGCTTT-ACTA
* *
52492661 CAAGGGTGGTACTATGTTCAAGCCAC
1 CAAGTGTGGTACTATG-TGAAGCCAC
52492687 CAAGTATCCG
Statistics
Matches: 109, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
48 3 0.03
49 30 0.28
51 39 0.36
52 36 0.33
53 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.27
Consensus pattern (49 bp):
CAAGTGTGGTACTATGTGAAGCCACTTTGTGAAGAAGATAGCTTTACTA
Found at i:52493184 original size:27 final size:27
Alignment explanation
Indices: 52493147--52493198 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
52493137 TTATATGCTT
52493147 AAAAAAATAGAAATATTACCCAAAAGA
1 AAAAAAATAGAAATATTACCCAAAAGA
*
52493174 AAAAAAATAGAAATATTATCCAAAA
1 AAAAAAATAGAAATATTACCCAAAA
52493199 TCTGTATGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.67, C:0.10, G:0.06, T:0.17
Consensus pattern (27 bp):
AAAAAAATAGAAATATTACCCAAAAGA
Found at i:52495599 original size:262 final size:266
Alignment explanation
Indices: 52495129--52495661 Score: 831
Period size: 262 Copynumber: 2.0 Consensus size: 266
52495119 ATTACCATGC
* * *
52495129 CCATCTTGGGACTTTCATCGCATTATTCATTACAATACCCGTTGAACACACATGGAATACTATTG
1 CCATCTTGGGAATTTCATCGCATCATTCATTACAATACCCGCTGAACACACA-GGAATACTATTG
*
52495194 GATACAGGGAAACTTGCACATGAATGCCACATAAACATACATAGCCGAAGCAACCTCAAGTCATG
65 GATACAGGGAAACTTGCACATGAATGCCACATAAAAATACATAGCCGAAGCAACCTCAAGTCATG
*
52495259 CAACGCTTACAATAGAGCTACTCACGGGCTTGCTCGTACAAGCTATCGATCAAGGTGTAACTACA
130 CAACGCTCACAATAGAGCTACTCACGGGCTTGCTCGTACAAGCTATCGATCAAGGTGTAACTACA
* * * * *
52495324 CGGGCTGCTCACAAAAGCTGTCAGGTATCCAACCACTCAAGGATTACCTAGCCACCGGTAGGACA
195 CGGACTACTCACAAAAGCTGTCAGGTATCCAACAACTCAAGGATTACCTAGCAACCAGTAGGACA
*
52495389 CATAAGA
260 CACAAGA
* *
52495396 CCATCTTGGGAATTTCATCGCATCATTCATTATAATACCCGCTGAACACTCA-GAATACTATTGG
1 CCATCTTGGGAATTTCATCGCATCATTCATTACAATACCCGCTGAACACACAGGAATACTATTGG
* * * * *
52495460 ATACATGGAAACTTGTACATGAGTGCCACATAAAAATACGTAGCCGAAGCTACCTC-A-T-ATGC
66 ATACAGGGAAACTTGCACATGAATGCCACATAAAAATACATAGCCGAAGCAACCTCAAGTCATGC
* * *
52495522 AATGCTCACAATAGAGCTACTCACGGGCTTGCTCGTATAAGCTATCGATCAAGTTGTAACTACAC
131 AACGCTCACAATAGAGCTACTCACGGGCTTGCTCGTACAAGCTATCGATCAAGGTGTAACTACAC
*
52495587 GGACTACTCACAAAAGCTGTCAGGTATCCGACAACTCAAGGATTACCTAGCAACCAGTAGGACAC
196 GGACTACTCACAAAAGCTGTCAGGTATCCAACAACTCAAGGATTACCTAGCAACCAGTAGGACAC
52495652 ACAAGA
261 ACAAGA
52495658 CCAT
1 CCAT
52495662 TGCCTGAAAC
Statistics
Matches: 244, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
262 133 0.55
263 1 0.00
264 1 0.00
265 62 0.25
267 47 0.19
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (266 bp):
CCATCTTGGGAATTTCATCGCATCATTCATTACAATACCCGCTGAACACACAGGAATACTATTGG
ATACAGGGAAACTTGCACATGAATGCCACATAAAAATACATAGCCGAAGCAACCTCAAGTCATGC
AACGCTCACAATAGAGCTACTCACGGGCTTGCTCGTACAAGCTATCGATCAAGGTGTAACTACAC
GGACTACTCACAAAAGCTGTCAGGTATCCAACAACTCAAGGATTACCTAGCAACCAGTAGGACAC
ACAAGA
Found at i:52524359 original size:46 final size:45
Alignment explanation
Indices: 52524309--52524474 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 45
52524299 TTGAGCATCT
* *
52524309 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC
1 GAACTCGTTGAGTTGAGT-CGAGTTCATTTATGGATGCAAACGTCC
* * * *
52524355 GAACTCGTTGAGTTGAGTCGAGTTC-GTGA--GATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCGAGTTCATTTATGGATGCAA--A--CGTCC
* *
52524401 GAACTCGTTGA-TT---T-GAGTTCATTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCGAGTTCATTTATGGATGCAAACGTCC
*
52524441 GAGCTCGTTGAGTTGAGTCCGAGTTCATTTATGG
1 GAACTCGTTGAGTTGAGT-CGAGTTCATTTATGG
52524475 TTACATGATT
Statistics
Matches: 95, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
40 13 0.14
41 8 0.08
42 10 0.11
44 9 0.09
45 9 0.09
46 46 0.48
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCGAGTTCATTTATGGATGCAAACGTCC
Found at i:52524728 original size:19 final size:20
Alignment explanation
Indices: 52524691--52524728 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
52524681 ATAAGGTGGT
52524691 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
52524711 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
52524729 TAGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:52528997 original size:29 final size:29
Alignment explanation
Indices: 52528954--52529059 Score: 158
Period size: 29 Copynumber: 3.7 Consensus size: 29
52528944 ATCGACGCCT
* *
52528954 ATCGAATGTGGAAAGGGATGGTGACAACC
1 ATCGAATATGAAAAGGGATGGTGACAACC
**
52528983 ATCGAATATGAAAAGGGATGGTGATGACC
1 ATCGAATATGAAAAGGGATGGTGACAACC
* *
52529012 ATCGAATATGATAATGGATGGTGACAACC
1 ATCGAATATGAAAAGGGATGGTGACAACC
52529041 ATCGAATATGAAAAGGGAT
1 ATCGAATATGAAAAGGGAT
52529060 AGATTAAAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.39, C:0.11, G:0.29, T:0.21
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTGACAACC
Found at i:52531364 original size:24 final size:24
Alignment explanation
Indices: 52531124--52531363 Score: 356
Period size: 24 Copynumber: 10.0 Consensus size: 24
52531114 ACTTTATCAT
*
52531124 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
52531149 AAAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
52531173 ATAACTAGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
52531197 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
52531221 ATAACTGGGGCAGAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
52531245 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
52531269 ATAACTGGGGCAGAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
52531293 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
52531317 ATAACTGGGGCATAAGCACTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
52531341 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
52531364 GCACTTCCTC
Statistics
Matches: 196, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
24 185 0.94
25 11 0.06
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:52531439 original size:20 final size:20
Alignment explanation
Indices: 52531414--52531473 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
52531404 TATGAATACC
52531414 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
52531434 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
52531454 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
52531474 CCACGTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:52531444 original size:11 final size:11
Alignment explanation
Indices: 52531414--52531468 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
52531404 TATGAATACC
52531414 TCATGTGCATA
1 TCATGTGCATA
*
52531425 TCA--TACATA
1 TCATGTGCATA
52531434 TCATGTGCATA
1 TCATGTGCATA
* *
52531445 TCA--TACATG
1 TCATGTGCATA
52531454 TCATGTGCATA
1 TCATGTGCATA
52531465 TCAT
1 TCAT
52531469 ACATACCACG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:52531548 original size:25 final size:25
Alignment explanation
Indices: 52531516--52531563 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
52531506 ATATATAAAC
* * *
52531516 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
52531541 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
52531564 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:52533931 original size:17 final size:19
Alignment explanation
Indices: 52533889--52533932 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
52533879 ATGAAATTTT
*
52533889 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
52533908 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
52533926 AA-TATTA
1 AATTATTA
52533933 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:52534890 original size:5 final size:5
Alignment explanation
Indices: 52534847--52534874 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
52534837 CTTATTTTCC
52534847 TTCTT TTCTT TTCTT TTCTT TTCTT TTC
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTC
52534875 ATCTACTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTCTT
Found at i:52535680 original size:8 final size:8
Alignment explanation
Indices: 52535664--52535702 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
52535654 ATAGATCGGC
*
52535664 AAAACCCG
1 AAAAGCCG
52535672 AAAAGCCG
1 AAAAGCCG
*
52535680 AAATGCCG
1 AAAAGCCG
*
52535688 AAATGCCG
1 AAAAGCCG
52535696 AAAAGCC
1 AAAAGCC
52535703 AGTATTTTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.46, C:0.28, G:0.21, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:52535982 original size:28 final size:27
Alignment explanation
Indices: 52535951--52536013 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
52535941 AATTACTAGA
*
52535951 ATACCCCTAAGTATGGAAAATTACCATT
1 ATACCCCTAAG-ATGGAAAATGACCATT
* * *
52535979 ATACCTCT-AGGTGTAAAATGACCATT
1 ATACCCCTAAGATGGAAAATGACCATT
*
52536005 TTACCCCTA
1 ATACCCCTA
52536014 GGGTTAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 19 0.68
27 2 0.07
28 7 0.25
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (27 bp):
ATACCCCTAAGATGGAAAATGACCATT
Found at i:52539670 original size:12 final size:12
Alignment explanation
Indices: 52539653--52539679 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
52539643 TCCGAAGTAT
52539653 ATATATATATAC
1 ATATATATATAC
52539665 ATATATATATAC
1 ATATATATATAC
52539677 ATA
1 ATA
52539680 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:52540209 original size:27 final size:28
Alignment explanation
Indices: 52540125--52540219 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
52540115 CATGAGATTG
* * * *
52540125 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
52540154 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52540182 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52540209 GCACTGAGTGT
1 GCACTAAGTGT
52540220 ACGGACTTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.34
28 22 0.36
29 18 0.30
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52540233 original size:27 final size:27
Alignment explanation
Indices: 52540153--52540235 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
52540143 TAAATTGTAC
* * *
52540153 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTACGA-CTTGAATATAT
* * *
52540181 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTACGACTTGAATATAT
*
52540208 AGCACTGAGTGTACGGACTT-AATATAT
1 AGCACTAAGTGTAC-GACTTGAATATAT
52540235 A
1 A
52540236 CTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTACGACTTGAATATAT
Found at i:52547940 original size:12 final size:12
Alignment explanation
Indices: 52547923--52547949 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
52547913 TCCGAAGTAT
52547923 ATATATATATAC
1 ATATATATATAC
52547935 ATATATATATAC
1 ATATATATATAC
52547947 ATA
1 ATA
52547950 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:52548480 original size:27 final size:28
Alignment explanation
Indices: 52548396--52548493 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
52548386 CATGAGATTG
* * * *
52548396 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
52548425 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52548453 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52548480 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
52548494 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52548504 original size:27 final size:27
Alignment explanation
Indices: 52548424--52548506 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
52548414 TAAATTGTAC
* *
52548424 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
52548452 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
52548479 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
52548506 A
1 A
52548507 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:52559868 original size:27 final size:27
Alignment explanation
Indices: 52559837--52559891 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
52559827 TCATATACAT
52559837 AACACACAATACATAAGCATATCATCA
1 AACACACAATACATAAGCATATCATCA
52559864 AACACACAATACATAAGCATATCATCA
1 AACACACAATACATAAGCATATCATCA
52559891 A
1 A
52559892 CCATAGCCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.53, C:0.25, G:0.04, T:0.18
Consensus pattern (27 bp):
AACACACAATACATAAGCATATCATCA
Found at i:52563996 original size:40 final size:40
Alignment explanation
Indices: 52563952--52564219 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
52563942 GCAAACACAT
* *
52563952 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
52563992 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
52564032 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
52564072 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
52564112 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
52564152 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
52564192 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
52564220 TCCAATGCTC
Statistics
Matches: 219, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:52580452 original size:19 final size:19
Alignment explanation
Indices: 52580414--52580452 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
52580404 GTATATGCAA
*
52580414 CTTATTAAAAAAGATGCAT
1 CTTATTAAAAAAGATACAT
*
52580433 CTTATTAAAAATGATACAT
1 CTTATTAAAAAAGATACAT
52580452 C
1 C
52580453 GGGGCTTCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (19 bp):
CTTATTAAAAAAGATACAT
Found at i:52583358 original size:31 final size:31
Alignment explanation
Indices: 52583323--52583391 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
52583313 AAAAATTGTT
*
52583323 ATTTTTGCCACTCCTAG-TAGATAAGTTGTCA
1 ATTTTAGCCACT-CTAGTTAGATAAGTTGTCA
* * *
52583354 ATTTTAGTCACTCTCGTTAGATAAGTTGTTA
1 ATTTTAGCCACTCTAGTTAGATAAGTTGTCA
52583385 ATTTTAG
1 ATTTTAG
52583392 TTATTCTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 3 0.09
31 30 0.91
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.43
Consensus pattern (31 bp):
ATTTTAGCCACTCTAGTTAGATAAGTTGTCA
Found at i:52583481 original size:31 final size:31
Alignment explanation
Indices: 52583443--52583510 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
52583433 CGACTTAGAC
*
52583443 TGACTAAAATTGACAACTTATCCAATAAGAG
1 TGACTAAAATTGACAACTTATCCAACAAGAG
*
52583474 TGACTAAAATTGACAACTTATCTAACAAGAG
1 TGACTAAAATTGACAACTTATCCAACAAGAG
52583505 TGACTA
1 TGACTA
52583511 CAATAACAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.26
Consensus pattern (31 bp):
TGACTAAAATTGACAACTTATCCAACAAGAG
Found at i:52584251 original size:2 final size:2
Alignment explanation
Indices: 52584233--52584742 Score: 294
Period size: 2 Copynumber: 262.0 Consensus size: 2
52584223 CACACCTAAA
* * *
52584233 TC TC CC TC TC CC TC TC TC TC -C TC CC TC TC -C TC TC TC TGC -C
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T-C TC
* * * * * * * * * *
52584273 AC TC CC TC TC CC TC CC TC CC TC CC TC CC TC CC TC CC TC CC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * * * *
52584315 TC TC -C T- TC CC TC CC TC CC TC GC TC TA TC CC TC CC TC GC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * *
52584355 TC CC TC TC TC TC TC TC TC TC TC TC TC CC CC TC CC TC TC CC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * *
52584397 TC TC -C T- TC TT TC TC TC CC TC TC TC CC CC TT TC TC TC CC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * *
52584437 TT TC CC TC TC TC TC TC -C TC TC CC TC TC CC TC TC TC CC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * * * *
52584478 TC CC TC TC CC TC TC CC TC CC TC TC CC CC CC CC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * * *
52584520 TC TC TC TC T- TC -C TC CC TC CC TC TC TC CC CC TT TC -C CC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * *
52584559 CC TC TC TC TC TC CC CC CC TC TC TC TC TC TC TC TC TC TC CC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * *
52584601 CC TC TC TC TC TC TC TC -C CC CC TC TC TC TC TC -C CC CC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * *
52584641 TC TC TC CC TC TC CC TC TC TC TC TC TC TC TC TT TC TC TC CC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
52584683 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
52584725 T- TC -C TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
52584743 AAAATAAAGT
Statistics
Matches: 390, Mismatches: 102, Indels: 32
0.74 0.19 0.06
Matches are distributed among these distances:
1 15 0.04
2 374 0.96
3 1 0.00
ACGTcount: A:0.00, C:0.61, G:0.01, T:0.38
Consensus pattern (2 bp):
TC
Found at i:52585968 original size:26 final size:26
Alignment explanation
Indices: 52585931--52585983 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
52585921 AGCATAAAGC
52585931 ATAGTAAATAGGAAAGTGTTGATGTT
1 ATAGTAAATAGGAAAGTGTTGATGTT
*
52585957 ATAGTAACTAGGAAAGTGTTGATGTT
1 ATAGTAAATAGGAAAGTGTTGATGTT
52585983 A
1 A
52585984 GCAACACGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (26 bp):
ATAGTAAATAGGAAAGTGTTGATGTT
Found at i:52589089 original size:49 final size:49
Alignment explanation
Indices: 52589034--52589253 Score: 170
Period size: 49 Copynumber: 4.6 Consensus size: 49
52589024 ACATTAAAGT
* * * *
52589034 CGATGCCATATCCCAGATAGGTCTTATACTGACTTTTATATATCGAGGC
1 CGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGAGGC
* * * * *
52589083 CGATGCCATGTCCCAGATAGGTCTTGCACTGGCTCTCATTTATCGATGT
1 CGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGAGGC
* * * *
52589132 TGATGCCATGTCCCAGAAAGGTCTTACACTGACAC-C-TA-A-C-AAGC
1 CGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGAGGC
* * * * *
52589176 TGACGCCATGTCCTAGACAGGTCTTACACT-AGCT-T-GTATATCCCGAGGC
1 CGATGCCATGTCCCAGATAGGTCTTACACTGA-CTCTCATATAT--CGAGGC
* *
52589225 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGATAGGTCTTACACT
52589254 AGCTCTTGTC
Statistics
Matches: 137, Mismatches: 26, Indels: 17
0.76 0.14 0.09
Matches are distributed among these distances:
43 1 0.01
44 32 0.23
45 2 0.01
46 1 0.01
47 1 0.01
48 24 0.18
49 76 0.55
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGAGGC
Found at i:52589320 original size:45 final size:45
Alignment explanation
Indices: 52589225--52589345 Score: 133
Period size: 45 Copynumber: 2.7 Consensus size: 45
52589215 ATCCCGAGGC
* *
52589225 CGATGCATGTCCCAGACATGTCTTACACTAG-CTCTTGTCTCATA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCCTCATGTCTCATA
* *
52589269 CAGATGCATGTCCCAGACATGTCTTACACTGGCACTCATGT-T-GTGG
1 C-GATGCATGTCCCAGACATGTCTTACACTGGC-CTCATGTCTCAT-A
* *
52589315 CGATGCATGT-CCAAACATGTCTTACATTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
52589346 TCACATACCA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
44 20 0.30
45 39 0.58
46 2 0.03
47 6 0.09
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCCTCATGTCTCATA
Found at i:52606174 original size:40 final size:40
Alignment explanation
Indices: 52606099--52606320 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
52606089 AACCCAAGTA
* * * *
52606099 CCTTTGGGAATTAG-CCGAATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* ** *
52606138 CCTTCGAGTTTTAGCCCGGATACAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
52606178 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
52606218 CCTTCGGGACTTAGCCCGAATATAGTCACTAGCGCAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
52606258 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52606298 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
52606321 CATCCGAGTA
Statistics
Matches: 161, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 10 0.06
40 150 0.93
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:52609186 original size:20 final size:20
Alignment explanation
Indices: 52609148--52609186 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
52609138 GTTGAAATGG
** *
52609148 CCACACGGGTGTGTTCCCTT
1 CCACACGGGCATGTGCCCTT
52609168 CCACACGGGCATGTGCCCT
1 CCACACGGGCATGTGCCCT
52609187 ATTTCAAAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.38, G:0.26, T:0.23
Consensus pattern (20 bp):
CCACACGGGCATGTGCCCTT
Found at i:52619518 original size:29 final size:27
Alignment explanation
Indices: 52619500--52619569 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
52619490 ATATTAAGTC
52619500 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
52619527 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
52619555 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
52619570 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:52619563 original size:28 final size:28
Alignment explanation
Indices: 52619500--52619597 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
52619490 ATATTAAGTC
*
52619500 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
52619527 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
52619555 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
52619584 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52619598 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:52630183 original size:37 final size:37
Alignment explanation
Indices: 52630133--52630211 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
52630123 TTATTACGAA
* * * *
52630133 GTCTTACTCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
52630170 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
52630207 GTCTT
1 GTCTT
52630212 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:52630408 original size:47 final size:47
Alignment explanation
Indices: 52630330--52630552 Score: 331
Period size: 47 Copynumber: 4.7 Consensus size: 47
52630320 CCCTTCGGGA
* * * * * *
52630330 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52630377 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52630424 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52630471 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52630518 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
52630553 AGAATCCTAA
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.01
47 161 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52633479 original size:40 final size:40
Alignment explanation
Indices: 52633447--52633788 Score: 324
Period size: 40 Copynumber: 8.6 Consensus size: 40
52633437 CCAGCATGAT
* * *
52633447 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
52633487 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
52633527 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
52633567 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
52633607 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* * * * *
52633648 TGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
52633688 TGC-CTTCGGG-CTTAGCCCGGA-ATTAGTAACTCA-CACAAA
1 TGCTCTTCGGGACTTAGCCCGGATA-TA-TCACT-AGCACGAA
* * *
52633727 TGC-CTTC-GGATCTTAGTCTGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
52633767 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
52633789 CATCATTCGA
Statistics
Matches: 258, Mismatches: 34, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.12
40 205 0.79
41 21 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:52635693 original size:37 final size:37
Alignment explanation
Indices: 52635643--52635721 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
52635633 TTATTACGAA
* * *
52635643 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
52635680 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
52635717 GTCTT
1 GTCTT
52635722 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:52635918 original size:47 final size:47
Alignment explanation
Indices: 52635840--52636062 Score: 331
Period size: 47 Copynumber: 4.7 Consensus size: 47
52635830 CCCTTCGGGA
* * * * * *
52635840 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52635887 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52635934 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52635981 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
52636028 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
52636063 AGAATCCTAA
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.01
47 161 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52640081 original size:28 final size:29
Alignment explanation
Indices: 52640039--52640153 Score: 121
Period size: 29 Copynumber: 4.0 Consensus size: 29
52640029 TACCTGTATT
* * *
52640039 TGGCCTATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
52640067 TGGCCCATTAGGCCCAAATCA-ACTAT-ATA
1 TGGCCCATTAGGCCCAAATCACA-T-TCATA
* *
52640096 TGGCCCATTAGGCCCAAATTACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
52640125 TGGCCCATAAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
52640153 T
1 T
52640154 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
28 26 0.35
29 47 0.63
30 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:52640403 original size:8 final size:8
Alignment explanation
Indices: 52640363--52640405 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
52640353 GTAGCCAAAC
*
52640363 TTTCAGCT
1 TTTCGGCT
*
52640371 TTTCGGCA
1 TTTCGGCT
*
52640379 TTTCGGCA
1 TTTCGGCT
*
52640387 TTTCAGCT
1 TTTCGGCT
52640395 TTTCGGCT
1 TTTCGGCT
52640403 TTT
1 TTT
52640406 GCCAATCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.09, C:0.23, G:0.19, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:52644633 original size:28 final size:28
Alignment explanation
Indices: 52644601--52644685 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
52644591 TACTTGTATC
* *
52644601 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
52644629 TGGCCCATTAGGCCCAAATCACATT-TTA
1 TGGCCCATTAGGCCC-AATCACATTCATA
*
52644657 TGGCCCATTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
52644685 T
1 T
52644686 TCATGCTCAC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
27 8 0.16
28 34 0.68
29 8 0.16
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:52646611 original size:80 final size:80
Alignment explanation
Indices: 52646489--52646719 Score: 435
Period size: 80 Copynumber: 2.9 Consensus size: 80
52646479 GTCCAAAGAG
52646489 CAAAAGAATCTAAGAATAATTATTTGTATAGTATGATTATGAATGAAATGGAAAGAATAAAAGAA
1 CAAAAGAATCTAAGAATAATTATTTGTATAGTATGATTATGAATGAAATGGAAAGAATAAAAGAA
52646554 TATTTGAAAGAAAGC
66 TATTTGAAAGAAAGC
52646569 CAAAAGAATCTAAGAATAATTATTTGTATAGTATGATTATGAATGAAATGGAAAGAATAAAAGAA
1 CAAAAGAATCTAAGAATAATTATTTGTATAGTATGATTATGAATGAAATGGAAAGAATAAAAGAA
*
52646634 TATTTGAAAGAAAGT
66 TATTTGAAAGAAAGC
* *
52646649 CAAAAGAATCTAAGAATAATTATTTGTATAGTATTATCATGAATGAAATGGAAAGAATAAAAGAA
1 CAAAAGAATCTAAGAATAATTATTTGTATAGTATGATTATGAATGAAATGGAAAGAATAAAAGAA
52646714 TATTTG
66 TATTTG
52646720 CTCAATATGA
Statistics
Matches: 148, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 148 1.00
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (80 bp):
CAAAAGAATCTAAGAATAATTATTTGTATAGTATGATTATGAATGAAATGGAAAGAATAAAAGAA
TATTTGAAAGAAAGC
Found at i:52651266 original size:46 final size:46
Alignment explanation
Indices: 52651205--52651378 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 46
52651195 ATTTGGGCAT
* * **
52651205 CGAACTTGTTAAGTTGAGTTTGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
** * *
52651251 CGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATAT-AACTAG-GCA--TC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGAATGTC
* * *
52651298 CGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
*
52651344 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52651379 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 7 0.07
45 1 0.01
46 58 0.56
47 27 0.26
48 1 0.01
49 7 0.07
50 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:52659268 original size:67 final size:66
Alignment explanation
Indices: 52659157--52659340 Score: 221
Period size: 67 Copynumber: 2.8 Consensus size: 66
52659147 AATCAAGTTC
* **
52659157 ATGCAAATATATATAAATAATTGAAGCTGATACAAGAATTGAAATTCAATACAAAATGGGATACA
1 ATGC-AATATATATAAATAATTGAAGCTGATACAAGAATGGAAATTCAATACAAAATAAGATACA
52659222 TA
65 TA
* ** * *
52659224 ATGCAGATATATATAAATAACT-AAAATCGATACAAGAATGGAAATTCAATGCGAAATAAGATAC
1 ATGCA-ATATATATAAATAATTGAAGCT-GATACAAGAATGGAAATTCAATACAAAATAAGATAC
52659288 ATA
64 ATA
* * *
52659291 AT--AATATATGTAAATAATTGAAGCTGATACAAGAATGAAAAGTCAATACA
1 ATGCAATATATATAAATAATTGAAGCTGATACAAGAATGGAAATTCAATACA
52659341 TAATTTACAT
Statistics
Matches: 98, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
64 35 0.36
65 4 0.04
66 4 0.04
67 55 0.56
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.26
Consensus pattern (66 bp):
ATGCAATATATATAAATAATTGAAGCTGATACAAGAATGGAAATTCAATACAAAATAAGATACAT
A
Found at i:52661174 original size:48 final size:48
Alignment explanation
Indices: 52661093--52661457 Score: 437
Period size: 48 Copynumber: 7.6 Consensus size: 48
52661083 GTACCAATGG
* * ** *
52661093 CATGTCCCCGACATGGTCTTACATGAATC-CACATATCATCGCCGATGC
1 CATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCGATGC
*** * * *
52661141 CATGTCCCAGACATGGTCTTACGTTGGGACACATATCATTGCCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGC
* * * *
52661189 CATGTCCCAGACATGGTCTTACACTGGCACATATATCATTGCCAACGC
1 CATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGC
* *
52661237 CATGTCCCAGACATGGTCTTACACAGGCACATATATCATTGCTGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGC
* *
52661285 CATGTTCCAGACATGGTCTTACACAGGCACATATTTCATCGCCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGC
* * *
52661333 CATGTCCCAGACATAGTCTTTCACAGTCACATATATCATCGCCGATGC
1 CATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGC
* * *
52661381 CATGTCCTAGACATGGTATTACACAGGCACATATATCATGGCC-ATTGC
1 CATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGA-TGC
* * * *
52661429 CATGTCCTATAAATGGTCTTACGCAGGCA
1 CATGTCCCAGACATGGTCTTACACAGGCA
52661458 TATTTAGCAC
Statistics
Matches: 278, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
47 1 0.00
48 277 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGC
Found at i:52665992 original size:29 final size:29
Alignment explanation
Indices: 52665930--52665996 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
52665920 AATCAACCGT
*
52665930 GCACACTTAGTGCCATGTACTTTAAACTC
1 GCACACTTAGTGCCATGCACTTTAAACTC
* **
52665959 ACACACTTAGTGCCATGCA-TTTCAAGTTC
1 GCACACTTAGTGCCATGCACTTT-AAACTC
52665988 GCACACTTA
1 GCACACTTA
52665997 CCTTTTCCGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCACTTTAAACTC
Found at i:52666110 original size:174 final size:174
Alignment explanation
Indices: 52665818--52666145 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
52665808 AACTCAAGGT
* *
52665818 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * * *
52665883 GAAAATATATATTGAGTTTGCACACATAGTGCTTAATAATCAACCGTGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
52665948 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
52665992 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
52666057 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
52666122 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
52666146 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:52666139 original size:29 final size:29
Alignment explanation
Indices: 52666105--52666176 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
52666095 ATCAACCGCG
* * *
52666105 CACACTTAGTGCCATGCACTTTAAACTCA
1 CACACTTAGTGCCATACAATTTAAACCCA
** *
52666134 CACACTTAGTGCTGTACAATTTAAACCCG
1 CACACTTAGTGCCATACAATTTAAACCCA
52666163 CACACTTAGTGCCA
1 CACACTTAGTGCCA
52666177 ATCTCATGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATACAATTTAAACCCA
Found at i:52674050 original size:29 final size:29
Alignment explanation
Indices: 52673987--52674054 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
52673977 TAATCAACCG
*
52673987 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
52674016 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
52674045 CGCACACTTA
1 CGCACACTTA
52674055 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:52674166 original size:174 final size:174
Alignment explanation
Indices: 52673876--52674203 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
52673866 AACTCAAGGT
* *
52673876 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
52673941 GAAAATATATATTGAGTTTGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
52674006 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
52674050 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
52674115 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
52674180 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
52674204 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:52674197 original size:29 final size:29
Alignment explanation
Indices: 52674163--52674234 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
52674153 ATCAACCGCG
* * *
52674163 CACACTTAGTGCCATGCACTTTAAACTCA
1 CACACTTAGTGCCATACAATTTAAACCCA
** *
52674192 CACACTTAGTGCTGTACAATTTAAACCCG
1 CACACTTAGTGCCATACAATTTAAACCCA
52674221 CACACTTAGTGCCA
1 CACACTTAGTGCCA
52674235 ATCTCATGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATACAATTTAAACCCA
Found at i:52676775 original size:27 final size:27
Alignment explanation
Indices: 52676745--52676922 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
52676735 ATATTGAGCC
* *
52676745 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
52676772 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
52676799 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
52676827 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
52676854 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
52676881 CGCACACTTAGTACAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
52676908 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52676923 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:52676884 original size:82 final size:81
Alignment explanation
Indices: 52676766--52676921 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
52676756 TGCTATATAA
* * * *
52676766 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTACAACATAGTC-GAATCGCA
52676831 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
52676848 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTACAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTACAACATAGTCGAATCGCA
52676912 CACTTAGTGC
65 CACTTAGTGC
52676922 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTACAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:52684317 original size:27 final size:27
Alignment explanation
Indices: 52684287--52684464 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
52684277 ATATTGAGCC
* *
52684287 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
52684314 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
52684341 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
52684369 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
52684396 TGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
52684423 CGCACACTTAGTACAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
52684450 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52684465 GTACAATTTA
Statistics
Matches: 125, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 100 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:52696817 original size:35 final size:35
Alignment explanation
Indices: 52696777--52696847 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
52696767 TAACACAAAA
52696777 ATGTGTTCATCTTCATTCAATCTTGGACAAAACTT
1 ATGTGTTCATCTTCATTCAATCTTGGACAAAACTT
52696812 ATGTGTTCATCTTCATTCAATCTTGGACAAAACTT
1 ATGTGTTCATCTTCATTCAATCTTGGACAAAACTT
52696847 A
1 A
52696848 CATGTTCTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (35 bp):
ATGTGTTCATCTTCATTCAATCTTGGACAAAACTT
Found at i:52704149 original size:49 final size:49
Alignment explanation
Indices: 52704093--52704192 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
52704083 CTTACCTAAC
52704093 CTTTCACTATTCATAAATATAATCTACCTTCCATTTTGCTGATAATTCA
1 CTTTCACTATTCATAAATATAATCTACCTTCCATTTTGCTGATAATTCA
*
52704142 CTTTCACTATTCATAAATATAATCTACCTTCCCTTTTGCTGATAATTCA
1 CTTTCACTATTCATAAATATAATCTACCTTCCATTTTGCTGATAATTCA
52704191 CT
1 CT
52704193 GTAATTTAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.29, C:0.24, G:0.04, T:0.43
Consensus pattern (49 bp):
CTTTCACTATTCATAAATATAATCTACCTTCCATTTTGCTGATAATTCA
Found at i:52708465 original size:20 final size:19
Alignment explanation
Indices: 52708440--52708489 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 19
52708430 TCTCATTTTC
52708440 TACCTTCTTCTTTACTCACT
1 TACCTTCTT-TTTACTCACT
52708460 TA-C--C-TTTTACTCACT
1 TACCTTCTTTTTACTCACT
52708475 TACCTTCTTTCTTAC
1 TACCTTCTTT-TTAC
52708490 CTGACCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
15 12 0.48
16 2 0.08
17 1 0.04
18 1 0.04
19 3 0.12
20 6 0.24
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (19 bp):
TACCTTCTTTTTACTCACT
Found at i:52708470 original size:15 final size:15
Alignment explanation
Indices: 52708450--52708480 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
52708440 TACCTTCTTC
52708450 TTTACTCACTTACCT
1 TTTACTCACTTACCT
52708465 TTTACTCACTTACCT
1 TTTACTCACTTACCT
52708480 T
1 T
52708481 CTTTCTTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.32, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTACTCACTTACCT
Found at i:52720146 original size:29 final size:29
Alignment explanation
Indices: 52720080--52720170 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
52720070 AAGACTACAT
* *
52720080 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
52720108 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
52720137 ACATTCATATAGCCCATCT-GGCCCAAATC
1 ACATTCATATGGCCCAT-TAGGCCCAAATC
52720166 A-ATTC
1 ACATTC
52720171 CAAGCCATGT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 25 0.45
29 30 0.54
30 1 0.02
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:52720408 original size:16 final size:16
Alignment explanation
Indices: 52720387--52720421 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
52720377 GTAGCTAGAC
52720387 TTTCGACTTTTCGGCA
1 TTTCGACTTTTCGGCA
*
52720403 TTTCGACTTTTTGGCA
1 TTTCGACTTTTCGGCA
52720419 TTT
1 TTT
52720422 TAGGATTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.20, G:0.17, T:0.51
Consensus pattern (16 bp):
TTTCGACTTTTCGGCA
Found at i:52722573 original size:16 final size:17
Alignment explanation
Indices: 52722552--52722584 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
52722542 CACATTGAAG
52722552 TGTTTT-TTGAAAACCT
1 TGTTTTATTGAAAACCT
52722568 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
52722585 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (17 bp):
TGTTTTATTGAAAACCT
Found at i:52723205 original size:11 final size:11
Alignment explanation
Indices: 52723189--52723214 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
52723179 CGAAGCCCAC
52723189 ATCACAATAAT
1 ATCACAATAAT
52723200 ATCACAATAAT
1 ATCACAATAAT
52723211 ATCA
1 ATCA
52723215 AACATGCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (11 bp):
ATCACAATAAT
Found at i:52725956 original size:16 final size:16
Alignment explanation
Indices: 52725932--52725966 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
52725922 ATAGCCAGAC
52725932 TTTCAACTTTTCGGCA
1 TTTCAACTTTTCGGCA
* *
52725948 TTTCGACTTTTTGGCA
1 TTTCAACTTTTCGGCA
52725964 TTT
1 TTT
52725967 TAAGATTTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTCAACTTTTCGGCA
Found at i:52732352 original size:28 final size:29
Alignment explanation
Indices: 52732312--52732366 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
52732302 CTGTATCTGA
*
52732312 CCCATTAAGCCC-AATCATATTCATATGG
1 CCCATTAAGCCCAAATCACATTCATATGG
*
52732340 CCCATTAGGCCCAAATCACATTCATAT
1 CCCATTAAGCCCAAATCACATTCATAT
52732367 TCATGCTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.33, C:0.31, G:0.09, T:0.27
Consensus pattern (29 bp):
CCCATTAAGCCCAAATCACATTCATATGG
Found at i:52733722 original size:11 final size:11
Alignment explanation
Indices: 52733708--52733734 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
52733698 TATTTTTATT
52733708 TAATTAAACTA
1 TAATTAAACTA
52733719 TAATTAAACTA
1 TAATTAAACTA
52733730 TAATT
1 TAATT
52733735 CATTTATTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (11 bp):
TAATTAAACTA
Found at i:52736520 original size:46 final size:45
Alignment explanation
Indices: 52736470--52736641 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 45
52736460 TGAGCATCCA
*
52736470 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*** * *
52736516 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
* *
52736563 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
* *
52736609 AGCTCGTTGAGTTGAGTTCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52736642 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 63 0.60
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:52739597 original size:15 final size:15
Alignment explanation
Indices: 52739577--52739654 Score: 88
Period size: 15 Copynumber: 5.2 Consensus size: 15
52739567 CATAGTATCG
*
52739577 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
*
52739592 TATCTTGGATCTCTT
1 TATCTTGGATTTCTT
52739607 TAT-TCTGGATTTCTT
1 TATCT-TGGATTTCTT
* *
52739622 TAT-TCTGGGTTTCTC
1 TATCT-TGGATTTCTT
52739637 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
52739652 TAT
1 TAT
52739655 TCAGTTTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
14 1 0.02
15 52 0.96
16 1 0.02
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:52742109 original size:46 final size:46
Alignment explanation
Indices: 52742053--52742230 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
52742043 GATGGTTGAG
*
52742053 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * *** * * * *
52742099 TATCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-A
* **
52742146 CATCCGAGCTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** *
52742192 CGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52742231 GCAGGTTACA
Statistics
Matches: 103, Mismatches: 26, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
46 70 0.68
47 33 0.32
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:52742211 original size:93 final size:93
Alignment explanation
Indices: 52742052--52742222 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
52742042 GGATGGTTGA
* * *
52742052 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATATCTGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
52742117 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * ** * *
52742145 GCATCCGAGCTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
52742210 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52742223 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:52744475 original size:43 final size:43
Alignment explanation
Indices: 52744427--52744511 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
52744417 TAGGCTTGAG
* *
52744427 GGAGCAATTAAGGTACGTTTTTGACTCGTTTTTAATGATTTCA
1 GGAGCAATTAAGGAACGATTTTGACTCGTTTTTAATGATTTCA
*
52744470 GGAGCAATTAAGGAACGATTTTGATTCGTTTTTAATGATTTC
1 GGAGCAATTAAGGAACGATTTTGACTCGTTTTTAATGATTTC
52744512 TACGTTTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.27, C:0.11, G:0.21, T:0.41
Consensus pattern (43 bp):
GGAGCAATTAAGGAACGATTTTGACTCGTTTTTAATGATTTCA
Found at i:52745305 original size:22 final size:23
Alignment explanation
Indices: 52745258--52745308 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
52745248 TAGTTCGTGT
*
52745258 GAGCTTACTGAATCAGCTCGAAA
1 GAGCTTAATGAATCAGCTCGAAA
*
52745281 GAGCTTAATGTAT-AGCTC-AATA
1 GAGCTTAATGAATCAGCTCGAA-A
52745303 GAGCTT
1 GAGCTT
52745309 CTCGTTTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.08
22 12 0.48
23 11 0.44
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (23 bp):
GAGCTTAATGAATCAGCTCGAAA
Found at i:52745324 original size:24 final size:24
Alignment explanation
Indices: 52745258--52745358 Score: 88
Period size: 24 Copynumber: 4.3 Consensus size: 24
52745248 TAGTTCGTGT
*
52745258 GAGCTTACTG-AATCAGCTCGAA-A
1 GAGCTTACTGTTATCAGCTC-AATA
*
52745281 GAGCTTAATG-TAT-AGCTCAATA
1 GAGCTTACTGTTATCAGCTCAATA
*
52745303 GAGCTT-CTCGTT-TCCAGCTCAATC
1 GAGCTTACT-GTTAT-CAGCTCAATA
*
52745327 GAGCTTACTGTTATCAGCTCATTA
1 GAGCTTACTGTTATCAGCTCAATA
52745351 TGAGCTTA
1 -GAGCTTA
52745359 TTGGCCATGT
Statistics
Matches: 64, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
21 3 0.05
22 14 0.22
23 12 0.19
24 25 0.39
25 10 0.16
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (24 bp):
GAGCTTACTGTTATCAGCTCAATA
Found at i:52749324 original size:45 final size:44
Alignment explanation
Indices: 52749259--52749461 Score: 249
Period size: 45 Copynumber: 4.7 Consensus size: 44
52749249 ATCGTACACC
* * *
52749259 ACTATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCTGTGAAAT
1 ACTATTCGGGCCTTCGAGCCTAGCAGGCTATGATG-CGGTGAAAT
*
52749304 ACTATTCGGGCCTTCAAGCCTAGCAGGCTATGATGCCGGTGAAAT
1 ACTATTCGGGCCTTCGAGCCTAGCAGGCTATGATG-CGGTGAAAT
*
52749349 ACTATTCGGGCCTTCGAGCCTAGCAGGC--T-AT-CGGTGAGAT
1 ACTATTCGGGCCTTCGAGCCTAGCAGGCTATGATGCGGTGAAAT
* *
52749389 ACTATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCTGGTGAAAT
1 ACTATTCGGGCCTTCGAGCCTAGCAGGCTATGATGC-GGTGAAAT
*
52749434 GA-TA-TCGGG-CTTCGAGCCTAGTAGGCTA
1 -ACTATTCGGGCCTTCGAGCCTAGCAGGCTA
52749462 AATGCCGGTG
Statistics
Matches: 144, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
40 35 0.24
42 3 0.02
43 22 0.15
44 6 0.04
45 77 0.53
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (44 bp):
ACTATTCGGGCCTTCGAGCCTAGCAGGCTATGATGCGGTGAAAT
Found at i:52749417 original size:85 final size:87
Alignment explanation
Indices: 52749259--52749461 Score: 254
Period size: 85 Copynumber: 2.3 Consensus size: 87
52749249 ATCGTACACC
* * *
52749259 ACTATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCTGTGAAATACTATTCGGGCCTTCAAGCC
1 ACTATTCGGGCCTTCGAGCCTAGCAGGC--T-AT-CCGGTGAAATACTATTCGGGCCTTCAAGCC
*
52749324 TAGCAGGCTATGATGCCGGTGAAAT-
62 TAGCAGGCTATAATGCCGGTGAAATG
* * *
52749349 ACTATTCGGGCCTTCGAGCCTAGCAGGCTAT-CGGTGAGATACTATTCGGGCCTTCGAGCCTAGT
1 ACTATTCGGGCCTTCGAGCCTAGCAGGCTATCCGGTGAAATACTATTCGGGCCTTCAAGCCTAGC
*
52749413 AGGCTATAATGCTGGTGAAATG
66 AGGCTATAATGCCGGTGAAATG
*
52749435 A-TA-TCGGG-CTTCGAGCCTAGTAGGCTA
1 ACTATTCGGGCCTTCGAGCCTAGCAGGCTA
52749462 AATGCCGGTG
Statistics
Matches: 103, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
83 18 0.17
84 5 0.05
85 50 0.49
86 1 0.01
87 2 0.02
88 1 0.01
90 26 0.25
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (87 bp):
ACTATTCGGGCCTTCGAGCCTAGCAGGCTATCCGGTGAAATACTATTCGGGCCTTCAAGCCTAGC
AGGCTATAATGCCGGTGAAATG
Done.