Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 172 of 344
Found at i:57536823 original size:40 final size:40
Alignment explanation
Indices: 57536767--57536936 Score: 189
Period size: 40 Copynumber: 4.3 Consensus size: 40
57536757 GGACTAAGAT
* * *
57536767 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
57536807 CTGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* ** *
57536847 CCGAAGGCAGTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
57536887 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
57536926 CCGAAGGCATT
1 CCGAAGGCATT
57536937 TGAACGAGGA
Statistics
Matches: 109, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 32 0.29
40 77 0.71
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:57544741 original size:40 final size:40
Alignment explanation
Indices: 57544685--57544854 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 40
57544675 GGACTAAGAT
* * *
57544685 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
57544725 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* ** *
57544765 CCGAAGGCAGTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
57544805 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
57544844 CCGAAGGCATT
1 CCGAAGGCATT
57544855 TGAACGAGGA
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
39 32 0.29
40 79 0.71
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:57544781 original size:80 final size:79
Alignment explanation
Indices: 57544697--57544852 Score: 204
Period size: 79 Copynumber: 2.0 Consensus size: 79
57544687 GAAGGCCTTT
* * * *
57544697 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAA
1 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCA-TCGTGCGAGTTACTAAAACCGGGCTAA
57544762 GTCCCGAAGGCAGTC
65 GTCCCGAAGGCAGTC
* ** * * * *
57544777 GTGCGAGTTGTTAAATCCGGGTTACGTCCCGAAGGCATGGTGTGAGTTACTAAAACCGGGCTATG
1 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATCGTGCGAGTTACTAAAACCGGGCTAAG
57544842 TCCCGAAGGCA
66 TCCCGAAGGCA
57544853 TTTGAACGAG
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
79 33 0.51
80 32 0.49
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (79 bp):
GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATCGTGCGAGTTACTAAAACCGGGCTAAG
TCCCGAAGGCAGTC
Found at i:57544874 original size:79 final size:80
Alignment explanation
Indices: 57544707--57544889 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
57544697 GTGCGAGATA
* * * *
57544707 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
57544772 CAGTCGTGCGAGTTG
66 CAGTCGAACGAGGAG
* * * * *
57544787 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
57544851 CATTTGAACGAGGAG
66 CAGTCGAACGAGGAG
* *
57544866 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
57544890 TACGTGATTT
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 14 0.17
79 46 0.55
80 24 0.29
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CAGTCGAACGAGGAG
Found at i:57545790 original size:14 final size:14
Alignment explanation
Indices: 57545771--57545799 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
57545761 ATAAGAAGAA
57545771 TGAAGAACATGGCT
1 TGAAGAACATGGCT
57545785 TGAAGAACATGGCT
1 TGAAGAACATGGCT
57545799 T
1 T
57545800 TAATTATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (14 bp):
TGAAGAACATGGCT
Found at i:57546631 original size:15 final size:15
Alignment explanation
Indices: 57546611--57546647 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
57546601 AGCCGTGTGT
57546611 CACACACGGCCAAGA
1 CACACACGGCCAAGA
57546626 CACACACGGCCAAGA
1 CACACACGGCCAAGA
57546641 CACACAC
1 CACACAC
57546648 CTATGTGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.43, G:0.16, T:0.00
Consensus pattern (15 bp):
CACACACGGCCAAGA
Found at i:57546854 original size:19 final size:20
Alignment explanation
Indices: 57546832--57546880 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 20
57546822 ATTATTTTCG
* *
57546832 AAAAATAATGAATTTTTA-T
1 AAAAATAATGAAATTGTACT
*
57546851 -AAAATAATTAAATTGTACT
1 AAAAATAATGAAATTGTACT
57546870 AAAAAT-ATGAA
1 AAAAATAATGAA
57546881 CATGATGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 14 0.58
19 5 0.21
20 5 0.21
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (20 bp):
AAAAATAATGAAATTGTACT
Found at i:57550258 original size:17 final size:19
Alignment explanation
Indices: 57550216--57550259 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
57550206 ATGAAATTTT
*
57550216 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
57550235 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
57550253 AA-TATTA
1 AATTATTA
57550260 CTGTAAGTAT
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:57551267 original size:20 final size:19
Alignment explanation
Indices: 57551242--57551283 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
57551232 ATTTTCTTTC
57551242 CTTCTCTTATCTATTCCCCT
1 CTTCTCTTATCT-TTCCCCT
* *
57551262 CTTCTCTTTTCTTTCTCCT
1 CTTCTCTTATCTTTCCCCT
57551281 CTT
1 CTT
57551284 GCCGATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.57
Consensus pattern (19 bp):
CTTCTCTTATCTTTCCCCT
Found at i:57552699 original size:20 final size:20
Alignment explanation
Indices: 57552676--57552734 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
57552666 TAAACATGGT
57552676 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
* * * *
57552696 ATGTATGATAAT-AAAATTAT
1 ATGTATGAT-ATGCACATGAC
57552716 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
57552735 TGTATTCATA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:57552843 original size:23 final size:24
Alignment explanation
Indices: 57552785--57552949 Score: 214
Period size: 23 Copynumber: 7.0 Consensus size: 24
57552775 GAAGAAGTGC
57552785 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
57552809 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
57552833 -AAAGGGTTTATGCCCC-GTTTATT
1 AAAAGGGCTTATGCCCCAG-TTATT
**
57552856 AAAAGGGCTTACACCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
57552880 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
57552903 AAAAGGGCTT-TGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
57552926 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
57552950 ATGATAAATC
Statistics
Matches: 123, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
22 1 0.01
23 58 0.47
24 56 0.46
25 8 0.07
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:57552855 original size:47 final size:47
Alignment explanation
Indices: 57552786--57552928 Score: 227
Period size: 47 Copynumber: 3.1 Consensus size: 47
57552776 AAGAAGTGCA
57552786 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCTAGTTATT
* ** *
57552833 AAAGGGTTTATGCCCC-GTTTATTAAAAGGGCTTACACCCCAGTTATT
1 AAAGGGCTTATGCCCCAG-TTATTAAAAGGGCTTATGCCCTAGTTATT
57552880 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTT-TGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCTAGTTATT
57552926 AAA
1 AAA
57552929 AGAGGCTAGG
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
46 14 0.16
47 71 0.83
48 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCTAGTTATT
Found at i:57553178 original size:31 final size:31
Alignment explanation
Indices: 57553143--57553205 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
57553133 CGTTTACAGT
*
57553143 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
**
57553174 AAAGGCTTCAGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
57553205 A
1 A
57553206 TTATGAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:57558871 original size:31 final size:31
Alignment explanation
Indices: 57558833--57558908 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
57558823 TGCCCTAAGA
* ** *
57558833 TACACGGGCGTGTGAGTCCACACGGCCCACT
1 TACACGGGTGTGTGAGTCCACACAACCCACC
*
57558864 TACACGGGTGTGTGAGTCCATACAACCCACC
1 TACACGGGTGTGTGAGTCCACACAACCCACC
57558895 TACACGGGTGTGTG
1 TACACGGGTGTGTG
57558909 TCCCTTTATG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.21, C:0.30, G:0.29, T:0.20
Consensus pattern (31 bp):
TACACGGGTGTGTGAGTCCACACAACCCACC
Found at i:57561203 original size:47 final size:47
Alignment explanation
Indices: 57561145--57561266 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
57561135 GCATTGGCAC
* *
57561145 TAAGACAAGGATACCATGTAACACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
57561192 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* *
57561239 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
57561267 CCAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
Found at i:57561378 original size:107 final size:106
Alignment explanation
Indices: 57561253--57561448 Score: 293
Period size: 106 Copynumber: 1.8 Consensus size: 106
57561243 ATAAGGATAT
* * * *
57561253 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGTAAGGAAATCATGTAATACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC-ATAAGGCAAGGAAACCACGTAAGACC
* *
57561318 ATGTCGAGACATGGCATTGATGAGTACTATAAGGCAAAGGTC
65 ATGTCAAGACATGGCAATGATGAGTACTATAAGGCAAAGGTC
* * *
57561360 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAGGATACCACGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCATAAGGCAAGGAAACCACGTAAGACCA
*
57561425 TGTCAAGACATGGCAATGGTGAGT
66 TGTCAAGACATGGCAATGATGAGT
57561449 TCAAAAAGGA
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
106 43 0.54
107 36 0.46
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (106 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCATAAGGCAAGGAAACCACGTAAGACCA
TGTCAAGACATGGCAATGATGAGTACTATAAGGCAAAGGTC
Found at i:57561451 original size:53 final size:54
Alignment explanation
Indices: 57561245--57561450 Score: 238
Period size: 53 Copynumber: 3.9 Consensus size: 54
57561235 TTGGTAAGAT
* * * *
57561245 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * * * *
57561299 AAGGAAATCATGTAATACCATGTCGAGACATGGCATTGATGAGTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
57561353 AAAGG-T-CCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
57561405 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTGAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTC
57561451 AAAAAGGAAA
Statistics
Matches: 129, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
51 4 0.03
52 8 0.06
53 67 0.52
54 46 0.36
55 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:57562142 original size:55 final size:55
Alignment explanation
Indices: 57562076--57562187 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
57562066 TGGTATGTAA
*
57562076 ATATTTGATAATGATTAGCTATTGAAATGGATAATGAAGAACATGTTTTGGTGTT
1 ATATTTGATAATGATTAGCTATTGAAATGGATAATGAAGAACATGTTTTGCTGTT
* *
57562131 ATATTTGATAATGGTTAGCTATTGAAATGGCTAATGAAGAACATGTTTTGCTGTT
1 ATATTTGATAATGATTAGCTATTGAAATGGATAATGAAGAACATGTTTTGCTGTT
57562186 AT
1 AT
57562188 GTATGCCTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.40
Consensus pattern (55 bp):
ATATTTGATAATGATTAGCTATTGAAATGGATAATGAAGAACATGTTTTGCTGTT
Found at i:57570188 original size:28 final size:28
Alignment explanation
Indices: 57570156--57570213 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
57570146 CCATTTGTGG
57570156 TTTTAAGTCTTATTTGGGCTTTGATTTC
1 TTTTAAGTCTTATTTGGGCTTTGATTTC
*
57570184 TTTTAAGTTTTATTTGGGCTTTGATTTC
1 TTTTAAGTCTTATTTGGGCTTTGATTTC
57570212 TT
1 TT
57570214 ACCTTAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.09, G:0.17, T:0.60
Consensus pattern (28 bp):
TTTTAAGTCTTATTTGGGCTTTGATTTC
Found at i:57577699 original size:125 final size:125
Alignment explanation
Indices: 57577559--57577784 Score: 314
Period size: 127 Copynumber: 1.8 Consensus size: 125
57577549 ATGTTTTTAA
* * *
57577559 TTTAAAAATAAAAGATGATAAT-TATTAATATATAATTATATCTATTATAA-TATCTATTGATTA
1 TTTAAAAATAAAAGATGACAATCT-TTAATATATAATTATATCTATTATAATTATATATTAATTA
* * *
57577622 TTATCAACTTTA-TATAGAGTTAGGATTTGTGTTAATTTCATCATATTTTATTTGATAAGTT
65 TTATCAA-TTTAGCATAGAATTAGGATTAGTGTTAATTTCATCATATTTTATTTGATAAGTT
*
57577683 TTTAATAATAATAAGATGACAATCTTTAATATATAATTATATCTATTATAATTTATATATTAATT
1 TTTAAAAATAA-AAGATGACAATCTTTAATATATAATTATATCTATTATAA-TTATATATTAATT
* *
57577748 TTTATCAATTTAGCATAGAATTAGGATTAGTTTTAAT
64 ATTATCAATTTAGCATAGAATTAGGATTAGTGTTAAT
57577785 CATATCTCAT
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
124 10 0.11
125 36 0.41
126 5 0.06
127 37 0.42
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (125 bp):
TTTAAAAATAAAAGATGACAATCTTTAATATATAATTATATCTATTATAATTATATATTAATTAT
TATCAATTTAGCATAGAATTAGGATTAGTGTTAATTTCATCATATTTTATTTGATAAGTT
Found at i:57577830 original size:17 final size:18
Alignment explanation
Indices: 57577804--57577837 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57577794 TTTTTGTTTA
57577804 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
57577821 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
57577838 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:57579393 original size:13 final size:13
Alignment explanation
Indices: 57579375--57579399 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57579365 CCAAGCATAC
57579375 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
57579388 GCCCGTGTCCTT
1 GCCCGTGTCCTT
57579400 TACACGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:57586290 original size:47 final size:47
Alignment explanation
Indices: 57586221--57586520 Score: 447
Period size: 47 Copynumber: 6.4 Consensus size: 47
57586211 CCCTTCGGGA
* * * *
57586221 CTTATCACATTTATTCACTTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
57586268 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCGTTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
57586315 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
57586362 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
57586409 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
57586456 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
57586503 CTTATCACATATACACAC
1 CTTATCACATATATACAC
57586521 CTTGTACATC
Statistics
Matches: 231, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 231 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:57602926 original size:40 final size:40
Alignment explanation
Indices: 57602819--57602970 Score: 200
Period size: 40 Copynumber: 3.8 Consensus size: 40
57602809 AGTGATTAAT
*
57602819 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
57602858 TTTCGGGCTAAGTCCCGAAGGCATTTGTGCGGGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * *
57602899 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
** *
57602939 TCCGGGCTAACACCCGACGGCA-TTGTGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
57602971 GGTTATATTC
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
39 9 0.09
40 89 0.90
41 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:57613226 original size:48 final size:49
Alignment explanation
Indices: 57613155--57613381 Score: 239
Period size: 48 Copynumber: 4.7 Consensus size: 49
57613145 TATGTGTGCT
* *
57613155 AGTGTAAGAACATGTCTGGGACATAGCATCGGCCA-CATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCATTATGAGAGCC
* * * * *
57613203 AGTGTAGGACCATGTCTGGGACATGGCATCAGCC-TCAATATGCGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCATTATGAGAGCC
* * * *** * *
57613251 AGTGTAAGACCATGTTTGGAACATGGCATC-ACCATTGTTAT-ATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCATTATGA-GAGCC
57613299 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACCGATGTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACC-AT-TATGAGAGCC
* *
57613349 AGTGTAAGACCATGTCTGAGACATGACATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
57613382 ATTTTACCCT
Statistics
Matches: 145, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
47 2 0.01
48 105 0.72
49 1 0.01
50 36 0.25
51 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACCATTATGAGAGCC
Found at i:57624894 original size:29 final size:29
Alignment explanation
Indices: 57624862--57624938 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
57624852 AATCATACTC
*
57624862 ATATTGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACCTGT
*
57624891 ATATGGCCCATTAGGCCCAAATCACCTTT
1 ATATGGCCCATTAGGCCCAAATCACCTGT
*
57624920 ATATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
57624939 GTCACATTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACCTGT
Found at i:57625188 original size:24 final size:24
Alignment explanation
Indices: 57625161--57625211 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
57625151 GTAGCCAAAC
*
57625161 TTTCGACTTTTC-AGCATTTCTGCT
1 TTTCGACTTTTCGA-CATTTCGGCT
57625185 TTTCGACTTTTCGACATTTCGGCT
1 TTTCGACTTTTCGACATTTCGGCT
57625209 TTT
1 TTT
57625212 GCCGATACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.12, C:0.24, G:0.14, T:0.51
Consensus pattern (24 bp):
TTTCGACTTTTCGACATTTCGGCT
Found at i:57630028 original size:43 final size:43
Alignment explanation
Indices: 57629951--57630074 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 43
57629941 AGTACAATAT
* * * * * *
57629951 CAACGTCCTAGACGTGGTCTTACATGTAATCACATATCAATGC
1 CAACGTCCCAAACGTGGTCTTAAACGAAAACACATATCAATGC
** * * * *
57629994 CATTGTCCCATACAG-GGTTTTACACGAAAACACATGTCAATGC
1 CAACGTCCCAAAC-GTGGTCTTAAACGAAAACACATATCAATGC
*
57630037 CAACGTCCCAAACGTGGTCTTAAACGAGAACACATATC
1 CAACGTCCCAAACGTGGTCTTAAACGAAAACACATATC
57630075 GAAAATCCTA
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 1 0.02
43 61 0.97
44 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
CAACGTCCCAAACGTGGTCTTAAACGAAAACACATATCAATGC
Found at i:57636198 original size:46 final size:46
Alignment explanation
Indices: 57636126--57636277 Score: 184
Period size: 46 Copynumber: 3.4 Consensus size: 46
57636116 GCTAATTATG
*
57636126 TGCACTTAGTGTGCGAAATCGAGATAGCTTCGGCTATATATATTTT
1 TGCACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATATTTT
* * * *
57636172 TGCATTTAGTGTGCGAGATCAAGATAGCTTTGGCTATATATATATT
1 TGCACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATATTTT
* * * * *
57636218 GGCACTTAGTGTGCAAGATTGATACAGCTTCGGCTAT-T-TA-TTT
1 TGCACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATATTTT
*
57636261 TGCACTAAGTGTGCGAG
1 TGCACTTAGTGTGCGAG
57636278 TTTCTCGAGT
Statistics
Matches: 89, Mismatches: 17, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
43 16 0.18
44 2 0.02
45 1 0.01
46 70 0.79
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (46 bp):
TGCACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATATATTTT
Found at i:57637220 original size:33 final size:34
Alignment explanation
Indices: 57637176--57637247 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
57637166 AACAGTGCAT
* *
57637176 GCAGTAACAGTCTGGGCCTGAGCCCTATTCAGTA
1 GCAGTAACAGTCTGGGCCTAAGCCCTATACAGTA
*
57637210 TCAGT-ACAGTCTGGGCCTAAGCCCTATACAGTA
1 GCAGTAACAGTCTGGGCCTAAGCCCTATACAGTA
57637243 GCAGT
1 GCAGT
57637248 GTGGGCCTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 30 0.88
34 4 0.12
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (34 bp):
GCAGTAACAGTCTGGGCCTAAGCCCTATACAGTA
Found at i:57637252 original size:28 final size:27
Alignment explanation
Indices: 57637211--57637270 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
57637201 TATTCAGTAT
*
57637211 CAGTACAGTCTGGGCCTAAGCCCTATA
1 CAGTACAGTCTGGGCCTAAGCCCAATA
* *
57637238 CAGTAGCAGTGTGGGCCTAAGCCCAATG
1 CAGTA-CAGTCTGGGCCTAAGCCCAATA
57637266 CAGTA
1 CAGTA
57637271 ACAATACAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (27 bp):
CAGTACAGTCTGGGCCTAAGCCCAATA
Found at i:57637422 original size:26 final size:26
Alignment explanation
Indices: 57637393--57637463 Score: 124
Period size: 26 Copynumber: 2.7 Consensus size: 26
57637383 CACCAATATC
* *
57637393 GCAGCAAAGCTACCAGAAATAATGAT
1 GCAGCATAGCTGCCAGAAATAATGAT
57637419 GCAGCATAGCTGCCAGAAATAATGAT
1 GCAGCATAGCTGCCAGAAATAATGAT
57637445 GCAGCATAGCTGCCAGAAA
1 GCAGCATAGCTGCCAGAAA
57637464 CAATAAATGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.15
Consensus pattern (26 bp):
GCAGCATAGCTGCCAGAAATAATGAT
Found at i:57637509 original size:27 final size:27
Alignment explanation
Indices: 57637479--57637543 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
57637469 AATGTGGTAA
* *
57637479 AGCCACCAGTATCAGT-AATTATGGCAT
1 AGCCACCAGTAACAGTGAA-TATGACAT
*
57637506 AGCCACCAGTAACAGTGAATGTGACAT
1 AGCCACCAGTAACAGTGAATATGACAT
*
57637533 AGTCACCAGTA
1 AGCCACCAGTA
57637544 CAGAACTTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 31 0.94
28 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (27 bp):
AGCCACCAGTAACAGTGAATATGACAT
Found at i:57637772 original size:27 final size:26
Alignment explanation
Indices: 57637685--57637777 Score: 96
Period size: 27 Copynumber: 3.5 Consensus size: 26
57637675 TGCACAATCA
* * * *
57637685 TCATTTTACCATATAGGGGTATCACGG
1 TCATTTTACC-TACAAGGGCATTACGG
* *
57637712 TCACTTTACCCTACAAGGGCTTTACGG
1 TCATTTTA-CCTACAAGGGCATTACGG
57637739 TCATTTTATCCTACAAGGGCATTACGG
1 TCATTTTA-CCTACAAGGGCATTACGG
*
57637766 TCTTTTTACCTA
1 TCATTTTACCTA
57637778 TTAGGGGTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.07
27 49 0.89
28 2 0.04
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (26 bp):
TCATTTTACCTACAAGGGCATTACGG
Found at i:57637783 original size:26 final size:27
Alignment explanation
Indices: 57637708--57637777 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
57637698 TAGGGGTATC
* * *
57637708 ACGGTCACTTTACCCTACAAGGGCTTT
1 ACGGTCATTTTATCCTACAAGGGCATT
57637735 ACGGTCATTTTATCCTACAAGGGCATT
1 ACGGTCATTTTATCCTACAAGGGCATT
*
57637762 ACGGTCTTTTTA-CCTA
1 ACGGTCATTTTATCCTA
57637778 TTAGGGGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 4 0.10
27 35 0.90
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (27 bp):
ACGGTCATTTTATCCTACAAGGGCATT
Found at i:57637858 original size:27 final size:27
Alignment explanation
Indices: 57637828--57638006 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
57637818 GGTAAATCTA
* * *
57637828 CAAACTAAGGGTATTTTAATAATTTTG
1 CAAATTAAGGGTATTTTAGTAATTTTC
** * *
57637855 CAAACCAATGGTATTTTAGTAATTTTT
1 CAAATTAAGGGTATTTTAGTAATTTTC
* * *
57637882 AAAAGTTAAGGGTATTTTTGTAATTTTG
1 CAAA-TTAAGGGTATTTTAGTAATTTTC
* *
57637910 TAAATCAAGGGTATTTCTA-TAATTTTC
1 CAAATTAAGGGTATTT-TAGTAATTTTC
*
57637937 CAAATTAAGGGTATTTTGGTAATTTTC
1 CAAATTAAGGGTATTTTAGTAATTTTC
* * * *
57637964 CAAATCAGGGGTATTTTGGTAATTTTA
1 CAAATTAAGGGTATTTTAGTAATTTTC
57637991 CAAATTAAGGGTATTT
1 CAAATTAAGGGTATTT
57638007 CGATAATGTT
Statistics
Matches: 127, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 104 0.82
28 22 0.17
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (27 bp):
CAAATTAAGGGTATTTTAGTAATTTTC
Found at i:57637969 original size:54 final size:53
Alignment explanation
Indices: 57637826--57638006 Score: 211
Period size: 54 Copynumber: 3.3 Consensus size: 53
57637816 TTGGTAAATC
* * * *
57637826 TACAAACTAAGGGTATTTTAATAATTTTGCAAACCAATGGTATTTTAGTAATTTT
1 TACAAATTAAGGGTATTTTAGTAATTTTGCAAATCAAGGGTATTTTA-TAA-TTT
* *
57637881 TA-AAAGTTAAGGGTATTTTTGTAATTTTGTAAATCAAGGGTATTTCTATAATTT
1 TACAAA-TTAAGGGTATTTTAGTAATTTTGCAAATCAAGGGTATTT-TATAATTT
* * * * *
57637935 TCCAAATTAAGGGTATTTTGGTAATTTTCCAAATCAGGGGTATTTTGGTAATTT
1 TACAAATTAAGGGTATTTTAGTAATTTTGCAAATCAAGGGTATTTT-ATAATTT
57637989 TACAAATTAAGGGTATTT
1 TACAAATTAAGGGTATTT
57638007 CGATAATGTT
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
53 1 0.01
54 65 0.60
55 41 0.38
56 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (53 bp):
TACAAATTAAGGGTATTTTAGTAATTTTGCAAATCAAGGGTATTTTATAATTT
Found at i:57638013 original size:27 final size:27
Alignment explanation
Indices: 57637807--57638019 Score: 164
Period size: 27 Copynumber: 7.9 Consensus size: 27
57637797 TTCACCCTAC
* * * * *
57637807 AAGGGTGTTTTGGTAAATCTACAAACT
1 AAGGGTATTTTGATAATTTTACAAATT
* * **
57637834 AAGGGTATTTTAATAATTTTGCAAACC
1 AAGGGTATTTTGATAATTTTACAAATT
*
57637861 AATGGTATTTT-AGTAATTTTTA-AAAGTT
1 AAGGGTATTTTGA-TAA-TTTTACAAA-TT
** *
57637889 AAGGGTATTTTTG-TAATTTTGTAAATC
1 AAGGGTA-TTTTGATAATTTTACAAATT
*
57637916 AAGGGTATTTCT-ATAATTTTCCAAATT
1 AAGGGTATTT-TGATAATTTTACAAATT
* * *
57637943 AAGGGTATTTTGGTAATTTTCCAAATC
1 AAGGGTATTTTGATAATTTTACAAATT
* *
57637970 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGATAATTTTACAAATT
* *
57637997 AAGGGTATTTCGATAATGTTACA
1 AAGGGTATTTTGATAATTTTACA
57638020 GGTCGAAGGT
Statistics
Matches: 151, Mismatches: 26, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
26 5 0.03
27 126 0.83
28 16 0.11
29 4 0.03
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.42
Consensus pattern (27 bp):
AAGGGTATTTTGATAATTTTACAAATT
Found at i:57638031 original size:54 final size:54
Alignment explanation
Indices: 57637826--57638048 Score: 143
Period size: 54 Copynumber: 4.1 Consensus size: 54
57637816 TTGGTAAATC
* ** * * * *
57637826 TACAAACTAAGGGTATTTTAATAATTTTGCAAACCA-ATGGTATTTTAGTAATTTT
1 TACAAATTAAGGGTATTTCGATAATGTTACAAATCAGA-GGTATTTCAGTAA-TTT
* * **
57637881 TA-AAAGTTAAGGGTATTTTTG-TAATTTTGTAAATCA-AGGGTATTTCTA-TAATTT
1 TACAAA-TTAAGGGTA-TTTCGATAATGTTACAAATCAGA-GGTATTTC-AGTAATTT
* * * * * * **
57637935 TCCAAATTAAGGGTATTTTGGTAATTTTCCAAATCAGGGGTATTTTGGTAATTT
1 TACAAATTAAGGGTATTTCGATAATGTTACAAATCAGAGGTATTTCAGTAATTT
** *
57637989 TACAAATTAAGGGTATTTCGATAATGTTACAGGTC-GAAGGTATTTCAGTAACTT
1 TACAAATTAAGGGTATTTCGATAATGTTACAAATCAG-AGGTATTTCAGTAATTT
57638043 TACAAA
1 TACAAA
57638049 CCAGGGGTAT
Statistics
Matches: 137, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
53 6 0.04
54 89 0.65
55 37 0.27
56 5 0.04
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.41
Consensus pattern (54 bp):
TACAAATTAAGGGTATTTCGATAATGTTACAAATCAGAGGTATTTCAGTAATTT
Found at i:57638031 original size:81 final size:81
Alignment explanation
Indices: 57637864--57638067 Score: 205
Period size: 81 Copynumber: 2.5 Consensus size: 81
57637854 GCAAACCAAT
* * * ** *
57637864 GGTATTTTAGTAATTTTTA-AAAGTTAAGGGTATTTTTGTAATTTTGTAAATCAAGGGTATTTCT
1 GGTATTTTAGTAA-TTTTACAAA-TCAGGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCG
* * *
57637928 ATAATTTTCCAAATTAAG
64 ATAATGTTACAAATGAAG
* * * *
57637946 GGTATTTTGGTAATTTTCCAAATCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGAT
1 GGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGAT
**
57638011 AATGTTACAGGTCGAA-
66 AATGTTACAAAT-GAAG
* * *
57638027 GGTATTTCAGTAACTTTACAAACCAGGGGTATTTTAGTAAT
1 GGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAAT
57638068 ACTAGCCTAC
Statistics
Matches: 100, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
81 83 0.83
82 17 0.17
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (81 bp):
GGTATTTTAGTAATTTTACAAATCAGGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCGAT
AATGTTACAAATGAAG
Found at i:57640820 original size:33 final size:33
Alignment explanation
Indices: 57640782--57640873 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
57640772 GAGGTGTACA
57640782 TTCCTTTCCAAATGGTACACACAAAGTATACCT
1 TTCCTTTCCAAATGGTACACACAAAGTATACCT
* * * *
57640815 TTCCTTTTCATATGGTATACACAAAGTATATCT
1 TTCCTTTCCAAATGGTACACACAAAGTATACCT
** * *
57640848 AACCTTTCCAAGT-GTACACAAAAAGT
1 TTCCTTTCCAAATGGTACACACAAAGT
57640874 GTACATAACA
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
32 11 0.23
33 37 0.77
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (33 bp):
TTCCTTTCCAAATGGTACACACAAAGTATACCT
Found at i:57658555 original size:16 final size:16
Alignment explanation
Indices: 57658515--57658557 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
57658505 CTTACCATTC
*
57658515 ATGTTCATCAAGTAAT
1 ATGTTCATTAAGTAAT
*
57658531 -TCGTACATTAAGTAAT
1 AT-GTTCATTAAGTAAT
57658547 ATGTTCATTAA
1 ATGTTCATTAA
57658558 CTTAGTCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (16 bp):
ATGTTCATTAAGTAAT
Found at i:57658855 original size:32 final size:33
Alignment explanation
Indices: 57658796--57658860 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
57658786 CATATAGTAT
*
57658796 ACACAAAGTAGACCTAACATTTCCAAG-TGTAC
1 ACACAAAGTAGACATAACATTTCCAAGTTGTAC
* *
57658828 ACACAAAG-AGTACATAACCTTTTCAAGTTGTAC
1 ACACAAAGTAG-ACATAACATTTCCAAGTTGTAC
57658861 CATTTGGGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 2 0.07
32 21 0.75
33 5 0.18
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (33 bp):
ACACAAAGTAGACATAACATTTCCAAGTTGTAC
Found at i:57661548 original size:96 final size:96
Alignment explanation
Indices: 57661441--57661614 Score: 253
Period size: 96 Copynumber: 1.8 Consensus size: 96
57661431 TTTACTTTCT
* * *
57661441 TCTCTTGTTGGATATTTAATTGGACATCGAAAACCCTTAT-ATCCTTTTCAACTACACCAATAAC
1 TCTCTAGTTGGATATTTAATTGGACATCGAAAACCCTCATGAT-CTTTGCAACTACACCAATAAC
57661505 A-TTGCACAAAAGGTGATAGCTCAATCTTGTTC
65 AGTT-CACAAAAGGTGATAGCTCAATCTTGTTC
* * *
57661537 TCTCTAGTTGGATATTTTATTGGACATCGGAAACCCTCATGATCTTTGGAACTACACCAATAACA
1 TCTCTAGTTGGATATTTAATTGGACATCGAAAACCCTCATGATCTTTGCAACTACACCAATAACA
*
57661602 GTTCACAATAGGT
66 GTTCACAAAAGGT
57661615 AAAAGATCAA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
96 65 0.94
97 4 0.06
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.33
Consensus pattern (96 bp):
TCTCTAGTTGGATATTTAATTGGACATCGAAAACCCTCATGATCTTTGCAACTACACCAATAACA
GTTCACAAAAGGTGATAGCTCAATCTTGTTC
Found at i:57669071 original size:56 final size:56
Alignment explanation
Indices: 57668905--57669133 Score: 428
Period size: 56 Copynumber: 4.1 Consensus size: 56
57668895 ACAAGGGATG
*
57668905 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
57668961 ATGGGCAAAACATGTCATGAAACA---TGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
57669014 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
57669070 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
57669126 ATGGGCAA
1 ATGGGCAA
57669134 TAAACTAATA
Statistics
Matches: 169, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
53 52 0.31
56 117 0.69
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:57669096 original size:109 final size:110
Alignment explanation
Indices: 57668905--57669133 Score: 424
Period size: 109 Copynumber: 2.1 Consensus size: 110
57668895 ACAAGGGATG
57668905 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAA
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAA
57668970 ACATGTCATGAAACA-TGTGTTAATGGAAGAATAAAATAAGAAGC
66 ACATGTCATGAAACATTGTGTTAATGGAAGAATAAAATAAGAAGC
*
57669014 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATGGGCAAA
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAA
57669079 ACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
66 ACATGTCATGAAACA--TTGTGTTAATGGAAGAATAAAATAAGAAGC
57669126 ATGGGCAA
1 ATGGGCAA
57669134 TAAACTAATA
Statistics
Matches: 116, Mismatches: 1, Indels: 3
0.97 0.01 0.03
Matches are distributed among these distances:
109 79 0.68
112 37 0.32
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.22
Consensus pattern (110 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGCATGGGCAAA
ACATGTCATGAAACATTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:57669718 original size:39 final size:40
Alignment explanation
Indices: 57669615--57669799 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
57669605 TCGAATGATG
* * *
57669615 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
57669654 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
57669695 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
57669734 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
57669773 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
57669800 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:57669821 original size:79 final size:79
Alignment explanation
Indices: 57669670--57669832 Score: 197
Period size: 79 Copynumber: 2.1 Consensus size: 79
57669660 ACTAAGATCT
* **
57669670 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
* *
57669735 CTGGGTTAAGTCCC
66 CTCGGTTAAATCCC
* *
57669749 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTA
* *
57669812 TATC-CGGTTAAATTCC
63 AATCTCGGTTAAATCCC
57669828 GAAGG
1 GAAGG
57669833 TACGTGATTT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAAT
CTCGGTTAAATCCC
Found at i:57676362 original size:56 final size:56
Alignment explanation
Indices: 57676276--57676507 Score: 455
Period size: 56 Copynumber: 4.1 Consensus size: 56
57676266 ACAAGGGATG
*
57676276 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
57676332 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
57676388 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
57676444 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
57676500 ATGGGCAA
1 ATGGGCAA
57676508 TAAACTAATA
Statistics
Matches: 175, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 175 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:57677128 original size:79 final size:81
Alignment explanation
Indices: 57676988--57677172 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
57676978 TCGAATGATG
* *
57676988 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATTCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
57677052 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
57677067 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
57677129 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
57677147 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57677173 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:57677186 original size:40 final size:40
Alignment explanation
Indices: 57676989--57677172 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
57676979 CGAATGATGT
* * * *
57676989 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * * *
57677029 TCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
57677069 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
57677107 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
57677148 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57677173 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:57677194 original size:79 final size:79
Alignment explanation
Indices: 57677041--57677205 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
57677031 GGACTAAGAT
* **
57677041 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
57677106 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
57677120 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
57677183 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
57677199 CCGAAGG
1 CCGAAGG
57677206 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:57680275 original size:41 final size:41
Alignment explanation
Indices: 57680130--57680275 Score: 152
Period size: 41 Copynumber: 3.6 Consensus size: 41
57680120 CCCGATTCTT
* * *
57680130 AGCACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTA-G
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTC-GATTATG
* * * * * * *
57680171 ACCACTGGCTCGAAGGCCCTTCGGAACTTAGTCCGGTTATG
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGATTATG
* * *
57680212 A-CACTGGCTCTAACGCCCTTCGAAACTAAGTTCGATTATT
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGATTATG
57680252 AGCACTGGCTCAAAAGCCCTTCGA
1 AGCACTGGCTCAAAAGCCCTTCGA
57680276 GACCAAGCTC
Statistics
Matches: 84, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
40 37 0.44
41 47 0.56
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (41 bp):
AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGATTATG
Found at i:57680959 original size:33 final size:33
Alignment explanation
Indices: 57680917--57680983 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
57680907 ACACATAAAG
57680917 TTAACTAAAGCTACATTCACTTATAAGGTAGTA
1 TTAACTAAAGCTACATTCACTTATAAGGTAGTA
57680950 TTAACTAAAGCTACATTCACTTATAAGGTAGTA
1 TTAACTAAAGCTACATTCACTTATAAGGTAGTA
57680983 T
1 T
57680984 CCCTAATGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (33 bp):
TTAACTAAAGCTACATTCACTTATAAGGTAGTA
Found at i:57684634 original size:46 final size:46
Alignment explanation
Indices: 57684584--57684759 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
57684574 TGGTTGAGCA
*
57684584 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
57684630 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
57684677 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
57684723 CCCGAGCTCGTTGAGTTGAGTCCGAATTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57684760 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:57684740 original size:93 final size:93
Alignment explanation
Indices: 57684581--57684752 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
57684571 GGATGGTTGA
* *
57684581 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
57684646 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAATTCGTGAGATGTAACTAG
* * *
57684674 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
57684739 TGAGTCCGAATTCG
66 TGAGTCCGAATTCG
57684753 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAATTCGTGAGATGTAACTAG
Found at i:57691736 original size:41 final size:41
Alignment explanation
Indices: 57691691--57691814 Score: 155
Period size: 41 Copynumber: 3.0 Consensus size: 41
57691681 CGATTCTTAG
57691691 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGAC
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGAC
* * * *
57691732 CACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGATTATGA-
1 CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCTCAGATTA-GAC
*
57691772 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTTAGAC
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGA-TTAGAC
57691814 C
1 C
57691815 CCGATTAGCA
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
40 32 0.46
41 33 0.48
42 4 0.06
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCAGATTAGAC
Found at i:57695025 original size:29 final size:30
Alignment explanation
Indices: 57694993--57695066 Score: 114
Period size: 29 Copynumber: 2.5 Consensus size: 30
57694983 GCTATCGGTT
*
57694993 ATGAAAAGGGATGGTGATGACCAT-CAACA
1 ATGAAAAGGGATGGTGACGACCATACAACA
* *
57695022 ATGAAAAGGGATGGTGACGACCATAGAACT
1 ATGAAAAGGGATGGTGACGACCATACAACA
57695052 ATGAAAAGGGATGGT
1 ATGAAAAGGGATGGT
57695067 TTCGGTTGTC
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 23 0.56
30 18 0.44
ACGTcount: A:0.41, C:0.11, G:0.31, T:0.18
Consensus pattern (30 bp):
ATGAAAAGGGATGGTGACGACCATACAACA
Found at i:57695058 original size:30 final size:29
Alignment explanation
Indices: 57694992--57695183 Score: 127
Period size: 30 Copynumber: 6.4 Consensus size: 29
57694982 GGCTATCGGT
*
57694992 TATGAAAAGGGATGGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
57695021 AATGAAAAGGGATGGTGACGACCATAGAAC
1 TATGAAAAGGGATGGTGACGACCAT-CAAC
** **** **
57695051 TATGAAAAGGGATGGTTTCGGTTGTCGATT
1 TATGAAAAGGGATGGTGACGACCATC-AAC
* * * *
57695081 TATGAAAAGGGAGTGCT-TC-AGCTATCAAAT
1 TATGAAAAGGGA-TGGTGACGA-CCATC-AAC
*
57695111 TATGAAAATGGATGGTGACGACCATCAAGC
1 TATGAAAAGGGATGGTGACGACCATCAA-C
* * * *
57695141 AATAAAAAGGGATGGTGATGACCATCAAAT
1 TATGAAAAGGGATGGTGACGACCATC-AAC
57695171 TATGAAAAGGGAT
1 TATGAAAAGGGAT
57695184 AGCTTCGGCT
Statistics
Matches: 124, Mismatches: 31, Indels: 15
0.73 0.18 0.09
Matches are distributed among these distances:
29 28 0.23
30 90 0.73
31 6 0.05
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:57695229 original size:30 final size:30
Alignment explanation
Indices: 57695168--57695239 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
57695158 ATGACCATCA
* *
57695168 AATTATGAAAAGGGATAGCTTCGGCTGTCG
1 AATTATGAAAAGGGATAGCTTCAGCTATCG
* *
57695198 AATTATAAAAAGGGATAAG-TTCAGTTATCG
1 AATTATGAAAAGGGAT-AGCTTCAGCTATCG
*
57695228 AACTATGAAAAG
1 AATTATGAAAAG
57695240 AGATGGGTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (30 bp):
AATTATGAAAAGGGATAGCTTCAGCTATCG
Found at i:57708028 original size:20 final size:21
Alignment explanation
Indices: 57707984--57708031 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
57707974 TGACCCCTAT
*
57707984 AGTTT-TG-AAAATTTTCATT
1 AGTTTCTGAAAAATTTTCATG
*
57708003 ATTTTCTGAAAAATTTT-ATG
1 AGTTTCTGAAAAATTTTCATG
57708023 AGTTTCTGA
1 AGTTTCTGA
57708032 TTTAGTCCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 12 0.50
21 8 0.33
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (21 bp):
AGTTTCTGAAAAATTTTCATG
Found at i:57715028 original size:23 final size:23
Alignment explanation
Indices: 57715002--57715053 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
57714992 ACGGTACAAG
* *
57715002 TTAAAGTACATCAACGGCTAAGA
1 TTAAAATACATCAACGACTAAGA
57715025 TTAAAATACATCAACGACTAAGA
1 TTAAAATACATCAACGACTAAGA
57715048 TTAAAA
1 TTAAAA
57715054 ACAATCTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (23 bp):
TTAAAATACATCAACGACTAAGA
Found at i:57715113 original size:17 final size:17
Alignment explanation
Indices: 57715091--57715144 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
57715081 TTTTCAGAAT
**
57715091 CATATCTTTTAAGATTA
1 CATATCTTCCAAGATTA
*
57715108 CATATCATCCAAGATTA
1 CATATCTTCCAAGATTA
*
57715125 CATATCTTCGAAGATTA
1 CATATCTTCCAAGATTA
57715142 CAT
1 CAT
57715145 TCCATATTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (17 bp):
CATATCTTCCAAGATTA
Found at i:57715810 original size:19 final size:18
Alignment explanation
Indices: 57715782--57715817 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
57715772 AGTTTGTAAT
*
57715782 ATAATATATAGATAAATA
1 ATAATATATACATAAATA
57715800 ATAACTATATACATAAAT
1 ATAA-TATATACATAAAT
57715818 TTTAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (18 bp):
ATAATATATACATAAATA
Found at i:57719987 original size:21 final size:21
Alignment explanation
Indices: 57719953--57719994 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
57719943 AATGTGGCAA
*
57719953 GTTAACTTGCCACATCAGCTG
1 GTTAAATTGCCACATCAGCTG
*
57719974 GTTAAATTGTCACATCAGCTG
1 GTTAAATTGCCACATCAGCTG
57719995 TCCCGTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (21 bp):
GTTAAATTGCCACATCAGCTG
Found at i:57728644 original size:19 final size:19
Alignment explanation
Indices: 57728600--57728647 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
57728590 AAAATAATTT
*
57728600 TAAAAAATGTAATAGTAAA
1 TAAAAAATATAATAGTAAA
**
57728619 TTTAAAATATATATA-TAAA
1 TAAAAAATATA-ATAGTAAA
57728638 TAAAAAATAT
1 TAAAAAATAT
57728648 TGTTGAAAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (19 bp):
TAAAAAATATAATAGTAAA
Found at i:57728707 original size:30 final size:30
Alignment explanation
Indices: 57728673--57728741 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
57728663 ATAGGACCGT
57728673 TTTACTAGAAAAGGCTTATTTCT-TATT-TTA
1 TTTACTAGAAAAGGCTTATTT-TAT-TTATTA
* * *
57728703 TTTAC-GGAAATGGGTTATTTTATTTATTA
1 TTTACTAGAAAAGGCTTATTTTATTTATTA
57728732 TTTACTAGAA
1 TTTACTAGAA
57728742 TGGGCCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
28 3 0.09
29 21 0.66
30 8 0.25
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.49
Consensus pattern (30 bp):
TTTACTAGAAAAGGCTTATTTTATTTATTA
Found at i:57729072 original size:28 final size:28
Alignment explanation
Indices: 57729028--57729093 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
57729018 GGAGATTTAT
*
57729028 AAAATAAATTGGAGTTTAGGGA-TTTAAA
1 AAAATAAATTGAAGTTTA-GGATTTTAAA
*
57729056 AAAATAAA-TGAAGGTTTAGGATTTTTAA
1 AAAATAAATTGAA-GTTTAGGATTTTAAA
*
57729084 AAAATTAATT
1 AAAATAAATT
57729094 AAATTAGGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 6 0.19
28 25 0.78
29 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (28 bp):
AAAATAAATTGAAGTTTAGGATTTTAAA
Found at i:57729086 original size:27 final size:28
Alignment explanation
Indices: 57729023--57729086 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
57729013 GGTTTGGAGA
*
57729023 TTTATAAAATAAATTGGAGTTTAGGGATT
1 TTTA-AAAATAAATTGAAGTTTAGGGATT
**
57729052 TAAAAAAATAAA-TGAAGGTTTA-GGATT
1 TTTAAAAATAAATTGAA-GTTTAGGGATT
57729079 TTTAAAAA
1 TTTAAAAA
57729087 ATTAATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 14 0.48
28 13 0.45
29 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (28 bp):
TTTAAAAATAAATTGAAGTTTAGGGATT
Found at i:57729121 original size:33 final size:32
Alignment explanation
Indices: 57729067--57729158 Score: 123
Period size: 32 Copynumber: 2.8 Consensus size: 32
57729057 AAATAAATGA
*
57729067 AGGTTTAGGATTTTTAAAAAATTAATTAAATT
1 AGGTTTAGGGTTTTTAAAAAATTAATTAAATT
* *
57729099 AGGTTTAGGGCTTTTAAGAAAATTAATTAACTT
1 AGGTTTAGGGTTTTTAA-AAAATTAATTAAATT
*
57729132 AGGGTTTAGGGTTTTTTAAAAA-TAATT
1 A-GGTTTAGGGTTTTTAAAAAATTAATT
57729159 TTGTGTTTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
32 20 0.38
33 19 0.36
34 14 0.26
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.42
Consensus pattern (32 bp):
AGGTTTAGGGTTTTTAAAAAATTAATTAAATT
Found at i:57736107 original size:5 final size:5
Alignment explanation
Indices: 57736097--57736129 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
57736087 ACAGGGTGAA
57736097 GGGAG GGGAG GGGAG GGGAG GGGAG GGGAG GGG
1 GGGAG GGGAG GGGAG GGGAG GGGAG GGGAG GGG
57736130 GAGAGAGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.82, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:57736137 original size:15 final size:15
Alignment explanation
Indices: 57736097--57736138 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
57736087 ACAGGGTGAA
*
57736097 GGGAGGGGAGGGGAG
1 GGGAGGAGAGGGGAG
*
57736112 GGGAGGGGAGGGGAG
1 GGGAGGAGAGGGGAG
57736127 GGG-GAGAGAGGG
1 GGGAG-GAGAGGG
57736139 ACCGGGTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 1 0.04
15 24 0.96
ACGTcount: A:0.21, C:0.00, G:0.79, T:0.00
Consensus pattern (15 bp):
GGGAGGAGAGGGGAG
Found at i:57736210 original size:12 final size:12
Alignment explanation
Indices: 57736165--57736224 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
57736155 TTTATTGTAT
57736165 TAAATATTAATA
1 TAAATATTAATA
*
57736177 TAATTATATTTAT-
1 TAA--ATATTAATA
**
57736190 TTTATATTAATA
1 TAAATATTAATA
*
57736202 TGAATATTAATA
1 TAAATATTAATA
*
57736214 TAAATTTTAAT
1 TAAATATTAAT
57736225 TTTTTATTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
11 7 0.19
12 22 0.59
13 1 0.03
14 7 0.19
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
TAAATATTAATA
Found at i:57736247 original size:29 final size:28
Alignment explanation
Indices: 57736215--57736289 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 28
57736205 ATATTAATAT
57736215 AAATTTTAATTTTTTATTATAT-TTTATGA
1 AAATTTTAATTTTTTATTATATATTT-T-A
*
57736244 AAA-TAT-ATTTATTT-TTATATATTTTA
1 AAATTTTAATTT-TTTATTATATATTTTA
57736270 AAATTTTATATATTTTTATT
1 AAATTTTA-AT-TTTTTATT
57736290 TCTTGTCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
26 4 0.11
27 13 0.35
28 8 0.22
29 8 0.22
30 4 0.11
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (28 bp):
AAATTTTAATTTTTTATTATATATTTTA
Found at i:57736261 original size:27 final size:27
Alignment explanation
Indices: 57736225--57736288 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
57736215 AAATTTTAAT
*
57736225 TTTTTATTATATTTTATGAAAATATATTTA
1 TTTTTA-TATATTTTA--AAATTATATTTA
* *
57736255 TTTTTATATATTTTAAAATTTTATATA
1 TTTTTATATATTTTAAAATTATATTTA
57736282 TTTTTAT
1 TTTTTAT
57736289 TTCTTGTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 16 0.52
29 9 0.29
30 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTTTATATATTTTAAAATTATATTTA
Found at i:57736340 original size:21 final size:21
Alignment explanation
Indices: 57736313--57736367 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
57736303 ATTTTTTTAT
57736313 TTTATATATTTTTAAAAAAT-
1 TTTATATATTTTTAAAAAATA
*
57736333 TATTATAT-TTTTT-GAAAATA
1 T-TTATATATTTTTAAAAAATA
*
57736353 TTTATGTATTTTTAA
1 TTTATATATTTTTAA
57736368 TTTCTTGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 10 0.36
20 12 0.43
21 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (21 bp):
TTTATATATTTTTAAAAAATA
Found at i:57738152 original size:27 final size:27
Alignment explanation
Indices: 57738122--57738182 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
57738112 CCTAAATTCG
57738122 AATGTAAAAACCTTAT-AGTTTCATTAA
1 AATGTAAAAACCTTATGA-TTTCATTAA
*
57738149 AATGTAAAAACGTTATGATTTCATTAA
1 AATGTAAAAACCTTATGATTTCATTAA
57738176 AATGTAA
1 AATGTAA
57738183 CACCTACTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (27 bp):
AATGTAAAAACCTTATGATTTCATTAA
Found at i:57739321 original size:51 final size:52
Alignment explanation
Indices: 57739264--57739369 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 52
57739254 AAGCTTTTAT
* *
57739264 TTTAAAAT-ATTTGAAAAAAATCAAAATTTT-GTTTTAAAATTTAAACTTTC-C
1 TTTAAAATGA-TT-AAAAAAAACAAAATTTTAGTTTTAAAATCTAAACTTTCTC
* *
57739315 TTTAAAATGATTAAAAAAAACATATTTTTAGTTTTAAAATCTAAACTTTCTC
1 TTTAAAATGATTAAAAAAAACAAAATTTTAGTTTTAAAATCTAAACTTTCTC
57739367 TTT
1 TTT
57739370 TTTTAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
50 14 0.29
51 29 0.60
52 5 0.10
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.44
Consensus pattern (52 bp):
TTTAAAATGATTAAAAAAAACAAAATTTTAGTTTTAAAATCTAAACTTTCTC
Found at i:57739358 original size:145 final size:143
Alignment explanation
Indices: 57739095--57739380 Score: 389
Period size: 145 Copynumber: 2.0 Consensus size: 143
57739085 AATCATGTAC
** *
57739095 TTTTCTTAAAAATCAAAATTTTATTTCGAATAGTTGAAAAATATCAAAAATTTGTTTTAAAAAAT
1 TTTTCTTAAAAATCAAAATTTTATTTAAAATAGTTGAAAAAAATCAAAAATTTGTTTT-AAAAAT
*
57739160 CTAAACTTTTCCTTTAAAACGACTAAAAAACATATTTTTATTTTAAAAATCTAAACTTTCTTTTT
65 CTAAACTTTTCCTTTAAAACGACTAAAAAACATATTTTTATTTTAAAAATCTAAACTTTCTCTTT
*
57739225 TTTTTAAAAAATAT
130 TTTTAAAAAAATAT
* * * *
57739239 TTTTCTTAAAGATCAAAGCTTTTATTTTAAAATATTTGAAAAAAATCAAAATTTTGTTTT-AAAA
1 TTTTCTTAAAAATCAAA-ATTTTA-TTTAAAATAGTTGAAAAAAATCAAAAATTTGTTTTAAAAA
* * *
57739303 TTTAAAC-TTTCCTTTAAAATGATTAAAAAAAACATATTTTTAGTTTT-AAAATCTAAACTTTCT
64 TCTAAACTTTTCCTTTAAAACGACT--AAAAAACATATTTTTA-TTTTAAAAATCTAAACTTTCT
57739366 CTTTTTTTAAAAAAA
126 CTTTTTTTAAAAAAA
57739381 ATCTAAACTT
Statistics
Matches: 125, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
143 15 0.12
144 26 0.21
145 50 0.40
146 34 0.27
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (143 bp):
TTTTCTTAAAAATCAAAATTTTATTTAAAATAGTTGAAAAAAATCAAAAATTTGTTTTAAAAATC
TAAACTTTTCCTTTAAAACGACTAAAAAACATATTTTTATTTTAAAAATCTAAACTTTCTCTTTT
TTTAAAAAAATAT
Found at i:57739983 original size:26 final size:26
Alignment explanation
Indices: 57739930--57739983 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
57739920 TTGTTCGGTC
* **
57739930 AAATAAATTATTTAAAAAATTCACAA
1 AAATAAAATATTTAAAAAATAAACAA
* *
57739956 AAATAAAATATTTAAACAATAAAGAA
1 AAATAAAATATTTAAAAAATAAACAA
57739982 AA
1 AA
57739984 TCAATACAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.26
Consensus pattern (26 bp):
AAATAAAATATTTAAAAAATAAACAA
Found at i:57740320 original size:15 final size:14
Alignment explanation
Indices: 57740259--57740311 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
57740249 AAATGAAGAA
57740259 AAAAGAAAAAAAAAT
1 AAAAG-AAAAAAAAT
**
57740274 AAATAGAGAAATAATGT
1 AAA-AGA-AAA-AAAAT
57740291 AAAAGAAAAAAAAT
1 AAAAGAAAAAAAAT
57740305 AAAAGAA
1 AAAAGAA
57740312 TTAAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 10 0.32
15 7 0.23
16 8 0.26
17 6 0.19
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (14 bp):
AAAAGAAAAAAAAT
Found at i:57742107 original size:24 final size:23
Alignment explanation
Indices: 57742076--57742131 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
57742066 AGTCTTATAA
57742076 CGGGAAGCTCACAAAGAGCCATAT
1 CGGGAAGCTCACAAAGAGCC-TAT
* * *
57742100 CGGGAAGCTTATATAGAGCCTAT
1 CGGGAAGCTCACAAAGAGCCTAT
*
57742123 CGAGAAGCT
1 CGGGAAGCT
57742132 TATCTGGGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.18
Consensus pattern (23 bp):
CGGGAAGCTCACAAAGAGCCTAT
Found at i:57742129 original size:23 final size:24
Alignment explanation
Indices: 57742090--57742134 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
57742080 AAGCTCACAA
*
57742090 AGAGCCATATCGGGAAGCTTATAT
1 AGAGCCATATCGAGAAGCTTATAT
57742114 AGAGCC-TATCGAGAAGCTTAT
1 AGAGCCATATCGAGAAGCTTAT
57742135 CTGGGCTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (24 bp):
AGAGCCATATCGAGAAGCTTATAT
Found at i:57742435 original size:52 final size:52
Alignment explanation
Indices: 57742373--57742478 Score: 194
Period size: 52 Copynumber: 2.0 Consensus size: 52
57742363 ACTGTTTGCT
*
57742373 TTAGAGAAAACTAAATTTTAGTCGTGCTTATCAGTAATAAAATCATCAACAG
1 TTAGAGAAAACCAAATTTTAGTCGTGCTTATCAGTAATAAAATCATCAACAG
*
57742425 TTAGAGAAAACCAAATTTTAGTCGTGCTTATCAGTGATAAAATCATCAACAG
1 TTAGAGAAAACCAAATTTTAGTCGTGCTTATCAGTAATAAAATCATCAACAG
57742477 TT
1 TT
57742479 CAACAGTCGA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (52 bp):
TTAGAGAAAACCAAATTTTAGTCGTGCTTATCAGTAATAAAATCATCAACAG
Found at i:57755445 original size:18 final size:19
Alignment explanation
Indices: 57755404--57755445 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
57755394 AATTTAAAAC
57755404 TTATAAAAAAATATAAATA
1 TTATAAAAAAATATAAATA
*
57755423 -AATAAAAAAATA-AAATA
1 TTATAAAAAAATATAAATA
57755440 TTATAA
1 TTATAA
57755446 GTTTATAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
TTATAAAAAAATATAAATA
Found at i:57755568 original size:9 final size:9
Alignment explanation
Indices: 57755554--57755593 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
57755544 ATAATAATAT
57755554 TATTTTATA
1 TATTTTATA
57755563 TATTTTA-A
1 TATTTTATA
57755571 -ATTTTATA
1 TATTTTATA
*
57755579 TATTTTTTA
1 TATTTTATA
57755588 -ATTTTA
1 TATTTTA
57755594 CAATAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
7 6 0.22
8 7 0.26
9 14 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TATTTTATA
Found at i:57755588 original size:18 final size:15
Alignment explanation
Indices: 57755555--57755584 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57755545 TAATAATATT
57755555 ATTTTATATATTTTAA
1 ATTTTATATATTTT-A
57755571 ATTTTATATATTTT
1 ATTTTATATATTTT
57755585 TTAATTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTTTATATATTTTA
Found at i:57755605 original size:24 final size:24
Alignment explanation
Indices: 57755546--57755605 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
57755536 ATTTTTTAAT
*
57755546 AATAATATTATTTTATATATTTTA
1 AATAATAATATTTTATATATTTTA
** *
57755570 AATTTTATATATTTTTTA-ATTTTA
1 AATAATA-ATATTTTATATATTTTA
57755594 CAATAATAATAT
1 -AATAATAATAT
57755606 AAATAACATG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
AATAATAATATTTTATATATTTTA
Found at i:57755750 original size:8 final size:8
Alignment explanation
Indices: 57755719--57755764 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
57755709 AAAAGATTAT
57755719 ATTTTTTA
1 ATTTTTTA
*
57755727 ATTAATTTA
1 ATT-TTTTA
57755736 TATTTTTTA
1 -ATTTTTTA
57755745 ATTTTTTA
1 ATTTTTTA
57755753 ATTTTTTA
1 ATTTTTTA
57755761 ATTT
1 ATTT
57755765 AGATCCATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 23 0.68
9 8 0.24
10 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
ATTTTTTA
Found at i:57755756 original size:16 final size:17
Alignment explanation
Indices: 57755715--57755764 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
57755705 GTGAAAAAGA
*
57755715 TTATATTTTTTAATTAAT
1 TTATATTTTTTAATT-TT
57755733 TTATATTTTTTAATTTT
1 TTATATTTTTTAATTTT
57755750 TTA-ATTTTTTAATTT
1 TTATATTTTTTAATTT
57755765 AGATCCATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 12 0.39
17 4 0.13
18 15 0.48
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATATTTTTTAATTTT
Found at i:57757043 original size:17 final size:18
Alignment explanation
Indices: 57757017--57757055 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
57757007 TGAATTGTGG
57757017 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
57757033 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
57757051 AAAAT
1 AAAAT
57757056 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:57757232 original size:15 final size:15
Alignment explanation
Indices: 57757212--57757242 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57757202 AAAACAATAT
*
57757212 AACTCTTGACCTTTC
1 AACTCTTGACATTTC
57757227 AACTCTTGACATTTC
1 AACTCTTGACATTTC
57757242 A
1 A
57757243 CTTACATGAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACATTTC
Found at i:57760614 original size:15 final size:15
Alignment explanation
Indices: 57760604--57760633 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57760594 TCCCTTCTTG
57760604 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
57760619 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
57760634 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:57761401 original size:17 final size:18
Alignment explanation
Indices: 57761375--57761413 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
57761365 CAAATTGTGG
57761375 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
57761391 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
57761409 AAAAT
1 AAAAT
57761414 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:57761590 original size:15 final size:15
Alignment explanation
Indices: 57761570--57761600 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57761560 AAAACAATAT
57761570 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
57761585 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
57761600 A
1 A
57761601 CTTACATGAC
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:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:57763633 original size:21 final size:21
Alignment explanation
Indices: 57763588--57763655 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
57763578 TTTCCCTTTA
* **
57763588 AGCCAGCGCTGCTCTTCTCTT
1 AGCCAGCGCTGCTCTTCACGG
*
57763609 AGCCAGCGTTGCTCTTCACGG
1 AGCCAGCGCTGCTCTTCACGG
* * * *
57763630 AGCCATCGCTGTTCCTCACGA
1 AGCCAGCGCTGCTCTTCACGG
57763651 AGCCA
1 AGCCA
57763656 CCTGGTTTCT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.16, C:0.37, G:0.22, T:0.25
Consensus pattern (21 bp):
AGCCAGCGCTGCTCTTCACGG
Found at i:57766947 original size:15 final size:13
Alignment explanation
Indices: 57766909--57766938 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
57766899 GGGGACACAC
57766909 GGCCGTGTCACCT
1 GGCCGTGTCACCT
*
57766922 GGCCGTGTCACTT
1 GGCCGTGTCACCT
57766935 GGCC
1 GGCC
57766939 ATGTGTCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.37, G:0.33, T:0.23
Consensus pattern (13 bp):
GGCCGTGTCACCT
Found at i:57772722 original size:42 final size:42
Alignment explanation
Indices: 57772616--57772771 Score: 199
Period size: 42 Copynumber: 3.7 Consensus size: 42
57772606 TACCGTACCA
*
57772616 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCGTATCG
* * ***
57772658 AAT-CCAATAGCCCAGCTATGGTCTTACACGAAGTCTCACCTCG
1 -ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCGTATCG
*
57772701 ATGCCATATCCCAGATATGGTCTTATACGAAGTCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCGTATCG
*
57772743 ATGCCACATCCCAGATATGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
57772772 TAATCTTAGT
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 64 0.67
43 32 0.33
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCGTATCG
Found at i:57776375 original size:40 final size:40
Alignment explanation
Indices: 57776292--57776477 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
57776282 TTGAATGATG
* * * *
57776292 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
57776332 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
57776372 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57776412 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
57776453 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57776478 AACGAGGAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57776495 original size:80 final size:79
Alignment explanation
Indices: 57776292--57776510 Score: 212
Period size: 80 Copynumber: 2.7 Consensus size: 79
57776282 TTGAATGATG
** * * * *
57776292 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTGACTAAATCCGG-TTAA-ATCCCGAAGGCAT
57776355 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* ** * *
57776372 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
*
57776437 GTGTGAGTTACTATAA
65 GTGCGAGTTACTA-AA
* * * *
57776453 -CTGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
57776511 TACGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
79 16 0.14
80 90 0.77
81 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:57780009 original size:40 final size:40
Alignment explanation
Indices: 57779912--57780095 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
57779902 TTGAATGCTG
* * * *
57779912 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
57779951 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * * *
57779992 TCCGAGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
57780032 TCCGGGTTAAGTCCTGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
57780072 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57780096 GTATGAGTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 2 0.02
40 109 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:57780052 original size:80 final size:81
Alignment explanation
Indices: 57779919--57780092 Score: 216
Period size: 80 Copynumber: 2.2 Consensus size: 81
57779909 CTGTCCGGGC
* *
57779919 TAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGA
*
57779983 GTTATT-AATTCCGAGT
66 GTT-TTAAAATCCGAGT
**
57779999 TAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCTGAAGGCATTCGTG
1 TAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGATCC-GAAGGCATTCGTG
*
57780060 CGAGTTTTAAAATCCGGGT
63 CGAGTTTTAAAATCCGAGT
57780079 TAAGTCCCGAAGGC
1 TAAGTCCCGAAGGC
57780093 ATTGTATGAG
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
79 6 0.07
80 68 0.82
81 9 0.11
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (81 bp):
TAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGA
GTTTTAAAATCCGAGT
Found at i:57787748 original size:40 final size:40
Alignment explanation
Indices: 57787664--57787847 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
57787654 TTGAATGCTG
* * * *
57787664 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
57787703 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
57787744 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
57787784 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
57787824 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57787848 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:57787801 original size:80 final size:81
Alignment explanation
Indices: 57787664--57787844 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
57787654 TTGAATGCTG
* *
57787664 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
57787728 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
57787744 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
57787805 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
57787824 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
57787845 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:57794770 original size:26 final size:27
Alignment explanation
Indices: 57794730--57794787 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
57794720 TTACCTGGCC
*
57794730 AACCCAGGTCACCAC-ACAGACTAGCG
1 AACCCAGCTCACCACAACAGACTAGCG
* * *
57794756 AACCCAGCTCGCCACAATAGACTAGTG
1 AACCCAGCTCACCACAACAGACTAGCG
57794783 AACCC
1 AACCC
57794788 TTAGCTCGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.34, C:0.38, G:0.17, T:0.10
Consensus pattern (27 bp):
AACCCAGCTCACCACAACAGACTAGCG
Found at i:57807505 original size:79 final size:81
Alignment explanation
Indices: 57807369--57807553 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
57807359 TTGAATGATG
*
57807369 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
57807433 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
57807448 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
57807510 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
57807528 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57807554 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:57807567 original size:40 final size:40
Alignment explanation
Indices: 57807370--57807553 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
57807360 TGAATGATGT
* * * *
57807370 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
57807410 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
57807450 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
57807488 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
57807529 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57807554 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:57807575 original size:79 final size:79
Alignment explanation
Indices: 57807422--57807576 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
57807412 GGACTAAGAT
* **
57807422 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
57807487 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
57807501 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
57807564 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
57807577 ATTCTGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.60
80 25 0.37
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:57815640 original size:10 final size:10
Alignment explanation
Indices: 57815590--57815649 Score: 63
Period size: 11 Copynumber: 6.0 Consensus size: 10
57815580 TTATAATTCG
57815590 TAATAATTTT
1 TAATAATTTT
57815600 TAAATAATTTAT
1 T-AATAATTT-T
*
57815612 TAAT--TTAT
1 TAATAATTTT
57815620 TAATAAATTTT
1 TAAT-AATTTT
57815631 T-ATAATTTT
1 TAATAATTTT
57815640 TAATAATTTT
1 TAATAATTTT
57815650 AAATGTCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
8 5 0.12
9 9 0.21
10 11 0.26
11 15 0.36
12 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TAATAATTTT
Found at i:57815647 original size:31 final size:30
Alignment explanation
Indices: 57815590--57815648 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
57815580 TTATAATTCG
*
57815590 TAATAATTTTTAAATAATTTATTAATTTAT
1 TAATAATTTTTAAATAATTTAATAATTTAT
*
57815620 TAATAAATTTTTATAAT-TTTTAATAATTT
1 TAAT-AATTTTTA-AATAATTTAATAATTT
57815649 TAAATGTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.16
31 18 0.72
32 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
TAATAATTTTTAAATAATTTAATAATTTAT
Found at i:57815649 original size:19 final size:19
Alignment explanation
Indices: 57815592--57815649 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 19
57815582 ATAATTCGTA
*
57815592 ATAATTTTTAAATAATTTAT
1 ATAATTTTT-AATAATTTTT
57815612 -TAATTTATTAATAAATTTTT
1 ATAATTT-TTAAT-AATTTTT
57815632 ATAATTTTTAATAATTTT
1 ATAATTTTTAATAATTTT
57815650 AAATGTCTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 15 0.44
20 13 0.38
21 6 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATAATTTTTAATAATTTTT
Found at i:57825680 original size:40 final size:40
Alignment explanation
Indices: 57825610--57825747 Score: 183
Period size: 40 Copynumber: 3.5 Consensus size: 40
57825600 AAGCCAAGTA
* * * * *
57825610 CCTTCGGGATTTA-ACCGGATATAG-ATACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAGTA-ACTCGCACAAATG
*
57825649 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57825689 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
57825729 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
57825748 TTATCATCCA
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 12 0.13
40 76 0.85
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:57833903 original size:40 final size:41
Alignment explanation
Indices: 57833833--57834010 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 41
57833823 AAGCCAAGTA
* * * * *
57833833 CCTTCGGGATTTA-ACCGGATA-TAG-ATACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATACTAGTA-ACTCGCACAAATG
*
57833872 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
* *
57833912 CATTCGGGACTTAGCCCGGA-ACTAGTAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
*
57833952 CCTTCGGGACTTAGCCC-GAAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
*
57833992 CCTTCGAGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
57834011 TTGTCATCCA
Statistics
Matches: 122, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
39 14 0.11
40 106 0.87
41 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATACTAGTAACTCGCACAAATG
Found at i:57836149 original size:40 final size:40
Alignment explanation
Indices: 57836105--57836270 Score: 289
Period size: 40 Copynumber: 4.2 Consensus size: 40
57836095 CCCGGATGTC
57836105 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
* *
57836145 ATTCCAGCACGAAGCCTACGGGTCTTTAAGCCCGGATACC
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
57836185 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATA-A
1 ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
*
57836224 GATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACC
1 -ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
57836265 ATTCCA
1 ATTCCA
57836271 CATCAAATAA
Statistics
Matches: 119, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
40 119 1.00
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (40 bp):
ATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACA
Found at i:57839640 original size:40 final size:40
Alignment explanation
Indices: 57839583--57839767 Score: 266
Period size: 40 Copynumber: 4.6 Consensus size: 40
57839573 CAGATGATAA
* *
57839583 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
57839623 CTGGGCTAAG-CTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTTACTATAT
57839663 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
57839703 CCAGGCTAAGTTCCGAAGGCATTTGTACGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57839743 CCGGGCTAAGTCCCGAAGGAATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57839768 AGCAAGTAGT
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.01
40 128 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57839782 original size:80 final size:78
Alignment explanation
Indices: 57839579--57839799 Score: 264
Period size: 80 Copynumber: 2.8 Consensus size: 78
57839569 TATTCAGATG
* * * *
57839579 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCTGGGCTAAGCTCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTATA-TC-CGGCTAAGTTCCGAAGGC
*
57839643 ATTTGTGCGAGTTACT
63 ATTTGTACGAGTTACT
* * *
57839659 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTTCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATTATATCC-GGCTAAGTTCCGAAGGCA
57839724 TTTGTACGAGTTACT
64 TTTGTACGAGTTACT
* * * * *
57839739 ATAACCGGGCTAAGTCCCGAAGGAATTTGAGCAAGTAGTTATATTCGGCTAAATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-TTATATCCGGCTAAGTTCCGAAG
57839800 ATGCTTGGGT
Statistics
Matches: 124, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 15 0.12
80 107 0.86
81 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.27
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTATATCCGGCTAAGTTCCGAAGGCATT
TGTACGAGTTACT
Found at i:57840066 original size:22 final size:21
Alignment explanation
Indices: 57840025--57840068 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
57840015 GAATGTGCAT
57840025 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
57840047 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
57840069 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:57842089 original size:22 final size:23
Alignment explanation
Indices: 57842064--57842106 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
57842054 AAAGCCGAGG
57842064 AGCTCAGTAT-GGAG-AAAAGAAA
1 AGCTCA-TATGGGAGCAAAAGAAA
*
57842086 AGCTGATATGGGAGCAAAAGA
1 AGCTCATATGGGAGCAAAAGA
57842107 GTTTCGTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 3 0.17
22 9 0.50
23 6 0.33
ACGTcount: A:0.47, C:0.09, G:0.30, T:0.14
Consensus pattern (23 bp):
AGCTCATATGGGAGCAAAAGAAA
Found at i:57845530 original size:37 final size:37
Alignment explanation
Indices: 57845487--57845565 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
57845477 TTATTACGAA
* * * *
57845487 GTCTTACCCGGACATAATCTCCACACGAAGTTATTGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
57845524 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
57845561 GTCTT
1 GTCTT
57845566 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:57845771 original size:47 final size:47
Alignment explanation
Indices: 57845684--57846205 Score: 765
Period size: 47 Copynumber: 11.1 Consensus size: 47
57845674 CCTTTCGGGA
* * * * * * * * *
57845684 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57845731 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57845778 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
57845825 CTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
57845872 CTTATCACACATATGCACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
57845919 CCTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57845966 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57846013 CTTGTCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57846060 CTTGTCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57846107 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTACGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57846154 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57846203 CTT
1 CTT
57846206 TCTATCATTT
Statistics
Matches: 442, Mismatches: 31, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
47 402 0.91
49 40 0.09
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Done.