Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 139 of 345
Found at i:46963011 original size:28 final size:29
Alignment explanation
Indices: 46962947--46963015 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
46962937 TTCGGGCCAG
* **
46962947 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTAAGCCTA
*
46962976 ATCGGCCATATGAATGAGA-TTAAGCCTA
1 ATGGGCCATATGAATGAGATTTAAGCCTA
*
46963004 GTGGGCCATATG
1 ATGGGCCATATG
46963016 CATGTATGTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 17 0.50
29 17 0.50
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTAAGCCTA
Found at i:46963338 original size:33 final size:33
Alignment explanation
Indices: 46963292--46963357 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
46963282 GCCAAGGTAC
46963292 GTAAAAACCCGTAATAAAGGAAAATTACAGAAA
1 GTAAAAACCCGTAATAAAGGAAAATTACAGAAA
*
46963325 GTAAAAACTCGTAATAAAGGAAAATTACAGAAA
1 GTAAAAACCCGTAATAAAGGAAAATTACAGAAA
46963358 TACCCTTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.58, C:0.11, G:0.15, T:0.17
Consensus pattern (33 bp):
GTAAAAACCCGTAATAAAGGAAAATTACAGAAA
Found at i:46963490 original size:27 final size:27
Alignment explanation
Indices: 46963345--46963492 Score: 122
Period size: 27 Copynumber: 5.5 Consensus size: 27
46963335 GTAATAAAGG
* ** **
46963345 AAAATTACAGAAATACCCTTGGTTTAC
1 AAAATTACCGAAATACCCTTGACTTGT
* *
46963372 AAAATTACTG-AATACCC-TAACTTGT
1 AAAATTACCGAAATACCCTTGACTTGT
* * *
46963397 AAAATTACCAAAATACCC-CGAATTTGT
1 AAAATTACCGAAATACCCTTG-ACTTGT
* * * * *
46963424 GAAATTATCAAAATACCCTCGACCTGT
1 AAAATTACCGAAATACCCTTGACTTGT
46963451 AAAAATTACCGAAATACCCTTGACTTGT
1 -AAAATTACCGAAATACCCTTGACTTGT
46963479 AAAATTACCGAAAT
1 AAAATTACCGAAAT
46963493 GCCCCTAAGG
Statistics
Matches: 97, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
25 11 0.11
26 14 0.14
27 48 0.49
28 24 0.25
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTTGACTTGT
Found at i:46969537 original size:26 final size:26
Alignment explanation
Indices: 46969507--46969557 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
46969497 CACCAATGAA
*
46969507 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
46969533 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
46969558 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:46969608 original size:102 final size:104
Alignment explanation
Indices: 46969271--46969635 Score: 618
Period size: 103 Copynumber: 3.6 Consensus size: 104
46969261 TAACCGTTAT
* **
46969271 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCA-CACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46969335 AATCAGCACATAGCAACCCCCTTT--CATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
46969372 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46969436 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
46969475 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
46969538 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
46969577 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
46969636 TTATATACAA
Statistics
Matches: 253, Mismatches: 6, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
100 10 0.04
101 74 0.29
102 72 0.28
103 97 0.38
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:46969991 original size:29 final size:29
Alignment explanation
Indices: 46969958--46970021 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46969948 TAATCCACCA
46969958 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
46969987 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
46970017 CCCAA
1 CCCAA
46970022 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:46969995 original size:30 final size:30
Alignment explanation
Indices: 46969965--46970021 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46969955 CCACCCAACT
46969965 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
46969994 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
46970022 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:46976901 original size:27 final size:27
Alignment explanation
Indices: 46976869--46976920 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
46976859 CCACTGAATC
*
46976869 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
46976896 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
46976921 TTCATTTCAT
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:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:46977086 original size:26 final size:26
Alignment explanation
Indices: 46977056--46977106 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
46977046 ACCAATGAAC
*
46977056 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
46977082 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
46977107 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:46977140 original size:103 final size:103
Alignment explanation
Indices: 46976956--46977183 Score: 372
Period size: 103 Copynumber: 2.2 Consensus size: 103
46976946 GCACCACAAT
46976956 GGAATCAGCACTTAGCAA-CCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAG
1 GGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAG
* *
46977020 ATATGGTGGATATCGCACTTAGCACCACCAATGAACCGG
66 ATATGGTGGATATCGCACATAGCACCACC-ATAAACCGG
46977059 GGAATCAGCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAG
1 GGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAG
*
46977123 ATATGGTGGATCA-CGCACATAGCACCACCATAAATCGG
66 ATATGGTGGAT-ATCGCACATAGCACCACCATAAACCGG
**
46977161 GGAATCAGCACACAGCAACCCCT
1 GGAATCAGCACTTAGCAACCCCT
46977184 TTTATATACA
Statistics
Matches: 118, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
102 28 0.24
103 84 0.71
104 6 0.05
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (103 bp):
GGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAG
ATATGGTGGATATCGCACATAGCACCACCATAAACCGG
Found at i:46977542 original size:29 final size:29
Alignment explanation
Indices: 46977509--46977572 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46977499 TAATCCACCA
46977509 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
46977538 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
46977568 CCCAA
1 CCCAA
46977573 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:46977546 original size:30 final size:30
Alignment explanation
Indices: 46977516--46977572 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46977506 CCACCCAACT
46977516 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
46977545 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
46977573 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:46986798 original size:93 final size:93
Alignment explanation
Indices: 46986686--46986857 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
46986676 CGCCCATAAG
* *
46986686 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46986751 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
46986779 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46986844 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
46986858 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:46986854 original size:46 final size:46
Alignment explanation
Indices: 46986679--46986854 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
46986669 TGTAACCCGC
* * *
46986679 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
46986725 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
46986775 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
46986818 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
46986855 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:46994170 original size:46 final size:46
Alignment explanation
Indices: 46994103--46994276 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
46994093 TGTAACCCGC
* *
46994103 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
*
46994149 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCACAT
* * * * *
46994199 -C-TCA-CGAACTCAGACTCAACTCAACGAG-TCGGACATTCCCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
*
46994241 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
46994277 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 2 0.02
44 2 0.02
45 22 0.21
46 42 0.40
47 22 0.21
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCACAT
Found at i:46994268 original size:92 final size:93
Alignment explanation
Indices: 46994110--46994280 Score: 299
Period size: 92 Copynumber: 1.8 Consensus size: 93
46994100 CGCCCATAAG
* * * *
46994110 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCA
46994175 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
46994203 CGAACTCAGACTCAACTCAACGAG-TCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCA
46994267 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
46994281 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 51 0.69
93 23 0.31
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCCCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:47001777 original size:40 final size:40
Alignment explanation
Indices: 47001703--47001884 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
47001693 AGCCCAAGTA
* * *
47001703 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
47001742 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
47001782 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
47001822 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
47001862 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
47001885 CATTCGAATA
Statistics
Matches: 134, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 12 0.09
40 121 0.90
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:47006612 original size:110 final size:110
Alignment explanation
Indices: 47006475--47006692 Score: 373
Period size: 110 Copynumber: 2.0 Consensus size: 110
47006465 GCCATTGTAG
*
47006475 TTTCTCTAAACTAGCTTGGGTAAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTTAATTA
1 TTTCTCTAAACTAGCTTGGGTAAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTCAATTA
* * *
47006540 AAAACCAAAATTTCCAAATCTATAGTCTTGTGGATTTTAAATGGT
66 AAAACCAAAATGTCCAAATCTAGAATCTTGTGGATTTTAAATGGT
* *
47006585 TTTCTCTGAACTAGCTTGGGTGAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTCAATTA
1 TTTCTCTAAACTAGCTTGGGTAAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTCAATTA
*
47006650 AAAACCAAAATGTCCAGATCTAGAATCTTGTGGATTTTAAATG
66 AAAACCAAAATGTCCAAATCTAGAATCTTGTGGATTTTAAATG
47006693 ATTTCAAATG
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 101 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (110 bp):
TTTCTCTAAACTAGCTTGGGTAAGATCTCTTTTCTCTTAAATTTCTTGATTAATCTTGTCAATTA
AAAACCAAAATGTCCAAATCTAGAATCTTGTGGATTTTAAATGGT
Found at i:47012411 original size:39 final size:34
Alignment explanation
Indices: 47012339--47012402 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
47012329 GATGAAAGAG
47012339 GAAAAAAATTGATTTTGTTTTACTTAGATTTTAT
1 GAAAAAAATTGATTTTGTTTTACTTAGATTTTAT
47012373 GAAAAAAATTGATTTTGTTTTACTTA-ATTT
1 GAAAAAAATTGATTTTGTTTTACTTAGATTT
47012403 AGATTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 4 0.13
34 26 0.87
ACGTcount: A:0.36, C:0.03, G:0.11, T:0.50
Consensus pattern (34 bp):
GAAAAAAATTGATTTTGTTTTACTTAGATTTTAT
Found at i:47014115 original size:33 final size:33
Alignment explanation
Indices: 47014050--47014124 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
47014040 CAAGTTGCCA
47014050 AATAAGACCATAACCGGGCTATGGCAATTGAAT
1 AATAAGACCATAACCGGGCTATGGCAATTGAAT
* * *
47014083 AATAGGACCATAACTGGGTTATGGC-ATGTGAAT
1 AATAAGACCATAACCGGGCTATGGCAAT-TGAAT
*
47014116 GA-AAGACCA
1 AATAAGACCA
47014125 CAGCAGGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (33 bp):
AATAAGACCATAACCGGGCTATGGCAATTGAAT
Found at i:47015946 original size:39 final size:39
Alignment explanation
Indices: 47015889--47015968 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
47015879 CGGTGGCCTT
* *
47015889 CACATAGTACCTCCCTTGTAG-CCAAAGCTATTTTATTCA
1 CACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCA
47015928 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCA
1 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCA
47015967 CA
1 CA
47015969 AAAATGGCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.03
39 37 0.97
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.33
Consensus pattern (39 bp):
CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCA
Found at i:47016049 original size:51 final size:52
Alignment explanation
Indices: 47015928--47016068 Score: 239
Period size: 51 Copynumber: 2.7 Consensus size: 52
47015918 ATTTTATTCA
47015928 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAAATGGCCTT
1 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAAATGGCCTT
* * * *
47015980 CACATAGTACCACACTTGTTTCCAAAGGTATTATATTCAC-AAAGTGGCCTT
1 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAAATGGCCTT
47016031 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
47016069 CTAAGGTTCA
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
51 45 0.55
52 37 0.45
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (52 bp):
CACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAAATGGCCTT
Found at i:47016125 original size:28 final size:27
Alignment explanation
Indices: 47016092--47016190 Score: 125
Period size: 28 Copynumber: 3.7 Consensus size: 27
47016082 GGGAAATTTC
47016092 TCACTTAGCACCATGCCATGGATTTATT
1 TCACTTAGCA-CATGCCATGGATTTATT
*
47016120 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGATTTATT
47016148 TCACTTAG---ATGCCATGG-TCTTATT
1 TCACTTAGCACATGCCATGGAT-TTATT
47016172 TCACTTAGCACAATGCCAT
1 TCACTTAGCAC-ATGCCAT
47016191 ATCCTAGATA
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
24 21 0.33
25 1 0.02
27 2 0.03
28 39 0.62
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGATTTATT
Found at i:47016169 original size:24 final size:25
Alignment explanation
Indices: 47016103--47016181 Score: 99
Period size: 24 Copynumber: 3.1 Consensus size: 25
47016093 CACTTAGCAC
47016103 CATGCCATGGAT-TTATTTCACTTAG
1 CATGCCATGG-TCTTATTTCACTTAG
*
47016128 CACATTGCCATGGACTTATTTCACTTAG
1 --CA-TGCCATGGTCTTATTTCACTTAG
47016156 -ATGCCATGGTCTTATTTCACTTAG
1 CATGCCATGGTCTTATTTCACTTAG
47016180 CA
1 CA
47016182 CAATGCCATA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
24 22 0.47
25 2 0.04
27 2 0.04
28 21 0.45
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (25 bp):
CATGCCATGGTCTTATTTCACTTAG
Found at i:47022293 original size:3 final size:3
Alignment explanation
Indices: 47022285--47022313 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
47022275 AGTTCGTGTG
47022285 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
47022314 GCAATGTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:47022812 original size:48 final size:48
Alignment explanation
Indices: 47022741--47023008 Score: 351
Period size: 48 Copynumber: 5.6 Consensus size: 48
47022731 ATGAGATCTC
* * **
47022741 GTGTAAGACCATGTCTAGGACATGGCATC-AGGATTGATATGCATGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGA-CATTGATATGTGTGCCA
47022789 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCA
*
47022837 GTGTAAGACCATGTTTGGGACATGGCATCGACATTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCA
* * *
47022885 GTGTAAGACCATATTTGGGACATGGCATTGACATTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCA
* * * * * * * *
47022933 GTGTAAGATCATGTCTAGGATATGGCATTGGCAATGGTATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCA
*
47022981 GTGTAAGCCCATGT-TCGGGACATGGCAT
1 GTGTAAGACCATGTCT-GGGACATGGCAT
47023009 TGGCACCGAT
Statistics
Matches: 198, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 1 0.01
48 196 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCA
Found at i:47023040 original size:144 final size:145
Alignment explanation
Indices: 47022773--47023047 Score: 322
Period size: 144 Copynumber: 1.9 Consensus size: 145
47022763 TGGCATCAGG
* *
47022773 ATTGATATGCATGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGTGCCAG
1 ATTGATATGCATGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACAATGATATGTGTGCCAG
* ** ** * *
47022838 TGTAAGACCATGTTTGGGACATGGCATCGACATTGATATGTGTGCCAGTGTAAGACCATAT-TTG
66 TGTAAGACCATGTTCGGGACATGGCATCGACACCGATATGACTGCCAGTATAAAACCATATCTTG
47022902 GGACATGGCATTGAC
131 GGACATGGCATTGAC
** * * * * * *
47022917 ATTGATATGTGTGCCAGTGTAAGATCATGTCTAGGATATGGCATTGGCAATGGTATGTGTGCTAG
1 ATTGATATGCATGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACAATGATATGTGTGCCAG
* * * *
47022982 TGTAAGCCCATGTTCGGGACATGGCATTGGCACCGATATAAGACT-TC-GTATAAAACCATATCT
66 TGTAAGACCATGTTCGGGACATGGCATCGACACCGATAT--GACTGCCAGTATAAAACCATATCT
47023045 TGG
129 TGG
47023048 ATATGGCGTC
Statistics
Matches: 107, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
144 100 0.93
145 5 0.05
146 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (145 bp):
ATTGATATGCATGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACAATGATATGTGTGCCAG
TGTAAGACCATGTTCGGGACATGGCATCGACACCGATATGACTGCCAGTATAAAACCATATCTTG
GGACATGGCATTGAC
Found at i:47025074 original size:20 final size:20
Alignment explanation
Indices: 47025049--47025100 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
47025039 CTTGCTAAGG
*
47025049 ACACGGGTGTGTCCCAAGCC
1 ACACGGGTATGTCCCAAGCC
*
47025069 ACACGGGTATGTCCCAAGCT
1 ACACGGGTATGTCCCAAGCC
*
47025089 ACACGGGCATGT
1 ACACGGGTATGT
47025101 GACTCTCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (20 bp):
ACACGGGTATGTCCCAAGCC
Found at i:47028583 original size:47 final size:47
Alignment explanation
Indices: 47028473--47028606 Score: 166
Period size: 47 Copynumber: 2.9 Consensus size: 47
47028463 TTATTTATGT
* *
47028473 GCCAGTGTAAGACATGTCTAGGACAT-GCATCAGCCA-TATTATGAGA
1 GCCAGTGTAAGACATGTCTAGGACATGGCATCAG-CATTATGACGAGA
*
47028519 GCCAGTGTAAGACCATGTCTAGGACGTGGCATCAGCATTGA-GACGAGA
1 GCCAGTGTAAGA-CATGTCTAGGACATGGCATCAGCATT-ATGACGAGA
* * *
47028567 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCATTAT
1 GCCAGTGTAAGACATGTCTAGGACATGGCATCAGCATTAT
47028607 ACCCTATGTT
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
46 13 0.17
47 38 0.50
48 24 0.32
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTAGGACATGGCATCAGCATTATGACGAGA
Found at i:47032649 original size:21 final size:22
Alignment explanation
Indices: 47032623--47032663 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
47032613 TACTAGCCAT
47032623 AGGGGC-ACATGCCCATGTGGG
1 AGGGGCAACATGCCCATGTGGG
*
47032644 AGGGGCAACATGCCCGTGTG
1 AGGGGCAACATGCCCATGTG
47032664 ACAAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.24, G:0.41, T:0.15
Consensus pattern (22 bp):
AGGGGCAACATGCCCATGTGGG
Found at i:47032911 original size:116 final size:116
Alignment explanation
Indices: 47032702--47032919 Score: 400
Period size: 116 Copynumber: 1.9 Consensus size: 116
47032692 CCGTGTGACG
* *
47032702 CACAGGGCCTAAGCAATACAGGGACATGCCCGTGTCCCTCACACGTGTGGAATTAATTCTAAATT
1 CACACGGCCTAAGCAATACAGGGACATGCCCGTGTCCCTCACACATGTGGAATTAATTCTAAATT
47032767 AACACCTACAGGAGTTTTCACACGGCCTAGCACACGCTTGTGTCCTGGACT
66 AACACCTACAGGAGTTTTCACACGGCCTAGCACACGCTTGTGTCCTGGACT
47032818 CACACGGCCTAAGCAATACAGGGACATGCCCGTGTCCCTCACACATGTGGAATTAATTCTAAATT
1 CACACGGCCTAAGCAATACAGGGACATGCCCGTGTCCCTCACACATGTGGAATTAATTCTAAATT
* *
47032883 AACACCTATAGGGGTTTTCACACGGCCTAGCACACGC
66 AACACCTACAGGAGTTTTCACACGGCCTAGCACACGC
47032920 CCGTGTCTTG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 98 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (116 bp):
CACACGGCCTAAGCAATACAGGGACATGCCCGTGTCCCTCACACATGTGGAATTAATTCTAAATT
AACACCTACAGGAGTTTTCACACGGCCTAGCACACGCTTGTGTCCTGGACT
Found at i:47032972 original size:40 final size:40
Alignment explanation
Indices: 47032899--47033015 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 40
47032889 TATAGGGGTT
*
47032899 TTCACACGGCC-TAGCACACGCCCGTGTCTTGGCTCGTATCC
1 TTCACACGGCCAT-G-ACACGCCCGTGTCCTGGCTCGTATCC
* * * *
47032940 TTCACACGGCCATGACACGACTGTGTCCTGGCTAGTGTCC
1 TTCACACGGCCATGACACGCCCGTGTCCTGGCTCGTATCC
*
47032980 TTCACACGGCCATGACACGCCCGTGTCCTAGCTCGT
1 TTCACACGGCCATGACACGCCCGTGTCCTGGCTCGT
47033016 GTGCAAAAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
40 53 0.80
41 12 0.18
42 1 0.02
ACGTcount: A:0.16, C:0.37, G:0.23, T:0.24
Consensus pattern (40 bp):
TTCACACGGCCATGACACGCCCGTGTCCTGGCTCGTATCC
Found at i:47034927 original size:28 final size:28
Alignment explanation
Indices: 47034864--47034961 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
47034854 ATATTAAGTC
*
47034864 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
47034891 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
47034919 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
47034948 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47034962 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:47043160 original size:46 final size:45
Alignment explanation
Indices: 47043072--47043246 Score: 131
Period size: 46 Copynumber: 3.7 Consensus size: 45
47043062 GTAGGATGCC
* * * *
47043072 GATGCCATGTCTCGGACATGATCTTACACTGGCT-TACATCTCAAGGTT
1 GATG-CATGTCCCAGACATG-TCTTACACTAGCTCT-C-TCTCAATGTT
* *
47043120 GATGCGTGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTC-TCTCAATGTT
* ** * *
47043166 GATGCCATGTTCTGGACATGGTCTTACACTGGCTCT-TGT-AATGTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCTCTCAATGTT
*
47043211 GTCAATGCATGTCCCAGGCATGTCTTACACTAGCTC
1 G---ATGCATGTCCCAGACATGTCTTACACTAGCTC
47043247 ACAATAGCCC
Statistics
Matches: 102, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
45 6 0.06
46 41 0.40
47 33 0.32
48 22 0.22
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAATGTT
Found at i:47043201 original size:48 final size:49
Alignment explanation
Indices: 47043067--47043201 Score: 136
Period size: 46 Copynumber: 2.8 Consensus size: 49
47043057 ATGGGGTAGG
* *
47043067 ATGCCGATGCCATG-TCTCGGACATGATCTTACACTGGCT-TACATCTCA
1 ATGCTGATGCCATGTTCT-GGACATGGTCTTACACTGGCTCTACATCTCA
* * * * ** * *
47043115 AGGTTGATG-CGTGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCA
1 ATGCTGATGCCATGTTCTGGACATGGTCTTACACTGGCTCTACATCTCA
47043161 ATGCTGATGCCATGTTCTGGACATGGTCTTACACTGGCTCT
1 ATGCTGATGCCATGTTCTGGACATGGTCTTACACTGGCTCT
47043202 TGTAATGTTG
Statistics
Matches: 66, Mismatches: 17, Indels: 8
0.73 0.19 0.09
Matches are distributed among these distances:
46 25 0.38
47 19 0.29
48 22 0.33
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (49 bp):
ATGCTGATGCCATGTTCTGGACATGGTCTTACACTGGCTCTACATCTCA
Found at i:47044780 original size:93 final size:93
Alignment explanation
Indices: 47044621--47044791 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
47044611 CAGATATTTG
* * * *
47044621 GGCATCCGAACTCATTGAGTTGAGTCCGATTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
*
47044686 TTGAGTCCGAGTTTGTGAGATGTAACTA
66 TTGAGTCCAAGTTTGTGAGATGTAACTA
* * * * *
47044714 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATACGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
47044779 TTGAGTCCAAGTT
66 TTGAGTCCAAGTT
47044792 CACTTATGGG
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTTGTGAGATGTAACTA
Found at i:47053477 original size:48 final size:48
Alignment explanation
Indices: 47053406--47053577 Score: 240
Period size: 48 Copynumber: 3.6 Consensus size: 48
47053396 ATGAGATCCT
* *
47053406 GTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCCA
*
47053454 GTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATA--TGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCCA
* * * **
47053500 GTGTAGGACCATGTCTGGCACATGGCATCGGTGATGATATGTGTGATA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCCA
* *
47053548 GTGTAAGACCATGTATGGAACATGGCATCG
1 GTGTAAGACCATGTCTGGGACATGGCATCG
47053578 ACATCGATAT
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
46 42 0.38
48 68 0.62
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCCA
Found at i:47053571 original size:94 final size:94
Alignment explanation
Indices: 47053406--47053577 Score: 265
Period size: 94 Copynumber: 1.8 Consensus size: 94
47053396 ATGAGATCCT
* * *
47053406 GTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGCCAGTGTAAGACCATGTCTG
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGTGACAGTGTAAGACCATGTATG
*
47053471 GGACATGGCATCGGTATTGATATGTGCCA
66 GAACATGGCATCGGTATTGATATGTGCCA
* * *
47053500 GTGTAGGACCATGTCT-GGCACATGGCATCGGTGATGATATGTGTGATAGTGTAAGACCATGTAT
1 GTGTAAGACCATGTCTAGG-ACATGGCATCGGCGATGATATGTGTGACAGTGTAAGACCATGTAT
47053564 GGAACATGGCATCG
65 GGAACATGGCATCG
47053578 ACATCGATAT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 2 0.03
94 68 0.97
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.27
Consensus pattern (94 bp):
GTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGTGACAGTGTAAGACCATGTATG
GAACATGGCATCGGTATTGATATGTGCCA
Found at i:47059834 original size:28 final size:28
Alignment explanation
Indices: 47059803--47059952 Score: 164
Period size: 28 Copynumber: 5.3 Consensus size: 28
47059793 ACATACATGC
47059803 ATATGGCCCACTAGGCCCAATCTCATTT
1 ATATGGCCCACTAGGCCCAATCTCATTT
47059831 ATATGGCCCACTAGGCCCAATCTCATTT
1 ATATGGCCCACTAGGCCCAATCTCATTT
* *
47059859 ATATGGCCCATCCA-GCCCAAT-TCACGTTC
1 ATATGGCCCA-CTAGGCCCAATCTCA--TTT
* *
47059888 ATACGGCCCA-TCAGGCCCAAT-TCAAATTC
1 ATATGGCCCACT-AGGCCCAATCTC--ATTT
**
47059917 ATATGGCCCGTTAGGCCCAATCTCATTT
1 ATATGGCCCACTAGGCCCAATCTCATTT
47059945 ATATGGCC
1 ATATGGCC
47059953 TATTCGGCCC
Statistics
Matches: 106, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
27 3 0.03
28 57 0.54
29 42 0.40
30 3 0.03
31 1 0.01
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCTCATTT
Found at i:47059898 original size:29 final size:29
Alignment explanation
Indices: 47059863--47059937 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
47059853 TCATTTATAT
**
47059863 GGCCCATCCA-GCCCAATTCACGTTCATAC
1 GGCCCAT-CAGGCCCAATTCAAATTCATAC
*
47059892 GGCCCATCAGGCCCAATTCAAATTCATAT
1 GGCCCATCAGGCCCAATTCAAATTCATAC
* *
47059921 GGCCCGTTAGGCCCAAT
1 GGCCCATCAGGCCCAAT
47059938 CTCATTTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 2 0.05
29 38 0.95
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.21
Consensus pattern (29 bp):
GGCCCATCAGGCCCAATTCAAATTCATAC
Found at i:47067298 original size:24 final size:24
Alignment explanation
Indices: 47067270--47067318 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
47067260 TAAAAATGCC
47067270 TAAGTGTGTATTTTTGGACAAAAT
1 TAAGTGTGTATTTTTGGACAAAAT
47067294 TAAGTGTGTATTTTTGGACAAAAT
1 TAAGTGTGTATTTTTGGACAAAAT
47067318 T
1 T
47067319 GAAAGAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (24 bp):
TAAGTGTGTATTTTTGGACAAAAT
Found at i:47078536 original size:42 final size:45
Alignment explanation
Indices: 47078432--47078558 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 45
47078422 CATTAAGTTG
* * *
47078432 ATGAGATCTCGTATAAGACCATATCTGGGATATGACATCAGTATCGAT
1 ATGAGATCTCATGTAAGACCATATCTGGGATATG---GCAGTATCGAT
* * *
47078480 ATGTGTTATCATGTAAGACCATATCTGGGATATGGC-GT-T-GAT
1 ATGAGATCTCATGTAAGACCATATCTGGGATATGGCAGTATCGAT
* ** *
47078522 ATGAGATCTCATGTAAAACCATGCCTGGGACATGGCA
1 ATGAGATCTCATGTAAGACCATATCTGGGATATGGCA
47078559 TTGGCATCAA
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
42 32 0.49
43 1 0.02
44 2 0.03
45 1 0.02
48 29 0.45
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
ATGAGATCTCATGTAAGACCATATCTGGGATATGGCAGTATCGAT
Found at i:47079475 original size:27 final size:27
Alignment explanation
Indices: 47079444--47079721 Score: 201
Period size: 27 Copynumber: 10.3 Consensus size: 27
47079434 AGTATTATTG
* *
47079444 AAATACCCTCGATTAGAAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
* *
47079471 AAATACCC-CTGGTTTGTAAAATTACCG
1 AAATACCCTC-GATTTGTAAAATTACCA
**
47079498 AAATACCCTCGACCTGTAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
*
47079525 AAATACCCTAGATTTGTAAAATTA-CA
1 AAATACCCTCGATTTGTAAAATTACCA
* *
47079551 AAAAACCCTCGATTTGAAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
* *
47079578 AAATACCCTTGATTTGGAAAATTA-CA
1 AAATACCCTCGATTTGTAAAATTACCA
* **
47079604 GAAATACCC-CTAATTTACAAAATTA-CA
1 -AAATACCCTC-GATTTGTAAAATTACCA
* * *
47079631 GAAATACCCTTGACTTT-AAAAATT-GCA
1 -AAATACCCTCGA-TTTGTAAAATTACCA
* * * * * *
47079658 GAAATACCATTGGTTTGCAAAATTATCG
1 -AAATACCCTCGATTTGTAAAATTACCA
* * * *
47079686 AAATACCCTTGGTTTGTAGATTTACCA
1 AAATACCCTCGATTTGTAAAATTACCA
*
47079713 AAACACCCT
1 AAATACCCT
47079722 TGTAGGGTGA
Statistics
Matches: 205, Mismatches: 36, Indels: 20
0.79 0.14 0.08
Matches are distributed among these distances:
26 29 0.14
27 171 0.83
28 5 0.02
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTACCA
Found at i:47079582 original size:53 final size:52
Alignment explanation
Indices: 47079444--47079721 Score: 222
Period size: 54 Copynumber: 5.2 Consensus size: 52
47079434 AGTATTATTG
* * *
47079444 AAATACCCTCGATTAGAAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCG
1 AAATACCCTCGATTTGAAAAATTACCAAAATA-CCCTGATTTGTAAAATTA-CA
** *
47079498 AAATACCCTCGACCTGTAAAATTACCAAAATACCCTAGATTTGTAAAATTACA
1 AAATACCCTCGATTTGAAAAATTACCAAAATACCCT-GATTTGTAAAATTACA
* *
47079551 AAAAACCCTCGATTTGAAAAATTACCAAAATACCCTTGATTTGGAAAATTACA
1 AAATACCCTCGATTTGAAAAATTACCAAAATACCC-TGATTTGTAAAATTACA
* * *
47079604 GAAATACCC-CTAATTT-ACAAAATTA-CAGAAATACCCTTGACTTT-AAAAATTGCA
1 -AAATACCCTC-GATTTGA-AAAATTACCA-AAATACCC-TGA-TTTGTAAAATTACA
* * * * * * * * *
47079658 GAAATACCATTGGTTTGCAAAATTATCGAAATACCCTTGGTTTGTAGATTTACCA
1 -AAATACCCTCGATTTGAAAAATTACCAAAATACCC-TGATTTGTAAAATTA-CA
*
47079713 AAACACCCT
1 AAATACCCT
47079722 TGTAGGGTGA
Statistics
Matches: 184, Mismatches: 28, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
53 58 0.32
54 120 0.65
55 6 0.03
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (52 bp):
AAATACCCTCGATTTGAAAAATTACCAAAATACCCTGATTTGTAAAATTACA
Found at i:47079653 original size:107 final size:108
Alignment explanation
Indices: 47079443--47079701 Score: 276
Period size: 107 Copynumber: 2.4 Consensus size: 108
47079433 TAGTATTATT
* * * * *
47079443 GAAATACCCTCGATTAGAAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCGAAATACCCTC
1 GAAAAACCCTCGATTTGAAAAATTACCAAAATACCCTTGGTTTGGAAAATTACAGAAATACCCTC
* *
47079508 GACCTGTAAAATTACCAAAATACCCTAGATTTGTAAAATTACA
66 GACATGTAAAATTACCAAAATACCCTAGATTTGAAAAATTACA
*
47079551 -AAAAACCCTCGATTTGAAAAATTACCAAAATACCCTTGATTTGGAAAATTACAGAAATACCC-C
1 GAAAAACCCTCGATTTGAAAAATTACCAAAATACCCTTGGTTTGGAAAATTACAGAAATACCCTC
* * * *
47079614 TA-ATTTACAAAATTA-CAGAAATACCCTTGACTTT-AAAAATTGCA
66 GACATGT--AAAATTACCA-AAATACCCTAGA-TTTGAAAAATTACA
* * * * * * *
47079658 GAAATACCATTGGTTTGCAAAATTATCGAAATACCCTTGGTTTG
1 GAAAAACCCTCGATTTGAAAAATTACCAAAATACCCTTGGTTTG
47079702 TAGATTTACC
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
105 2 0.02
106 4 0.03
107 82 0.65
108 38 0.30
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (108 bp):
GAAAAACCCTCGATTTGAAAAATTACCAAAATACCCTTGGTTTGGAAAATTACAGAAATACCCTC
GACATGTAAAATTACCAAAATACCCTAGATTTGAAAAATTACA
Found at i:47079680 original size:81 final size:82
Alignment explanation
Indices: 47079461--47079693 Score: 203
Period size: 80 Copynumber: 2.9 Consensus size: 82
47079451 CTCGATTAGA
* * * * * * ** *
47079461 AAAATTACCAAAATACCC-CTGGTTTGTAAAATTACCGAAATACCCTCGACCTGTAAAATTACCA
1 AAAATTA-CAAAAAACCCTC-GATTTGAAAAATTACCAAAATACCATTGATTTGCAAAATTACCA
**
47079525 -AAATA-CCCTAGATTTGT
64 GAAATACCCCTAGATTTAC
* *
47079542 AAAATTACAAAAAACCCTCGATTTGAAAAATTACCAAAATACCCTTGATTTGGAAAATTA-CAGA
1 AAAATTACAAAAAACCCTCGATTTGAAAAATTACCAAAATACCATTGATTTGCAAAATTACCAGA
47079606 AATACCCCTA-ATTTAC
66 AATACCCCTAGATTTAC
* * * * *
47079622 AAAATTACAGAAATACCCTTGACTTT-AAAAATT-GCAGAAATACCATTGGTTTGCAAAATTATC
1 AAAATTACA-AAAAACCCTCGA-TTTGAAAAATTACCA-AAATACCATTGATTTGCAAAATTACC
47079685 -GAAATACCC
63 AGAAATACCC
47079694 TTGGTTTGTA
Statistics
Matches: 129, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
79 2 0.02
80 63 0.49
81 60 0.47
82 4 0.03
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (82 bp):
AAAATTACAAAAAACCCTCGATTTGAAAAATTACCAAAATACCATTGATTTGCAAAATTACCAGA
AATACCCCTAGATTTAC
Found at i:47080005 original size:40 final size:40
Alignment explanation
Indices: 47079961--47080037 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
47079951 GGAGGAAGAA
47079961 ATTGAAGATCGCATGGTTGCTTGACGACAGTGGATCCCCG
1 ATTGAAGATCGCATGGTTGCTTGACGACAGTGGATCCCCG
* *
47080001 ATTGAGGATCGCATGGTTGCTTGACGACTGTGGATCC
1 ATTGAAGATCGCATGGTTGCTTGACGACAGTGGATCC
47080038 ACCGGTGGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (40 bp):
ATTGAAGATCGCATGGTTGCTTGACGACAGTGGATCCCCG
Found at i:47080245 original size:22 final size:22
Alignment explanation
Indices: 47080183--47080247 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
47080173 GCTAATTATT
*
47080183 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
* * *
47080205 CT-ACATATGGCTTTATGCCGAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
47080227 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
47080248 ACGTATTTGC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:47098100 original size:7 final size:7
Alignment explanation
Indices: 47098088--47098112 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47098078 AATGCTACCT
47098088 CATATCA
1 CATATCA
47098095 CATATCA
1 CATATCA
47098102 CATATCA
1 CATATCA
47098109 CATA
1 CATA
47098113 CTGCTCGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
CATATCA
Found at i:47098311 original size:20 final size:20
Alignment explanation
Indices: 47098286--47098323 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47098276 GCAACATATA
47098286 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
47098306 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
47098324 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:47105161 original size:83 final size:83
Alignment explanation
Indices: 47105055--47105224 Score: 277
Period size: 83 Copynumber: 2.0 Consensus size: 83
47105045 GTCTCTACCC
* * *
47105055 GTGTGCCCAATTCTAAGCATTTTGTTTCTCAATTTTAAGATGCAAGGGACACACGACTAAACCAC
1 GTGTACCCAATTCTAAGCATTTTGTTTCTCAATTTTAAGATACAAGGGACACACGACCAAACCAC
*
47105120 ATGCCCGTGTGCCAGACT
66 ATGCCCATGTGCCAGACT
* * *
47105138 GTGTACCCAATTCTTAGCATTTTGTTTCTCAATTTTAAGATACAGGGGACACATGACCAAACCAC
1 GTGTACCCAATTCTAAGCATTTTGTTTCTCAATTTTAAGATACAAGGGACACACGACCAAACCAC
47105203 ATGCCCATGTGCCAGACT
66 ATGCCCATGTGCCAGACT
47105221 GTGT
1 GTGT
47105225 GTCACACATA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (83 bp):
GTGTACCCAATTCTAAGCATTTTGTTTCTCAATTTTAAGATACAAGGGACACACGACCAAACCAC
ATGCCCATGTGCCAGACT
Found at i:47107356 original size:23 final size:23
Alignment explanation
Indices: 47107293--47107356 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
47107283 TTAGCTCGTC
*
47107293 GGAGCTTACT-ATTTCAGCTCAATA
1 GGAGCTTACTGA-TT-AGCTCAAGA
47107317 -GAGCTTACTGTCCATTAGCTCAAGA
1 GGAGCTTACTG---ATTAGCTCAAGA
47107342 GGAGCTTACTGATTA
1 GGAGCTTACTGATTA
47107357 TAACTTGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
23 13 0.38
25 8 0.24
26 12 0.35
27 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (23 bp):
GGAGCTTACTGATTAGCTCAAGA
Found at i:47107534 original size:19 final size:19
Alignment explanation
Indices: 47107512--47107581 Score: 56
Period size: 20 Copynumber: 3.7 Consensus size: 19
47107502 ACAAATGAAT
47107512 TACTG-TTATATGGATAAAG
1 TACTGTTTATATGGAT-AAG
* *
47107531 TACTGTTTAAATGGATGAG
1 TACTGTTTATATGGATAAG
* *
47107550 TTACTG-TTAT-TGAATGAAT
1 -TACTGTTTATATGGAT-AAG
47107569 TACTGTTTATATG
1 TACTGTTTATATG
47107582 ATTGAGAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
18 9 0.22
19 15 0.38
20 16 0.40
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (19 bp):
TACTGTTTATATGGATAAG
Found at i:47107701 original size:38 final size:38
Alignment explanation
Indices: 47107654--47107726 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
47107644 ATTGAGTATT
47107654 AAATTAAGATAAAGGATGATTATATGCACTTATGTTTA
1 AAATTAAGATAAAGGATGATTATATGCACTTATGTTTA
*
47107692 AAATTAAGATAATGGATGATTATATGCACTTATGT
1 AAATTAAGATAAAGGATGATTATATGCACTTATGT
47107727 AACTAACTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.37
Consensus pattern (38 bp):
AAATTAAGATAAAGGATGATTATATGCACTTATGTTTA
Found at i:47111244 original size:25 final size:25
Alignment explanation
Indices: 47111193--47111245 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
47111183 TTCTAGTGTT
* * *
47111193 ACACAGCATGGCACACGGGCGTATG
1 ACACAGCATAGCACACGAGCATATG
* *
47111218 ACACAGCCTAGCACACGAGCATGTG
1 ACACAGCATAGCACACGAGCATATG
47111243 ACA
1 ACA
47111246 AGACCATGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.26, T:0.11
Consensus pattern (25 bp):
ACACAGCATAGCACACGAGCATATG
Found at i:47112539 original size:20 final size:20
Alignment explanation
Indices: 47112516--47112553 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47112506 CTAAACTGAT
* *
47112516 AACTTAAGAAATTTTTACAA
1 AACTTAAAAAAATTTTACAA
47112536 AACTTAAAAAAATTTTAC
1 AACTTAAAAAAATTTTAC
47112554 CATATTTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
AACTTAAAAAAATTTTACAA
Found at i:47116548 original size:19 final size:19
Alignment explanation
Indices: 47116524--47116560 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
47116514 GATTGAATTA
47116524 TATGTATTTGAGTTTATCG
1 TATGTATTTGAGTTTATCG
47116543 TATGTATTTGAGTTTATC
1 TATGTATTTGAGTTTATC
47116561 TCTAGATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.05, G:0.19, T:0.54
Consensus pattern (19 bp):
TATGTATTTGAGTTTATCG
Found at i:47116571 original size:18 final size:19
Alignment explanation
Indices: 47116524--47116572 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
47116514 GATTGAATTA
*
47116524 TATGTATTTGAGTTTATCG
1 TATGTATTTGAGTTTATCC
47116543 TATGTATTTGAGTTTATCTC
1 TATGTATTTGAGTTTATC-C
47116563 TA-G-ATTTGAG
1 TATGTATTTGAG
47116573 AATAAATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 7 0.25
19 19 0.68
20 2 0.07
ACGTcount: A:0.22, C:0.06, G:0.20, T:0.51
Consensus pattern (19 bp):
TATGTATTTGAGTTTATCC
Found at i:47127514 original size:22 final size:22
Alignment explanation
Indices: 47127489--47127531 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
47127479 TATCCAAACA
47127489 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* **
47127511 ATAATAGTAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
47127532 ATAGGGAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:47127961 original size:23 final size:24
Alignment explanation
Indices: 47127926--47127986 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
47127916 ATAAAATAGG
47127926 TTATTTTAGTTTTA-TAT-TTAATCTT
1 TTATTTT--TTTTATTATGTTAAT-TT
*
47127951 TTATTTTTTTTATTCTGTTAATTT
1 TTATTTTTTTTATTATGTTAATTT
*
47127975 GTATTTTTTTTA
1 TTATTTTTTTTA
47127987 CCAAATCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 5 0.16
24 15 0.47
25 12 0.38
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (24 bp):
TTATTTTTTTTATTATGTTAATTT
Found at i:47128282 original size:24 final size:24
Alignment explanation
Indices: 47128254--47128301 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
47128244 TTAACCTAAG
47128254 TATGATTAAAATTTAAATTAAACA
1 TATGATTAAAATTTAAATTAAACA
*
47128278 TATGATTAAAATTTAAATTGAACA
1 TATGATTAAAATTTAAATTAAACA
47128302 CAAAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (24 bp):
TATGATTAAAATTTAAATTAAACA
Found at i:47135070 original size:30 final size:31
Alignment explanation
Indices: 47135013--47135070 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
47135003 TTACGAGCCT
* *
47135013 AGGGGAAAAAGTGTAATTTTGATAAAATTTA
1 AGGGCAAAAAGTGTAATTTTGACAAAATTTA
*
47135044 AGGGCAAAAA-TGTAATTTTGCCAAAAT
1 AGGGCAAAAAGTGTAATTTTGACAAAAT
47135071 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (31 bp):
AGGGCAAAAAGTGTAATTTTGACAAAATTTA
Found at i:47137225 original size:42 final size:43
Alignment explanation
Indices: 47137157--47137269 Score: 113
Period size: 43 Copynumber: 2.7 Consensus size: 43
47137147 CTGTTTTGCG
* * *
47137157 TGTAAGACCATGTCTGGGACATTGGCATCG-TATCTGATTTCA
1 TGTAAGACCATGTCTAGGACAGTGGCATCGATATCTGATTACA
* * * * *
47137199 TGTAAGACCCTGTCTAGGAGAGTGGCATTGATGTTTGATTACA
1 TGTAAGACCATGTCTAGGACAGTGGCATCGATATCTGATTACA
**
47137242 TGTAAGACCACATCTAGGAC-GTTGGCAT
1 TGTAAGACCATGTCTAGGACAG-TGGCAT
47137270 TGTATATGTT
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 26 0.46
43 31 0.54
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGATATCTGATTACA
Found at i:47144285 original size:43 final size:42
Alignment explanation
Indices: 47144191--47144296 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 42
47144181 TTATATTTTT
* * ** *
47144191 CATGTAAGACCATGTTTGGGACATTGGCATCGTATCTGATTT
1 CATGTAAGACCATGTCTGGGACAGTGGCATAATATCTGATTA
* * * *
47144233 CGTGTAAGACCCTGTCTGGGACAGTGGCATTAATGTTTGATTA
1 CATGTAAGACCATGTCTGGGACAGTGGCA-TAATATCTGATTA
47144276 CATGTAAGACCATGTCTGGGA
1 CATGTAAGACCATGTCTGGGA
47144297 TGTTGGCATT
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 25 0.48
43 27 0.52
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACAGTGGCATAATATCTGATTA
Found at i:47144304 original size:43 final size:43
Alignment explanation
Indices: 47144191--47144312 Score: 115
Period size: 43 Copynumber: 2.8 Consensus size: 43
47144181 TTATATTTTT
* ** *
47144191 CATGTAAGACCATGTTTGGGACA-TTGGCA-TCGTATCTGATTT
1 CATGTAAGACCATGTCTGGGA-AGTTGGCATTAATATCTGATTA
* * * *
47144233 CGTGTAAGACCCTGTCTGGGACAG-TGGCATTAATGTTTGATTA
1 CATGTAAGACCATGTCTGGGA-AGTTGGCATTAATATCTGATTA
*
47144276 CATGTAAGACCATGTCTGGGATGTTGGCATTGAATAT
1 CATGTAAGACCATGTCTGGGAAGTTGGCATT-AATAT
47144313 GCTTTCCGAG
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 26 0.41
43 34 0.53
44 4 0.06
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGAAGTTGGCATTAATATCTGATTA
Found at i:47146469 original size:16 final size:16
Alignment explanation
Indices: 47146445--47146484 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
47146435 TTTTCATGCG
*
47146445 AGCTTACTAAGCGTAA
1 AGCTTACTAAGCATAA
*
47146461 AGTTTACTAAGCATAA
1 AGCTTACTAAGCATAA
47146477 AGCTTACT
1 AGCTTACT
47146485 CCCTCCTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (16 bp):
AGCTTACTAAGCATAA
Found at i:47150398 original size:68 final size:69
Alignment explanation
Indices: 47150326--47150477 Score: 170
Period size: 67 Copynumber: 2.2 Consensus size: 69
47150316 CATCATGTGT
* * * *
47150326 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGT-GATAC-TAT-ATGTACACC
1 ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACGGATGAAGGACACC
47150388 ATGTAG
64 ATGTAG
* * * * *
47150394 ACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCGTATGCGTGGTTCCGGGTGAAGGACACCAT
1 ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGGATACGGATGAAGGACACCAT
47150457 GTAG
66 GTAG
47150461 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
47150478 TAAACTGGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
64 19 0.27
65 6 0.09
66 2 0.03
67 28 0.40
68 15 0.21
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (69 bp):
ACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGGATACGGATGAAGGACACCAT
GTAG
Found at i:47160638 original size:23 final size:23
Alignment explanation
Indices: 47160607--47160689 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 23
47160597 TTTGGGTTTT
47160607 AATTAATTTAATTAAGTTGGTAA
1 AATTAATTTAATTAAGTTGGTAA
* * * **
47160630 AATTTATTTCATTAATAATTTGGGTTTT
1 AATTAATTT-A--ATTAAGTT-GG-TAA
47160658 AATTAATTTAATTAAGTTGGTAA
1 AATTAATTTAATTAAGTTGGTAA
47160681 AATTTAATT
1 AA-TTAATT
47160690 CTTTGGTCCT
Statistics
Matches: 44, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
23 11 0.25
24 9 0.20
25 6 0.14
26 6 0.14
27 3 0.07
28 9 0.20
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (23 bp):
AATTAATTTAATTAAGTTGGTAA
Found at i:47160638 original size:51 final size:51
Alignment explanation
Indices: 47160583--47160686 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
47160573 CATTTTAAAA
*
47160583 TATTTCGTTAATAATTTGGGTTTTAATTAATTTAATTAAGTTGGTAAAATT
1 TATTTCATTAATAATTTGGGTTTTAATTAATTTAATTAAGTTGGTAAAATT
47160634 TATTTCATTAATAATTTGGGTTTTAATTAATTTAATTAAGTTGGTAAAATT
1 TATTTCATTAATAATTTGGGTTTTAATTAATTTAATTAAGTTGGTAAAATT
47160685 TA
1 TA
47160687 ATTCTTTGGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (51 bp):
TATTTCATTAATAATTTGGGTTTTAATTAATTTAATTAAGTTGGTAAAATT
Found at i:47160671 original size:28 final size:28
Alignment explanation
Indices: 47160590--47160672 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 28
47160580 AAATATTTCG
47160590 TTAATAATTTGGGTTTTAATTAATTTAA
1 TTAATAATTTGGGTTTTAATTAATTTAA
* ** * *
47160618 -T--TAAGTT-GG-TAAAATTTATTTCA
1 TTAATAATTTGGGTTTTAATTAATTTAA
47160641 TTAATAATTTGGGTTTTAATTAATTTAA
1 TTAATAATTTGGGTTTTAATTAATTTAA
47160669 TTAA
1 TTAA
47160673 GTTGGTAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
23 10 0.25
24 3 0.08
25 5 0.12
26 5 0.12
27 3 0.08
28 14 0.35
ACGTcount: A:0.36, C:0.01, G:0.11, T:0.52
Consensus pattern (28 bp):
TTAATAATTTGGGTTTTAATTAATTTAA
Found at i:47160686 original size:28 final size:28
Alignment explanation
Indices: 47160604--47160689 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
47160594 TAATTTGGGT
47160604 TTTAATTAATTTAATTAAGTTGGTAAAA
1 TTTAATTAATTTAATTAAGTTGGTAAAA
* * *
47160632 TTTATTTCA-TTAA-TAATTTGGGT----
1 TTTAATTAATTTAATTAAGTT-GGTAAAA
47160655 TTTAATTAATTTAATTAAGTTGGTAAAA
1 TTTAATTAATTTAATTAAGTTGGTAAAA
47160683 TTTAATT
1 TTTAATT
47160690 CTTTGGTCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
23 7 0.16
24 7 0.16
25 5 0.11
26 5 0.11
27 7 0.16
28 14 0.31
ACGTcount: A:0.37, C:0.01, G:0.10, T:0.51
Consensus pattern (28 bp):
TTTAATTAATTTAATTAAGTTGGTAAAA
Found at i:47161083 original size:7 final size:7
Alignment explanation
Indices: 47161071--47161102 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
47161061 ACTTTTTCAA
47161071 TCATCCC
1 TCATCCC
47161078 TCATCCC
1 TCATCCC
47161085 TCATCCC
1 TCATCCC
47161092 TCATCCC
1 TCATCCC
47161099 TCAT
1 TCAT
47161103 TCATCCCTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.16, C:0.53, G:0.00, T:0.31
Consensus pattern (7 bp):
TCATCCC
Found at i:47164278 original size:47 final size:47
Alignment explanation
Indices: 47164160--47164328 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 47
47164150 TAGGATTTGA
*
47164160 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
47164208 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
47164251 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
47164300 -C-GCCGAGCTCGTTGAGTTGAGT-CGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
47164329 GCTTATGGGC
Statistics
Matches: 104, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 7 0.07
45 22 0.21
46 30 0.29
47 29 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:47171682 original size:46 final size:46
Alignment explanation
Indices: 47171629--47171804 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
47171619 GGATTTGGCA
47171629 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47171675 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
47171720 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
47171768 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47171805 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:47171784 original size:93 final size:93
Alignment explanation
Indices: 47171625--47171797 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
47171615 ACTAGGATTT
* *
47171625 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
47171690 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
47171718 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
47171783 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
47171798 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:47173754 original size:37 final size:37
Alignment explanation
Indices: 47173691--47173836 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
47173681 AGCTCAGATG
* * *
47173691 AAATCTCCACACGAAGTTATCTGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
47173728 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
47173765 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
47173802 TAATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
47173837 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:47174037 original size:48 final size:48
Alignment explanation
Indices: 47173978--47174218 Score: 419
Period size: 48 Copynumber: 5.0 Consensus size: 48
47173968 TATACACGCG
* * * *
47173978 TCTCCTACATATTTCACACTAGCCCTTCGGCTTTACCACATATACGTA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
*
47174026 TCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
* *
47174074 TCTCATATATATTTCACATTAGCCATTCGGCTTTATCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
47174122 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
47174170 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
1 TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
47174218 T
1 T
47174219 TTCACATTAG
Statistics
Matches: 185, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 185 1.00
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.36
Consensus pattern (48 bp):
TCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA
Found at i:47174224 original size:37 final size:37
Alignment explanation
Indices: 47174174--47174292 Score: 238
Period size: 37 Copynumber: 3.2 Consensus size: 37
47174164 TACATATCTC
47174174 ATACATATTTCACATTAGCCATTCGGCTTTACCACAT
1 ATACATATTTCACATTAGCCATTCGGCTTTACCACAT
47174211 ATACATATTTCACATTAGCCATTCGGCTTTACCACAT
1 ATACATATTTCACATTAGCCATTCGGCTTTACCACAT
47174248 ATACATATTTCACATTAGCCATTCGGCTTTACCACAT
1 ATACATATTTCACATTAGCCATTCGGCTTTACCACAT
47174285 ATACATAT
1 ATACATAT
47174293 ATTTATCTTG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 82 1.00
ACGTcount: A:0.31, C:0.26, G:0.08, T:0.35
Consensus pattern (37 bp):
ATACATATTTCACATTAGCCATTCGGCTTTACCACAT
Found at i:47183337 original size:81 final size:81
Alignment explanation
Indices: 47183208--47183407 Score: 226
Period size: 81 Copynumber: 2.5 Consensus size: 81
47183198 ACGATTCTTA
* * * * * *
47183208 ACACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGGCCATTGGCTCGAAGGCCCTTGGGA
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGAA
47183272 ACTAAGTCCGGTTATG
66 ACTAAGTCCGGTTATG
* * *
47183288 ACACTAGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G-CACTGGCTCAAAAGCCCTTCG
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG--ATTAGGCCACTGGCTCAAAAGCCCTTCG
* * *
47183351 AAATTAAGTTCGGTTATT
64 AAACTAAGTCCGGTTATG
* *
47183369 AGCACTGGCTCAAAAGCCCTTCGAACCCAAGCTCAGATT
1 A-CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATT
47183408 TACACCCCGA
Statistics
Matches: 99, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
80 12 0.12
81 53 0.54
82 30 0.30
83 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (81 bp):
ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGAA
ACTAAGTCCGGTTATG
Found at i:47183349 original size:41 final size:41
Alignment explanation
Indices: 47183209--47183393 Score: 216
Period size: 41 Copynumber: 4.6 Consensus size: 41
47183199 CGATTCTTAA
* * *
47183209 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * * * *
47183248 CCATTGGCTCGAAGGCCCTTGGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
*
47183289 CACTAGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
*
47183330 CACTGGCTCAAAAGCCCTTCGAAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
47183371 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
47183394 CCCAAGCTCA
Statistics
Matches: 122, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
40 40 0.33
41 79 0.65
43 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:47188436 original size:27 final size:27
Alignment explanation
Indices: 47188406--47188496 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
47188396 ATTACCAAAG
47188406 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* * *
47188433 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
47188460 TACCCTCGA-TTGT-GAAATTACCGTTT
1 TACCCTCGATTTATAG-AATTACTGTTT
47188486 TACCCTCGATT
1 TACCCTCGATT
47188497 GTGGAATTAC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 21 0.39
27 33 0.61
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:47188485 original size:26 final size:26
Alignment explanation
Indices: 47188422--47188508 Score: 113
Period size: 26 Copynumber: 3.3 Consensus size: 26
47188412 CGATTTATAG
* *
47188422 AATTACTGTTTTACCCTTGATT-TACAA
1 AATTACTGTTTTACCCTCGATTGT--GA
47188449 AATTACTGTTTTACCCTCGATTGTGA
1 AATTACTGTTTTACCCTCGATTGTGA
* *
47188475 AATTACCGTTTTACCCTCGATTGTGG
1 AATTACTGTTTTACCCTCGATTGTGA
47188501 AATTACTG
1 AATTACTG
47188509 AAATACCCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 32 0.59
27 21 0.39
28 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (26 bp):
AATTACTGTTTTACCCTCGATTGTGA
Found at i:47188515 original size:26 final size:26
Alignment explanation
Indices: 47188460--47188652 Score: 95
Period size: 27 Copynumber: 7.2 Consensus size: 26
47188450 ATTACTGTTT
***
47188460 TACCCTCGATTGTGAAATTACCGTTT
1 TACCCTCGATTGTGAAATTACCGAAA
* *
47188486 TACCCTCGATTGTGGAATTACTGAAA
1 TACCCTCGATTGTGAAATTACCGAAA
* * * *
47188512 TACCC-CTATAGGGTAGAATTACCAAAA
1 TACCCTCGATTGTG-A-AATTACCGAAA
* * *
47188539 TACCCCTAGTTTGTAAAATTACC-AAA
1 TA-CCCTCGATTGTGAAATTACCGAAA
* * *
47188565 GTACCACTGGTTTGTGAAATTACTGAAA
1 -TACC-CTCGATTGTGAAATTACCGAAA
* * *
47188593 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGA-TTGTGAAATTACCGAAA
* * * *
47188620 CACCC-CTGATTTATAAAATTACAGAAA
1 TACCCTC-GA-TTGTGAAATTACCGAAA
47188647 TACCCT
1 TACCCT
47188653 TGACTTTCTA
Statistics
Matches: 125, Mismatches: 32, Indels: 18
0.71 0.18 0.10
Matches are distributed among these distances:
25 5 0.04
26 34 0.27
27 77 0.62
28 7 0.06
29 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (26 bp):
TACCCTCGATTGTGAAATTACCGAAA
Found at i:47188558 original size:27 final size:27
Alignment explanation
Indices: 47188528--47188651 Score: 119
Period size: 27 Copynumber: 4.6 Consensus size: 27
47188518 TATAGGGTAG
47188528 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * *
47188555 AATTACCAAAGTACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
** *
47188582 AATTACTGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* *
47188609 AATTACCAAAACACCCCT-GATTTATAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
47188636 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
47188652 TTGACTTTCT
Statistics
Matches: 76, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
26 5 0.07
27 67 0.88
28 4 0.05
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:47188639 original size:54 final size:54
Alignment explanation
Indices: 47188548--47188652 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
47188538 ATACCCCTAG
** * * * *
47188548 TTTGTAAAATTACCAAAGTACCACTGGTTTGTGAAATTACTGAAATACCCTCAA
1 TTTGTAAAATTACCAAAACACCACTGATTTATAAAATTACAGAAATACCCTCAA
*
47188602 TTTGTAAAATTACCAAAACACCCCTGATTTATAAAATTACAGAAATACCCT
1 TTTGTAAAATTACCAAAACACCACTGATTTATAAAATTACAGAAATACCCT
47188653 TGACTTTCTA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAACACCACTGATTTATAAAATTACAGAAATACCCTCAA
Found at i:47188703 original size:27 final size:27
Alignment explanation
Indices: 47188663--47188714 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
47188653 TGACTTTCTA
47188663 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
47188690 AAAATTACTA-AAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
47188715 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:47189680 original size:25 final size:24
Alignment explanation
Indices: 47189642--47189711 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
47189632 AGGAAGTGCT
*
47189642 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
47189666 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
47189691 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
47189712 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:47189724 original size:24 final size:24
Alignment explanation
Indices: 47189641--47189724 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
47189631 GAGGAAGTGC
* *
47189641 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
47189666 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
47189690 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
47189714 TAAAAGAGGCT
1 TAAAAG-GGCT
47189725 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:47189918 original size:42 final size:42
Alignment explanation
Indices: 47189859--47189947 Score: 169
Period size: 42 Copynumber: 2.1 Consensus size: 42
47189849 TAGTCTCCCC
*
47189859 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
47189901 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
47189943 AAATG
1 AAATG
47189948 AGCCTAAGGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:47190025 original size:31 final size:30
Alignment explanation
Indices: 47189974--47190056 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 30
47189964 CGCTTACAGT
47189974 AAAGGCTTCGGCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATGA
47190004 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCC-AGTGATATGATTTATGA
47190035 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGG-CCAGTGATATG
47190057 TCAAGACTGA
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
30 18 0.35
31 31 0.61
32 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATGA
Found at i:47191364 original size:23 final size:24
Alignment explanation
Indices: 47191338--47191400 Score: 87
Period size: 22 Copynumber: 2.8 Consensus size: 24
47191328 AAGCTCTAAT
*
47191338 GAGCTGAAACGGTAAGCTTTAT-C
1 GAGCTGAAACGGTAAGCTTCATAC
*
47191361 GAGCTG-AACAGTAAGC-TCATAC
1 GAGCTGAAACGGTAAGCTTCATAC
47191383 GAGCTGAAACGGTAAGCT
1 GAGCTGAAACGGTAAGCT
47191401 CCAATAAGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 3 0.09
22 16 0.47
23 15 0.44
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (24 bp):
GAGCTGAAACGGTAAGCTTCATAC
Found at i:47191377 original size:22 final size:23
Alignment explanation
Indices: 47191313--47191400 Score: 83
Period size: 23 Copynumber: 3.8 Consensus size: 23
47191303 AGCTTCTCCT
47191313 GAGCTGATGAACAGTAAGCTCTAAT-
1 GAGCTGA--AACAGTAAGCT-TAATC
* *
47191338 GAGCTGAAACGGTAAGCTTTATC
1 GAGCTGAAACAGTAAGCTTAATC
*
47191361 GAGCTG-AACAGTAAGC-TCATAC
1 GAGCTGAAACAGTAAGCTTAAT-C
*
47191383 GAGCTGAAACGGTAAGCT
1 GAGCTGAAACAGTAAGCT
47191401 CCAATAAGCT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
21 3 0.06
22 19 0.35
23 25 0.46
25 7 0.13
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTTAATC
Found at i:47191401 original size:23 final size:23
Alignment explanation
Indices: 47191338--47191461 Score: 94
Period size: 23 Copynumber: 5.3 Consensus size: 23
47191328 AAGCTCTAAT
*
47191338 GAGCTGAAACGGTAAGCT-TTATC
1 GAGCTGAAACGGTAAGCTCATA-C
*
47191361 GAGCTG-AACAGTAAGCTCATAC
1 GAGCTGAAACGGTAAGCTCATAC
47191383 GAGCTGAAACGGTAAGCTCCAATA-
1 GAGCTGAAACGGTAAGCT-C-ATAC
* * * *
47191407 -AGCTAAAAACAGTAACCTCTTAC
1 GAGCT-GAAACGGTAAGCTCATAC
*
47191430 GAGCTGATATATTGGTAAGCTCATAC
1 GAGCTGA-A-A-CGGTAAGCTCATAC
47191456 GAGCTG
1 GAGCTG
47191462 TGGTGAGTCC
Statistics
Matches: 79, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
22 19 0.24
23 24 0.30
24 16 0.20
25 4 0.05
26 16 0.20
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (23 bp):
GAGCTGAAACGGTAAGCTCATAC
Found at i:47196739 original size:16 final size:16
Alignment explanation
Indices: 47196718--47196754 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
47196708 TCATGCGAGC
*
47196718 TTACTAAGCGTAAAGT
1 TTACTAAGCATAAAGT
47196734 TTACTAAGCATAAAGT
1 TTACTAAGCATAAAGT
47196750 TTACT
1 TTACT
47196755 CCCTCCTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (16 bp):
TTACTAAGCATAAAGT
Found at i:47209480 original size:46 final size:46
Alignment explanation
Indices: 47209427--47209517 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
47209417 TATATATACA
* * *
47209427 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
47209473 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
47209518 ATACACATCC
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:47209562 original size:47 final size:47
Alignment explanation
Indices: 47209534--47210010 Score: 675
Period size: 47 Copynumber: 10.1 Consensus size: 47
47209524 ATCCACGTTT
* * * *
47209534 ATCACGTTGGCCATTCTGCCTTATCACATGTATGCATGTTCACATTT
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* *
47209581 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTTATATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* *
47209628 TTCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
*
47209675 ATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
*
47209722 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* *
47209769 ATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* * *
47209816 ATCACATTGGCCATTCGGTCTTATCACACAAATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
** * * *
47209863 ATCACATTTTCCATTCGGCCTTAGCACACAAATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* * * *
47209910 ATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* * * * ** *
47209957 ATCACATTTGCCATTCGGCCTTAGCTCATATATACACATTCACATCC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
47210004 ATCACAT
1 ATCACAT
47210011 AAAATCCTAA
Statistics
Matches: 397, Mismatches: 33, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 397 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
Found at i:47209702 original size:22 final size:22
Alignment explanation
Indices: 47209675--47209750 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
47209665 GTTCACATTC
47209675 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
47209697 ATCACATATATACATGTTC-ACATT
1 ATCACAT-TGGCCA--TTCGGCCTT
47209721 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
47209744 ATCACAT
1 ATCACAT
47209751 ATATGCATGT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 17 0.44
23 6 0.15
24 6 0.15
25 10 0.26
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:47209915 original size:23 final size:23
Alignment explanation
Indices: 47209889--47209962 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
47209879 GGCCTTAGCA
47209889 CACAAATGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
** * *
47209912 CACATTTGCCA--TTCGGCCTTAGCA-
1 CACAAATG-CATGTTC-ACATT--CAT
47209936 CACAAATGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
47209959 CACA
1 CACA
47209963 TTTGCCATTC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 15 0.42
24 11 0.31
25 5 0.14
ACGTcount: A:0.31, C:0.30, G:0.11, T:0.28
Consensus pattern (23 bp):
CACAAATGCATGTTCACATTCAT
Found at i:47217286 original size:13 final size:13
Alignment explanation
Indices: 47217268--47217292 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47217258 CTCGATAAGG
47217268 ACACGCCCGTGTA
1 ACACGCCCGTGTA
47217281 ACACGCCCGTGT
1 ACACGCCCGTGT
47217293 GCGATTACTT
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:47224273 original size:7 final size:7
Alignment explanation
Indices: 47224231--47224260 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
47224221 GCATGAGTGT
47224231 TGAGGGA
1 TGAGGGA
47224238 TGAGGGA
1 TGAGGGA
47224245 TGAGGGA
1 TGAGGGA
47224252 TGAGGGA
1 TGAGGGA
47224259 TG
1 TG
47224261 GTTGAAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.57, T:0.17
Consensus pattern (7 bp):
TGAGGGA
Found at i:47228643 original size:23 final size:23
Alignment explanation
Indices: 47228566--47228703 Score: 72
Period size: 23 Copynumber: 5.9 Consensus size: 23
47228556 TAAGCTAATG
*
47228566 AACAGTAAGCTC-TAATGAGCTGA
1 AACAGTAAGCTCAT-ACGAGCTGA
* *
47228589 AA-TGATAAGCT-TTATCGAGCTG-
1 AACAG-TAAGCTCATA-CGAGCTGA
*
47228611 AGCAGTAAGCTCATACGAGCTGA
1 AACAGTAAGCTCATACGAGCTGA
47228634 AACAGTAAGCTCCAATA--AGCTGAA
1 AACAGTAAGCT-C-ATACGAGCTG-A
* * *
47228658 AACAGCAAGATCTTACGAGCTGA
1 AACAGTAAGCTCATACGAGCTGA
**
47228681 TATATTGGTAAGCTCATACGAGC
1 -A-A-CAGTAAGCTCATACGAGC
47228704 AGTGGTCAAC
Statistics
Matches: 87, Mismatches: 14, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
22 18 0.21
23 35 0.40
24 17 0.20
25 4 0.05
26 13 0.15
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (23 bp):
AACAGTAAGCTCATACGAGCTGA
Found at i:47233926 original size:15 final size:15
Alignment explanation
Indices: 47233906--47233935 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47233896 TAGAAAATAT
47233906 TTCCCAAAAAATTAC
1 TTCCCAAAAAATTAC
47233921 TTCCCAAAAAATTAC
1 TTCCCAAAAAATTAC
47233936 AATAGAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (15 bp):
TTCCCAAAAAATTAC
Found at i:47237812 original size:39 final size:39
Alignment explanation
Indices: 47237768--47237997 Score: 372
Period size: 39 Copynumber: 5.9 Consensus size: 39
47237758 GTGCTGAGAT
* * *
47237768 TGTATCCGGGTTAGAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
*
47237807 TGTATCCAGGCTAAAGTCCCGTAGGCTTCGTGCTGGAAA
1 TGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
47237846 TGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
47237885 TGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
* *
47237924 TGTACCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
* * *
47237963 TGTGTCCGGGCTAAAGACCCGCAGG-TTCGTGCTGG
1 TGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGG
47237998 TGCTGGTAAT
Statistics
Matches: 181, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
38 10 0.06
39 171 0.94
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.23
Consensus pattern (39 bp):
TGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
Found at i:47242452 original size:37 final size:37
Alignment explanation
Indices: 47242399--47242497 Score: 153
Period size: 37 Copynumber: 2.7 Consensus size: 37
47242389 TGAATAGGCC
*
47242399 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
* *
47242436 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
* *
47242473 CCACTCGTAGTCATCGAGTCTTACC
1 CCACACGTAGTCATCGGGTCTTACC
47242498 TGGAATATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
Found at i:47242700 original size:48 final size:48
Alignment explanation
Indices: 47242642--47242787 Score: 256
Period size: 48 Copynumber: 3.0 Consensus size: 48
47242632 ATATTCACAC
* * *
47242642 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
47242690 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
47242738 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
47242786 AT
1 AT
47242788 TTATCTTGTA
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 94 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:47246832 original size:40 final size:40
Alignment explanation
Indices: 47246774--47247099 Score: 472
Period size: 40 Copynumber: 8.2 Consensus size: 40
47246764 CCAAATACAC
* * * *
47246774 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * * *
47246814 AACACCAGCACGAATGCTCTTCGGGACTTAACTCTGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * * * *
47246854 AACTCTAGAACGAATGCCCTTCGAGACTTAGCCCGGGTAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
47246894 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
47246934 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGAATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
47246974 ATCACTAGCACGAATGCTCTTCAGGACTTAGCCCAGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
47247014 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
47247054 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
47247094 ATCACT
1 ATCACT
47247100 CTCAATTGTC
Statistics
Matches: 256, Mismatches: 30, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 256 1.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:47248420 original size:37 final size:37
Alignment explanation
Indices: 47248367--47248469 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
47248357 TGAATAGGCC
* *
47248367 CCACACGTAGTTATCGGGTCTTACCCGGAGAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
47248404 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
47248441 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
47248470 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:47248668 original size:48 final size:48
Alignment explanation
Indices: 47248610--47248750 Score: 255
Period size: 48 Copynumber: 2.9 Consensus size: 48
47248600 ATATACACAC
* * *
47248610 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
47248658 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
47248706 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATA
47248751 TATTTATCTT
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:47268762 original size:11 final size:11
Alignment explanation
Indices: 47268738--47268768 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
47268728 TTATCAGAAC
47268738 TAGAATCAAAAT
1 TAGAATC-AAAT
47268750 TAGAATCAAAT
1 TAGAATCAAAT
47268761 TAGAATCA
1 TAGAATCA
47268769 GGTGACAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (11 bp):
TAGAATCAAAT
Found at i:47268785 original size:6 final size:6
Alignment explanation
Indices: 47268730--47268847 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
47268720 AAGAAATATT
* * * *
47268730 ATCAGA A-CTAGA ATCAAA ATTAGA ATCA-A ATTAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
47268778 ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A
*
47268829 A-CAGA ATCAGA ATTAGA AT
1 ATCAGA ATCAGA ATCAGA AT
47268848 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
5 9 0.11
6 64 0.75
7 9 0.11
8 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:47268793 original size:25 final size:25
Alignment explanation
Indices: 47268780--47268847 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
47268770 GTGACAGAAT
* *
47268780 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
47268805 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
47268830 CAGAATCAGAATTAGAAT
1 CAGAATCAGAATCAGAAT
47268848 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:47268803 original size:31 final size:31
Alignment explanation
Indices: 47268751--47268825 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
47268741 AATCAAAATT
*
47268751 AGAATCA-AATTAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
47268781 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
47268812 AGAATCAGTATCAG
1 AGAATCAGAATCAG
47268826 GTAACAGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 7 0.17
31 34 0.83
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:47268840 original size:31 final size:30
Alignment explanation
Indices: 47268751--47268847 Score: 98
Period size: 31 Copynumber: 3.4 Consensus size: 30
47268741 AATCAAAATT
*
47268751 AGAATCA-AATTAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGT-ACAGAATC
*
47268781 AGAATCAGAATCAGAATTAGGT---G-A-C
1 AGAATCAGAATCAGAATCAGGTACAGAATC
*
47268806 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGT-ACAGAATC
*
47268837 AGAATTAGAAT
1 AGAATCAGAAT
47268848 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
25 21 0.38
26 1 0.02
27 1 0.02
29 1 0.02
30 8 0.15
31 23 0.42
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGGTACAGAATC
Found at i:47269002 original size:27 final size:27
Alignment explanation
Indices: 47268964--47269043 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
47268954 AGCATGGCTT
*
47268964 CCAGAAT-AGATATTGTGACAGAGTCA
1 CCAGAATCAGATATTGTGACAGAGCCA
*
47268990 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGACAGAGCCA
* * *
47269017 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATATTGTGACAGAGCCA
47269044 TTTAACAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 2 0.04
26 4 0.09
27 39 0.83
28 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGACAGAGCCA
Found at i:47269155 original size:22 final size:22
Alignment explanation
Indices: 47269130--47269193 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
47269120 CCCACAATAA
*
47269130 TGGCACACAGCCATAATCAGGT
1 TGGCACAAAGCCATAATCAGGT
*
47269152 TGGCACAAAGCCAT-ATGTAGGT
1 TGGCACAAAGCCATAAT-CAGGT
*
47269174 TGGCGCAAAGCCATAATCAG
1 TGGCACAAAGCCATAATCAG
47269194 AATAATTGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAATCAGGT
Found at i:47269785 original size:27 final size:27
Alignment explanation
Indices: 47269708--47269794 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
47269698 GAGCAAAATG
* * * * *
47269708 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
47269735 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
47269762 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
47269789 ATAATT
1 GTAATT
47269795 TTGTAAATCG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:47269863 original size:27 final size:26
Alignment explanation
Indices: 47269833--47269984 Score: 144
Period size: 27 Copynumber: 5.7 Consensus size: 26
47269823 TATAAATTAG
*
47269833 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-TCGA
** *
47269860 GGGTATTTCAGTAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACA-ATCGA
** *
47269887 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTAC-AATCGA
* *
47269913 GGGGTATTTTGGTAATTTTACAAACTA
1 -GGGTATTTTGGTAATTTTACAATCGA
* *
47269940 GGGGTATTTTGCTAATTTTTCTAATCGA
1 -GGGTATTTTGGTAATTTTAC-AATCGA
47269968 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
47269985 GGTAAACTAA
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
26 4 0.04
27 96 0.91
28 5 0.05
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAATCGA
Found at i:47269864 original size:81 final size:81
Alignment explanation
Indices: 47269779--47269935 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 81
47269769 TACCCTACAG
** * * *
47269779 GGGTATTTCAATAATTTTGTAAATCGAGGGTAAAACGGTAA-TTCTATAAATTAGGGGTACTTTG
1 GGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTC-ACAAATCAGGGGTACTTTG
47269843 GTAATTTTACAAGTCGA
65 GTAATTTTACAAGTCGA
* ** *** *
47269860 GGGTATTTCAGTAATTTTACAGGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGG
1 GGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACTTTGG
47269925 TAATTTTACAA
66 TAATTTTACAA
47269936 ACTAGGGGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
81 60 0.95
82 3 0.05
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (81 bp):
GGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAGGGGTACTTTGG
TAATTTTACAAGTCGA
Found at i:47269956 original size:81 final size:81
Alignment explanation
Indices: 47269826--47269984 Score: 189
Period size: 81 Copynumber: 2.0 Consensus size: 81
47269816 GTAATTCTAT
* * * *
47269826 AAATTAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTAC-AGGTCGAGGG
1 AAATCAGGGGTACTTTGGTAATTTTACAACTAGAGGGTATTTCAGTAATTTTACTA-ATCGAGGG
47269890 TATTTCAGTAATTTCAC
65 TATTTCAGTAATTTCAC
* * *
47269907 AAATCAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTT-TGCTAATTTTTCTAATCGAGG
1 AAATCAGGGGTACTTTGGTAATTTTAC-AACTAGAGGGTATTTCAG-TAATTTTACTAATCGAGG
**
47269970 GTATTTTGGTAATTT
64 GTATTTCAGTAATTT
47269985 GGTAAACTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
80 1 0.02
81 60 0.91
82 5 0.08
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (81 bp):
AAATCAGGGGTACTTTGGTAATTTTACAACTAGAGGGTATTTCAGTAATTTTACTAATCGAGGGT
ATTTCAGTAATTTCAC
Found at i:47271065 original size:33 final size:33
Alignment explanation
Indices: 47271023--47271173 Score: 106
Period size: 33 Copynumber: 4.5 Consensus size: 33
47271013 GAATTGATGG
47271023 ATAAGACCATAATTGGGTTATGGCACTATGAAT
1 ATAAGACCATAATTGGGTTATGGCACTATGAAT
** *** * * *
47271056 ATAAGACCATGGTTGGACCATGGCAGTGTTTATAT
1 ATAAGACCATAATTGGGTTATGGCACT-ATGA-AT
* *** *
47271091 GTAAGACCATAGCAGGGTTATGGCACTCTG-AT
1 ATAAGACCATAATTGGGTTATGGCACTATGAAT
* **
47271123 GATAAGACCATAACTGGGTTATGGCACTGCGAAT
1 -ATAAGACCATAATTGGGTTATGGCACTATGAAT
* *
47271157 GTAAGACCATGATTGGG
1 ATAAGACCATAATTGGG
47271174 CCATGGCGAT
Statistics
Matches: 88, Mismatches: 26, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
32 2 0.02
33 60 0.68
34 5 0.06
35 21 0.24
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (33 bp):
ATAAGACCATAATTGGGTTATGGCACTATGAAT
Done.