Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 514 of 770
Found at i:159438961 original size:40 final size:40
Alignment explanation
Indices: 159438878--159439085 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
159438868 CGGGATTTAA
* * * * * *
159438878 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
159438918 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
159438958 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
159438998 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
159439038 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
159439078 CCGGATAT
1 CCGGATAT
159439086 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:159438998 original size:80 final size:80
Alignment explanation
Indices: 159438904--159439085 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
159438894 GCTCGATTGT
* * *** * * * **
159438904 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
159438969 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
159438984 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
159439049 TACTAGCATAATTGC
66 AACTAGCACAAATGC
159439064 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
159439086 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:159442238 original size:40 final size:40
Alignment explanation
Indices: 159442179--159442365 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
159442169 CATTGGAATG
* * * *
159442179 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
159442219 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
159442259 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
159442299 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
159442339 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
159442366 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:159442281 original size:80 final size:80
Alignment explanation
Indices: 159442179--159442332 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
159442169 CATTGGAATG
* * ** *
159442179 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
159442244 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
159442259 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
159442324 ATCGTGCGA
66 ATCGTGCGA
159442333 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:159442347 original size:80 final size:80
Alignment explanation
Indices: 159442183--159442365 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
159442173 GGAATGATAT
* ** * *
159442183 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
159442248 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
159442263 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
159442328 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
159442343 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
159442366 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:159442385 original size:80 final size:80
Alignment explanation
Indices: 159442183--159442400 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
159442173 GGAATGATAT
* * * * * * * *
159442183 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
159442247 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
159442263 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
159442328 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
159442343 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
159442401 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:159455371 original size:30 final size:29
Alignment explanation
Indices: 159455315--159455471 Score: 214
Period size: 30 Copynumber: 5.5 Consensus size: 29
159455305 ATAGTGAATC
159455315 CGCACACTTAGTGCTATATA-TTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
159455343 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
159455373 CGCACACTTAGTGCTATATATTTTCAG-T
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
159455401 CGCACACTTAGTGCT-TATA-TTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
* * * * *
159455428 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAGCT
159455458 CGCACACTTAGTGC
1 CGCACACTTAGTGC
159455472 CAATCTTGTC
Statistics
Matches: 118, Mismatches: 5, Indels: 10
0.89 0.04 0.08
Matches are distributed among these distances:
26 6 0.05
27 20 0.17
28 37 0.31
29 10 0.08
30 45 0.38
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:159455405 original size:58 final size:55
Alignment explanation
Indices: 159455315--159455442 Score: 204
Period size: 58 Copynumber: 2.3 Consensus size: 55
159455305 ATAGTGAATC
159455315 CGCACACTTAGTGCTATATATTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTCAGCTCGCACACTTAGTGCT-TAT-A-TTTCAGCT
*
159455373 CGCACACTTAGTGCTATATATTTTCAG-TCGCACACTTAGTGCTTATATTTCAGTT
1 CGCACACTTAGTGCTATATA-TTTCAGCTCGCACACTTAGTGCTTATATTTCAGCT
159455428 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
159455443 GTACAATTTT
Statistics
Matches: 68, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
55 22 0.32
56 1 0.01
57 3 0.04
58 36 0.53
59 6 0.09
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (55 bp):
CGCACACTTAGTGCTATATATTTCAGCTCGCACACTTAGTGCTTATATTTCAGCT
Found at i:159455451 original size:85 final size:86
Alignment explanation
Indices: 159455315--159455471 Score: 253
Period size: 85 Copynumber: 1.8 Consensus size: 86
159455305 ATAGTGAATC
* * * *
159455315 CGCACACTTAGTGCTATATATTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCACAC
1 CGCACACTTAGTGCTATATATTTCAGCTCGCACACTTAGTGCTATACAATTTTAAACCCGCACAC
159455380 TTAGTGCTATATATTTTCAGT
66 TTAGTGCTATATATTTTCAGT
* *
159455401 CGCACACTTAGTGCT-TATATTTCAGTTCGCACACTTAGTGCTGTACAATTTTAAACCCGCACAC
1 CGCACACTTAGTGCTATATATTTCAGCTCGCACACTTAGTGCTATACAATTTTAAACCCGCACAC
159455465 TTAGTGC
66 TTAGTGC
159455472 CAATCTTGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
85 50 0.77
86 15 0.23
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (86 bp):
CGCACACTTAGTGCTATATATTTCAGCTCGCACACTTAGTGCTATACAATTTTAAACCCGCACAC
TTAGTGCTATATATTTTCAGT
Found at i:159463184 original size:29 final size:29
Alignment explanation
Indices: 159463152--159463283 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
159463142 ATAGTGAATC
159463152 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
159463181 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
159463211 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
159463240 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
159463269 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
159463284 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:159463293 original size:59 final size:59
Alignment explanation
Indices: 159463152--159463283 Score: 239
Period size: 59 Copynumber: 2.3 Consensus size: 59
159463142 ATAGTGAATC
159463152 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
* *
159463211 CGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
159463269 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
159463284 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 24 0.34
59 47 0.66
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:159465248 original size:17 final size:17
Alignment explanation
Indices: 159465226--159465260 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
159465216 ACATATGCTC
159465226 TCTTTTTCTCTCTTTTT
1 TCTTTTTCTCTCTTTTT
* *
159465243 TCTTTTTTTTTCTTTTT
1 TCTTTTTCTCTCTTTTT
159465260 T
1 T
159465261 TTTCACGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TCTTTTTCTCTCTTTTT
Found at i:159465261 original size:10 final size:10
Alignment explanation
Indices: 159465228--159465264 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
159465218 ATATGCTCTC
*
159465228 TTTTTCTCTCT
1 TTTTTCT-TTT
159465239 TTTTTCTTTT
1 TTTTTCTTTT
159465249 TTTTTCTTTT
1 TTTTTCTTTT
159465259 TTTTTC
1 TTTTTC
159465265 ACGAGCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:159476670 original size:42 final size:43
Alignment explanation
Indices: 159476623--159476766 Score: 132
Period size: 42 Copynumber: 3.4 Consensus size: 43
159476613 TCCTAAATAG
*
159476623 GGTCTTACACG-AAATTAGATATGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAAATTAGATATGATGCCAATGTCCCAGACAT
* * ** ** * *
159476665 AGTCTTATACGTAAATTTCA-ATCGCGGCCTATGTCCCAGACAC
1 GGTCTTACACGTAAATTAGATAT-GATGCCAATGTCCCAGACAT
* * * *
159476708 GGTCTTACATG-AAATCAGATACGATGCCAATGTCCCAAACAT
1 GGTCTTACACGTAAATTAGATATGATGCCAATGTCCCAGACAT
*
159476750 GGTCTTATACGTAAATT
1 GGTCTTACACGTAAATT
159476767 TCAATAGAGG
Statistics
Matches: 75, Mismatches: 23, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
42 40 0.53
43 35 0.47
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAAATTAGATATGATGCCAATGTCCCAGACAT
Found at i:159476699 original size:43 final size:43
Alignment explanation
Indices: 159476652--159476799 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 43
159476642 TATGATGCCG
* *
159476652 ATGTCCCAGACATAGTCTTATACGTAAATTTCAATCGCGGCCT
1 ATGTCCCAGACATGGTCTTATACGTAAATTTCAATCGAGGCCT
* * * * *
159476695 ATGTCCCAGACACGGTCTTACATG-AAA--TCAGATACGATGCCA
1 ATGTCCCAGACATGGTCTTATACGTAAATTTCA-AT-CGAGGCCT
* *
159476737 ATGTCCCAAACATGGTCTTATACGTAAATTTCAATAGAGGCCT
1 ATGTCCCAGACATGGTCTTATACGTAAATTTCAATCGAGGCCT
* * *
159476780 GTGTCTCAGACACGGTCTTA
1 ATGTCCCAGACATGGTCTTA
159476800 CACAAAATCA
Statistics
Matches: 82, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
40 3 0.04
41 2 0.02
42 28 0.34
43 44 0.54
44 2 0.02
45 3 0.04
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (43 bp):
ATGTCCCAGACATGGTCTTATACGTAAATTTCAATCGAGGCCT
Found at i:159476728 original size:85 final size:85
Alignment explanation
Indices: 159476623--159476822 Score: 292
Period size: 85 Copynumber: 2.4 Consensus size: 85
159476613 TCCTAAATAG
* * * * *
159476623 GGTCTTACACGAAATTAGATATGATGCCGATGTCCCAGACATAGTCTTATACGTAAATTTCAATC
1 GGTCTTACACGAAATCAGATACGATGCCAATGTCCCAAACATAGTCTTATACGTAAATTTCAATA
*
159476688 GCGGCCTATGTCCCAGACAC
66 GAGGCCTATGTCCCAGACAC
* *
159476708 GGTCTTACATGAAATCAGATACGATGCCAATGTCCCAAACATGGTCTTATACGTAAATTTCAATA
1 GGTCTTACACGAAATCAGATACGATGCCAATGTCCCAAACATAGTCTTATACGTAAATTTCAATA
* *
159476773 GAGGCCTGTGTCTCAGACAC
66 GAGGCCTATGTCCCAGACAC
* *
159476793 GGTCTTACACAAAATCAAATACGATGCCAA
1 GGTCTTACACGAAATCAGATACGATGCCAA
159476823 CTTTTCTTAG
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 102 1.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (85 bp):
GGTCTTACACGAAATCAGATACGATGCCAATGTCCCAAACATAGTCTTATACGTAAATTTCAATA
GAGGCCTATGTCCCAGACAC
Found at i:159483671 original size:39 final size:40
Alignment explanation
Indices: 159483549--159483712 Score: 217
Period size: 40 Copynumber: 4.2 Consensus size: 40
159483539 GGACTAAGAT
* *
159483549 CCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
* * * *
159483589 CCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGAC
1 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTC
*
159483629 CCGAAGGCATTTGTGCGAGTTGCTAT-TCCGGGCTAAGGC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
* *
159483668 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
159483707 CCGAAG
1 CCGAAG
159483713 ATACTTGGAT
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
39 52 0.48
40 54 0.50
41 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
Found at i:159487772 original size:40 final size:40
Alignment explanation
Indices: 159487727--159487856 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
159487717 CGGAATATAA
159487727 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
159487767 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
159487807 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
159487847 CCGGATATAA
1 CCGGATATAA
159487857 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:159487871 original size:40 final size:39
Alignment explanation
Indices: 159487743--159487893 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
159487733 ATAACCATGT
* * *
159487743 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
159487783 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
159487823 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
159487862 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
159487894 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:159487877 original size:80 final size:79
Alignment explanation
Indices: 159487727--159487893 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
159487717 CGGAATATAA
*
159487727 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
159487792 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
159487807 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
159487869 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
159487886 CCGGATAT
1 CCGGATAT
159487894 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:159495737 original size:40 final size:40
Alignment explanation
Indices: 159495692--159495780 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
159495682 CGGAATATAA
*
159495692 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-CGCACAAATGCCTTCGGGTCTTAGC
* ** *
159495732 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTCGCACAAATGCCTTCGGGTCTTAGC
159495772 CCGGATATA
1 CCGGATATA
159495781 GCCAGCACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 41 0.98
41 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:159495803 original size:13 final size:13
Alignment explanation
Indices: 159495785--159495810 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
159495775 GATATAGCCA
159495785 GCACAATTGCCTT
1 GCACAATTGCCTT
159495798 GCACAATTGCCTT
1 GCACAATTGCCTT
159495811 CGGGTCTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (13 bp):
GCACAATTGCCTT
Found at i:159500647 original size:40 final size:40
Alignment explanation
Indices: 159500541--159500724 Score: 140
Period size: 40 Copynumber: 4.6 Consensus size: 40
159500531 TGCTGGAAAT
* * * * * **
159500541 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
159500581 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
159500621 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * *
159500659 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGC-AGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTCAC
* * *
159500700 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
159500725 GTTTGAACGA
Statistics
Matches: 116, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
38 1 0.01
39 30 0.26
40 85 0.73
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:159505811 original size:39 final size:39
Alignment explanation
Indices: 159505767--159506041 Score: 444
Period size: 39 Copynumber: 7.1 Consensus size: 39
159505757 ATTATATTAT
* *
159505767 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
159505806 CAGCACGAAGCCTGCGGGACTTTGGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
159505845 CAGCATGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
159505884 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATAAATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
159505923 CAGCAC-AAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
159505961 TAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
159506000 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
159506039 CAG
1 CAG
159506042 TGTCTTGCAT
Statistics
Matches: 219, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
38 35 0.16
39 184 0.84
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:159505989 original size:116 final size:117
Alignment explanation
Indices: 159505759--159506041 Score: 462
Period size: 116 Copynumber: 2.4 Consensus size: 117
159505749 AACCCGAAAT
* *
159505759 TATATTAT-CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGG
1 TATATT-TCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGG
* * *
159505823 GACTTTGGTCCGGATACATTTCCAGCATGAAGCCTGCGGGACTTTGGCCCGGA
65 GACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
*
159505876 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATAAATTTCCAGCAC-AAGCCTGCGGG
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGG
* *
159505940 ACTTTGGCCCGGATATATTTCTAGCACGAAGCCTGCGGGACTTTAGCCCGGA
66 ACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
*
159505992 TACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
1 TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
159506042 TGTCTTGCAT
Statistics
Matches: 155, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
116 107 0.69
117 48 0.31
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (117 bp):
TATATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGG
ACTTTGGCCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGA
Found at i:159510451 original size:15 final size:15
Alignment explanation
Indices: 159510428--159510458 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
159510418 TCAAAAATTC
159510428 CAATACAAAACATAT
1 CAATACAAAACATAT
*
159510443 CAATCCAAAACATAT
1 CAATACAAAACATAT
159510458 C
1 C
159510459 TTTCATATTT
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:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:159518711 original size:42 final size:42
Alignment explanation
Indices: 159518664--159518747 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
159518654 CAGGATCCAT
159518664 TACTATATTAAAATAAAACACAGTTTAGAATAATCAGGAATC
1 TACTATATTAAAATAAAACACAGTTTAGAATAATCAGGAATC
159518706 TACTATATTAAAATAAAACACAGTTTAGAATAATCAGGAATC
1 TACTATATTAAAATAAAACACAGTTTAGAATAATCAGGAATC
159518748 ACCACACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.29
Consensus pattern (42 bp):
TACTATATTAAAATAAAACACAGTTTAGAATAATCAGGAATC
Found at i:159523665 original size:27 final size:28
Alignment explanation
Indices: 159523635--159523734 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
159523625 ATAGTGAGTC
159523635 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
159523662 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
159523690 CGCACACTTAGTGCTGTACAAATTTAAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
159523721 CGCACACTTAGTGC
1 CGCACACTTAGTGC
159523735 AATCTCATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
31 19 0.31
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:159524586 original size:7 final size:7
Alignment explanation
Indices: 159524576--159524600 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
159524566 TCATCACCAC
159524576 AACATCA
1 AACATCA
159524583 AACATCA
1 AACATCA
159524590 AACATCA
1 AACATCA
159524597 AACA
1 AACA
159524601 AGAAGACAAC
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:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
AACATCA
Found at i:159534072 original size:25 final size:25
Alignment explanation
Indices: 159534043--159534090 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
159534033 TTATAATATG
* * *
159534043 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
159534068 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
159534091 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:159534159 original size:20 final size:20
Alignment explanation
Indices: 159534134--159534192 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
159534124 TAAATATGGT
159534134 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
159534154 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
159534174 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
159534193 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:159534312 original size:47 final size:48
Alignment explanation
Indices: 159534243--159534361 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
159534233 GAGGAAGTGA
159534243 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
159534290 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
159534338 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
159534362 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:159534337 original size:24 final size:24
Alignment explanation
Indices: 159534243--159534361 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
159534233 GAGGAAGTGA
*
159534243 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
159534267 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
159534290 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
159534314 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
159534338 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
159534362 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:159534588 original size:31 final size:31
Alignment explanation
Indices: 159534553--159534654 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 31
159534543 CGTTTACAGT
159534553 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
159534584 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
*
159534622 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
159534653 AA
1 AA
159534655 TATGAAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
31 30 0.49
33 1 0.02
36 1 0.02
38 29 0.48
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:159534622 original size:38 final size:38
Alignment explanation
Indices: 159534570--159534677 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
159534560 TCGGCCCAGT
159534570 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
159534608 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
159534646 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
159534678 GCATGATTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 53 0.80
39 13 0.20
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:159542376 original size:25 final size:25
Alignment explanation
Indices: 159542347--159542394 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
159542337 TTATAATATG
* * *
159542347 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
159542372 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
159542395 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:159542463 original size:20 final size:20
Alignment explanation
Indices: 159542438--159542496 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
159542428 TAAATATGGT
159542438 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
159542458 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
159542478 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
159542497 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:159542576 original size:22 final size:22
Alignment explanation
Indices: 159542548--159542591 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
159542538 AGGAAGTGAA
159542548 AAAGGGCTTATGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTAT
159542570 AAAGGGCTTATGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTAT
159542592 TTGAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (22 bp):
AAAGGGCTTATGCCCCAGTTAT
Found at i:159542626 original size:28 final size:28
Alignment explanation
Indices: 159542548--159542626 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
159542538 AGGAAGTGAA
159542548 AAAGGGCTTATGCCCCAGTTA-T-----
1 AAAGGGCTTATGCCCCAGTTATTAAAAG
**
159542570 AAAGGGCTTATGCCCCAGTTATTTGAAG
1 AAAGGGCTTATGCCCCAGTTATTAAAAG
159542598 AAAGGGCTT-TGGCCCCAGTTATTAAAAG
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAG
159542626 A
1 A
159542627 GGCTAGGCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
22 21 0.44
23 1 0.02
27 1 0.02
28 25 0.52
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (28 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAG
Found at i:159542892 original size:31 final size:31
Alignment explanation
Indices: 159542836--159542936 Score: 132
Period size: 38 Copynumber: 3.1 Consensus size: 31
159542826 CGTTTACAGT
159542836 AAAGGCTTCGGCCCAGTA-TATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGA
159542866 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATG-AA-AT-----ATGA
159542904 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGA
159542935 AA
1 AA
159542937 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 0, Indels: 15
0.81 0.00 0.19
Matches are distributed among these distances:
30 18 0.29
31 10 0.16
32 2 0.03
33 2 0.03
36 2 0.03
37 2 0.03
38 27 0.43
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGA
Found at i:159542904 original size:38 final size:38
Alignment explanation
Indices: 159542853--159542959 Score: 187
Period size: 38 Copynumber: 2.8 Consensus size: 38
159542843 TCGGCCCAGT
159542853 ATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAA
1 ATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAA
*
159542891 ATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAA
1 ATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAA
*
159542929 ATATGAAATATGAAAAGGGCTACGGCCCAGT
1 ATATGAAATATGAAAA-GGCTTCGGCCCAGT
159542960 GCATGATTGA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 52 0.80
39 13 0.20
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
ATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAA
Found at i:159549090 original size:40 final size:39
Alignment explanation
Indices: 159549045--159549252 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
159549035 CGGAATACAA
*
159549045 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
159549085 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
159549125 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
159549165 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
159549205 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
159549245 CCGGATAT
1 CCGGATAT
159549253 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:159549185 original size:80 final size:80
Alignment explanation
Indices: 159549045--159549251 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
159549035 CGGAATACAA
* * *
159549045 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
159549109 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
159549125 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
159549189 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
159549205 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
159549252 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:159557004 original size:40 final size:39
Alignment explanation
Indices: 159556959--159557163 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
159556949 CGGAATACAA
*
159556959 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
159556999 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
159557039 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
159557079 CCGGATGT-AGCACTAGCAC-AATGCCTTCGGGTCTCAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
159557117 CC-GATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
159557156 CCGGATAT
1 CCGGATAT
159557164 CATTCAATTG
Statistics
Matches: 138, Mismatches: 23, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
37 4 0.03
38 28 0.20
39 24 0.17
40 82 0.59
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:159559056 original size:24 final size:24
Alignment explanation
Indices: 159559019--159559099 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
159559009 CTAGAGGCCT
* *
159559019 AGCCTCTTTGAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
159559044 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
159559068 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
159559091 AGCCCTTTT
1 AGCCCTTTT
159559100 TCACTTCCTC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
23 23 0.43
24 26 0.49
25 4 0.08
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:159559080 original size:23 final size:23
Alignment explanation
Indices: 159559019--159559098 Score: 124
Period size: 23 Copynumber: 3.3 Consensus size: 23
159559009 CTAGAGGCCT
*
159559019 AGCCTCTTTGAATAACTGGGGCAAA
1 AGCC-CTTT-AATAACTGGGGCATA
159559044 AGCCCTTTTAATAACTGGGGCATA
1 AGCCC-TTTAATAACTGGGGCATA
159559068 AGCCCTTTAATAACTGGGGCATA
1 AGCCCTTTAATAACTGGGGCATA
159559091 AGCCCTTT
1 AGCCCTTT
159559099 TTCACTTCCT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
23 26 0.49
24 20 0.38
25 7 0.13
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AGCCCTTTAATAACTGGGGCATA
Found at i:159559216 original size:20 final size:20
Alignment explanation
Indices: 159559149--159559215 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
159559139 TTATGATTAC
159559149 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
159559169 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
159559189 GTCATGTTCATATCATACAT
1 ATCATGTGCATATCATACAT
*
159559209 ACCATGT
1 ATCATGT
159559216 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:159566866 original size:31 final size:31
Alignment explanation
Indices: 159566828--159566891 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
159566818 CCATTTCATA
159566828 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
** *
159566859 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
159566890 TT
1 TT
159566892 ACTATAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:159573165 original size:19 final size:19
Alignment explanation
Indices: 159573128--159573165 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
159573118 TTTAAAAGGT
*
159573128 TAAAAGTGTAATAAGTAAA
1 TAAAAGTGTAATAAATAAA
159573147 TAAAAGT-TAATATAATAAA
1 TAAAAGTGTAATA-AATAAA
159573166 AACAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (19 bp):
TAAAAGTGTAATAAATAAA
Found at i:159573949 original size:41 final size:41
Alignment explanation
Indices: 159573904--159574074 Score: 198
Period size: 41 Copynumber: 4.2 Consensus size: 41
159573894 TTTGTGATTA
* * *
159573904 CCTGTTTGTACTTTGGTACCCCTGAATCGCACATACATGCC
1 CCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCC
** *
159573945 CCTGTTTGTACTTTAGTACCCCTGAATTGCACATACTTGCC
1 CCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCC
* * * * * *
159573986 CTTGTTTGTACTTCGGTATCCCTAAATTGCATATATGTACC
1 CCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCC
* * * *
159574027 CCTGTTTGTACTTCGATACCTCTGAATTGCATATATGTGCC
1 CCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCC
159574068 CCTGTTT
1 CCTGTTT
159574075 ACACTCAGAT
Statistics
Matches: 112, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.38
Consensus pattern (41 bp):
CCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCC
Found at i:159576329 original size:8 final size:8
Alignment explanation
Indices: 159576316--159576348 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
159576306 TGCAAGTTAA
159576316 TATTATTT
1 TATTATTT
159576324 TATTATTT
1 TATTATTT
159576332 TATTA-TT
1 TATTATTT
*
159576339 TATTAATT
1 TATTATTT
159576347 TA
1 TA
159576349 CTTTTTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TATTATTT
Found at i:159580235 original size:40 final size:40
Alignment explanation
Indices: 159580109--159580237 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
159580099 ATGCTGGAAA
* * *
159580109 TTATATCCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * * **
159580148 CTACATCCAGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
159580188 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
159580228 TTATATCCGG
1 TTATATCCGG
159580238 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
39 14 0.20
40 57 0.80
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:159588767 original size:28 final size:28
Alignment explanation
Indices: 159588702--159588802 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
159588692 ATAGTGAATC
*
159588702 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
159588731 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
159588759 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
159588789 CGCACACTTAGTGC
1 CGCACACTTAGTGC
159588803 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:159592640 original size:41 final size:41
Alignment explanation
Indices: 159592595--159592712 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
159592585 TGAAAGATAA
159592595 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
159592636 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
159592666 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
159592707 ATGTAG
1 ATGTAG
159592713 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:159592651 original size:71 final size:71
Alignment explanation
Indices: 159592563--159592726 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
159592553 GAGATGTATC
159592563 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
159592628 AGGACA
66 AGGACA
159592634 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
159592699 AGGACA
66 AGGACA
159592705 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
159592727 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:159600215 original size:41 final size:41
Alignment explanation
Indices: 159600170--159600287 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
159600160 TGAAAGATAA
159600170 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
159600211 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
159600241 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
159600282 ATGTAG
1 ATGTAG
159600288 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:159600226 original size:71 final size:71
Alignment explanation
Indices: 159600138--159600301 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
159600128 GAGATGTATC
159600138 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
159600203 AGGACA
66 AGGACA
159600209 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
159600274 AGGACA
66 AGGACA
159600280 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
159600302 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:159607196 original size:40 final size:40
Alignment explanation
Indices: 159607147--159607394 Score: 142
Period size: 40 Copynumber: 6.2 Consensus size: 40
159607137 TCGAATTTAA
* * *
159607147 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACA-TAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGA-ATTAGC
* * *
159607187 CCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* * ** * * * *
159607227 CCGTATTTAGTAACTCACACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* * * ** * * *
159607267 CCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
* * * ** *
159607307 CCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATT-GAC
1 CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAG-C
* * ** *
159607347 CCGGATTTAGTC-ACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAG-CGAC-TCGCACAATTGCCTTCGGGAATTAGC
159607388 CCGGATA
1 CCGGATA
159607395 CCATTCGAAT
Statistics
Matches: 175, Mismatches: 28, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 146 0.83
41 27 0.15
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAGCGACTCGCACAATTGCCTTCGGGAATTAGC
Found at i:159607285 original size:80 final size:79
Alignment explanation
Indices: 159607173--159607390 Score: 256
Period size: 80 Copynumber: 2.7 Consensus size: 79
159607163 GCTCGATTGT
* * * * * * *
159607173 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATTAGCCCGTATTTAGT
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGT-TTTAGT
159607238 AACTCACACAAATGC
65 AACTCACACAAATGC
* * *
159607253 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC-GTTTTAGT
*
159607318 AACTCGCACAAATGC
65 AACTCACACAAATGC
* * * * * *
159607333 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCG
1 CTTCGGGACTTAACCCGGTTTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
159607391 GATACCATTC
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
80 90 0.77
81 27 0.23
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGTTTTAGTA
ACTCACACAAATGC
Found at i:159609281 original size:40 final size:40
Alignment explanation
Indices: 159609236--159609347 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 40
159609226 ATTATGTTCG
**
159609236 GCACTAAGTGTGCAATTTGAAATAGCTTCGTTTATAAATA
1 GCACTAAGTGTGCAATTTGAAATAGCTTCGGCTATAAATA
* ** *
159609276 GCACTAAGTGTGCGAATTAG-AATAGCTTCGGCTATATGTG
1 GCACTAAGTGTGC-AATTTGAAATAGCTTCGGCTATAAATA
* * *
159609316 GCACTAAGTGTGAAATATTGAGATAGTTTCGG
1 GCACTAAGTGTGCAAT-TTGAAATAGCTTCGG
159609348 TTCAATATGA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
39 3 0.05
40 42 0.71
41 14 0.24
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.32
Consensus pattern (40 bp):
GCACTAAGTGTGCAATTTGAAATAGCTTCGGCTATAAATA
Found at i:159609378 original size:44 final size:41
Alignment explanation
Indices: 159609277--159609391 Score: 101
Period size: 44 Copynumber: 2.8 Consensus size: 41
159609267 TTATAAATAG
* *
159609277 CACTAAGTGTGCGA-ATTAGAATAGCTTCGGCTATATGTGG
1 CACTAAGTGTGCGATATTAGAATAGCTTCGGCAATATGTGA
** *
159609317 CACTAAGTGTGAAATATT-GAGATAGTTTCGGTTCAATATGATGA
1 CACTAAGTGTGCGATATTAGA-ATAGCTTCGG--CAATATG-TGA
* **
159609361 CATTAAGTGTGCGATATT-TTATAGCTTCGGC
1 CACTAAGTGTGCGATATTAGAATAGCTTCGGC
159609392 TAGATTATTG
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
40 14 0.24
41 13 0.22
43 15 0.25
44 17 0.29
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (41 bp):
CACTAAGTGTGCGATATTAGAATAGCTTCGGCAATATGTGA
Found at i:159613577 original size:5 final size:5
Alignment explanation
Indices: 159613567--159613692 Score: 109
Period size: 5 Copynumber: 25.4 Consensus size: 5
159613557 GGTTGTTACT
* * *
159613567 ATATG ATATG ATATG ATATG ATATG ATATG TTAGG ATATG ATATA ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
* * ***
159613617 ATATG AT-TCA ATATG ATATG ATAT- AGTGTG ATATG -TCCA ATATG AT-TCG
1 ATATG ATAT-G ATATG ATATG ATATG A-TATG ATATG ATATG ATATG ATAT-G
159613666 ATATG ATATG ATAT- AGTATG ATATG AT
1 ATATG ATATG ATATG A-TATG ATATG AT
159613693 CCGATACGTT
Statistics
Matches: 96, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
4 5 0.05
5 87 0.91
6 4 0.04
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:159615554 original size:20 final size:20
Alignment explanation
Indices: 159615525--159615614 Score: 53
Period size: 20 Copynumber: 4.5 Consensus size: 20
159615515 AGCTGTGCCC
*
159615525 CTATTCGCACTTCGGTGTCT
1 CTATTTGCACTTCGGTGTCT
* *
159615545 CTATTTGCACGTCTGTG-CT
1 CTATTTGCACTTCGGTGTCT
* *
159615564 CCTGTTCGCAC-TCTGGTGTC-
1 -CTATTTGCACTTC-GGTGTCT
* *
159615584 CT-TGTATACACTTTGGTGTCT
1 CTAT-T-TGCACTTCGGTGTCT
159615605 CTATTTGCAC
1 CTATTTGCAC
159615615 ATTTATGCTC
Statistics
Matches: 52, Mismatches: 10, Indels: 16
0.67 0.13 0.21
Matches are distributed among these distances:
18 1 0.02
19 7 0.13
20 38 0.73
21 5 0.10
22 1 0.02
ACGTcount: A:0.11, C:0.28, G:0.20, T:0.41
Consensus pattern (20 bp):
CTATTTGCACTTCGGTGTCT
Found at i:159615585 original size:19 final size:19
Alignment explanation
Indices: 159615524--159615585 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
159615514 TAGCTGTGCC
159615524 CCTATTCGCACT-TCGGTGT
1 CCTATTCGCACTCT-GGTGT
*
159615543 CTCTATTTGCACGTCT-GTGCT
1 C-CTATTCGCAC-TCTGGTG-T
*
159615564 CCTGTTCGCACTCTGGTGT
1 CCTATTCGCACTCTGGTGT
159615583 CCT
1 CCT
159615586 TGTATACACT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
19 8 0.23
20 23 0.66
21 3 0.09
22 1 0.03
ACGTcount: A:0.08, C:0.32, G:0.21, T:0.39
Consensus pattern (19 bp):
CCTATTCGCACTCTGGTGT
Found at i:159615605 original size:60 final size:60
Alignment explanation
Indices: 159615532--159615707 Score: 217
Period size: 60 Copynumber: 2.9 Consensus size: 60
159615522 CCCCTATTCG
* * * * *
159615532 CACTTCGGTGTCTCTATTTGCACGTCTGTGCTCCTGTTCGCACTCTGGTGTCCTTGTATA
1 CACTTTGGTGTCTCTATTTGCACATTTGTGCTCCTGTTCGCACTCTGGTGCCCCTGTATA
* * * *
159615592 CACTTTGGTGTCTCTATTTGCACATTTATGCTCCTATTCACACTCTAGTGCCCCTGTATA
1 CACTTTGGTGTCTCTATTTGCACATTTGTGCTCCTGTTCGCACTCTGGTGCCCCTGTATA
* * * * * *
159615652 CACTTTGGTGTCCCTGTTTGCACATTTGTTCCCCTGTTGGCACTTTGGTGCCCCTG
1 CACTTTGGTGTCTCTATTTGCACATTTGTGCTCCTGTTCGCACTCTGGTGCCCCTG
159615708 ACTGTATGTA
Statistics
Matches: 97, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 97 1.00
ACGTcount: A:0.12, C:0.29, G:0.19, T:0.40
Consensus pattern (60 bp):
CACTTTGGTGTCTCTATTTGCACATTTGTGCTCCTGTTCGCACTCTGGTGCCCCTGTATA
Found at i:159615705 original size:20 final size:19
Alignment explanation
Indices: 159615639--159615707 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
159615629 TCACACTCTA
*
159615639 GTGCCCCTGTATACACTTTG
1 GTGCCCCTGT-TGCACTTTG
*
159615659 GTGTCCCTGTTTGCACATTT-
1 GTGCCCCTG-TTGCAC-TTTG
*
159615679 GTTCCCCTGTTGGCACTTTG
1 GTGCCCCTGTT-GCACTTTG
159615699 GTGCCCCTG
1 GTGCCCCTG
159615708 ACTGTATGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
19 5 0.12
20 31 0.77
21 4 0.10
ACGTcount: A:0.09, C:0.30, G:0.23, T:0.38
Consensus pattern (19 bp):
GTGCCCCTGTTGCACTTTG
Found at i:159619852 original size:21 final size:22
Alignment explanation
Indices: 159619826--159619866 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
159619816 TAGAATAATT
159619826 ACTAAA-CACATCATTTTGTAA
1 ACTAAAGCACATCATTTTGTAA
*
159619847 ACTAAAGCACATTATTTTGT
1 ACTAAAGCACATCATTTTGT
159619867 TAATCCTTTC
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:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (22 bp):
ACTAAAGCACATCATTTTGTAA
Found at i:159621388 original size:44 final size:44
Alignment explanation
Indices: 159621282--159621393 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
159621272 CGTACAACGA
*** * *
159621282 CAACGTCCCAGACGTGGTCTTACA-TGTAATCACATATCGATGC
1 CAACGTCCCAGACGTGGTCTTACACAAAAATCACAAATCGACGC
*
159621325 C-ACTGTCCCAGACAG-GGTCTTACACAAAAATTACAAATCGACGC
1 CAAC-GTCCCAGAC-GTGGTCTTACACAAAAATCACAAATCGACGC
*
159621369 CAACGTCCTAGACGTGGTCTTACAC
1 CAACGTCCCAGACGTGGTCTTACAC
159621394 GAATCACATA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
42 2 0.04
43 20 0.35
44 33 0.58
45 2 0.04
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (44 bp):
CAACGTCCCAGACGTGGTCTTACACAAAAATCACAAATCGACGC
Found at i:159627444 original size:40 final size:40
Alignment explanation
Indices: 159627378--159627544 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
159627368 AAATTGAATG
* * *
159627378 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
159627417 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
159627457 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
159627497 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
159627537 ATATCCGG
1 ATATCCGG
159627545 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:159635446 original size:40 final size:40
Alignment explanation
Indices: 159635380--159635546 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
159635370 AAATTGAATG
* * *
159635380 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
159635419 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
159635459 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
159635499 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
159635539 ATATCCGG
1 ATATCCGG
159635547 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:159642998 original size:40 final size:40
Alignment explanation
Indices: 159642953--159643120 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
159642943 CGGAATATAA
159642953 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
159642993 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
159643033 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
159643073 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
159643113 CCGGATAT
1 CCGGATAT
159643121 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:159646761 original size:40 final size:40
Alignment explanation
Indices: 159646703--159646987 Score: 282
Period size: 40 Copynumber: 7.2 Consensus size: 40
159646693 TTCGGAATTT
* * * * *
159646703 ACCCGGATATAGCT-ACTCGTTCAAACGCCTTTGGGACATA
1 ACCCGGATTTAG-TAACTCGCTCAAATGCCTTCGGGACTTA
*
159646743 GCCCGG-TTATAGTAACTCGCAT-AAATGCCTTCGGGACTTA
1 ACCCGGATT-TAGTAACTCGC-TCAAATGCCTTCGGGACTTA
*
159646783 ACCCGGATTTAGTAACTCG-TATAAATGCCTTCGGGACTTA
1 ACCCGGATTTAGTAACTCGCT-CAAATGCCTTCGGGACTTA
*
159646823 ACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTA
1 ACCCGGATTTAGTAACTCGCTCAAATGCCTTCGGGACTTA
*
159646863 ACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTA
1 ACCCGGATTTAGTAACTCGCTCAAATGCCTTCGGGACTTA
* *
159646902 GCCCGGGA-TTAGTAACTCGCACAAATGCCTTC-GGATCTTA
1 ACCC-GGATTTAGTAACTCGCTCAAATGCCTTCGGGA-CTTA
** * * * *
159646942 GTCCGGATATAGTCACTTAGCACAAA-GCCTTC-GGACTTA
1 ACCCGGATTTAGTAAC-TCGCTCAAATGCCTTCGGGACTTA
*
159646981 GCCCGGA
1 ACCCGGA
159646988 CATCATTCGA
Statistics
Matches: 218, Mismatches: 15, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
38 3 0.01
39 46 0.21
40 158 0.72
41 11 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
ACCCGGATTTAGTAACTCGCTCAAATGCCTTCGGGACTTA
Found at i:159646836 original size:80 final size:80
Alignment explanation
Indices: 159646703--159646987 Score: 325
Period size: 80 Copynumber: 3.6 Consensus size: 80
159646693 TTCGGAATTT
* * * * *
159646703 ACCCGGATATAGCT-ACTCGT-TCAAACGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCAT
1 ACCCGGATTTAG-TAACTCGTAT-AAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC
159646765 AAATGCCTTCGGGACTTA
63 AAATGCCTTCGGGACTTA
*
159646783 ACCCGGATTTAGTAACTCGTATAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAA
1 ACCCGGATTTAGTAACTCGTATAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
159646848 TGCCTTCGGGACTTA
66 TGCCTTCGGGACTTA
* *
159646863 ACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGGA-TTAGTAACTCGCACAA
1 ACCCGGATTTAGTAACTCGTATAAATGCCTTCGGGACTTAGCCC-GGATTTAGTAACTCGCACAA
159646926 ATGCCTTC-GGATCTTA
65 ATGCCTTCGGGA-CTTA
** * * * * *
159646942 GTCCGGATATAGTCACTTAGCACAAA-GCCTTC-GGACTTAGCCCGGA
1 ACCCGGATTTAGTAAC-TCGTATAAATGCCTTCGGGACTTAGCCCGGA
159646988 CATCATTCGA
Statistics
Matches: 184, Mismatches: 14, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
78 8 0.04
79 62 0.34
80 111 0.60
81 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
ACCCGGATTTAGTAACTCGTATAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
TGCCTTCGGGACTTA
Found at i:159649993 original size:244 final size:244
Alignment explanation
Indices: 159649644--159650132 Score: 951
Period size: 244 Copynumber: 2.0 Consensus size: 244
159649634 GCATCAATAC
159649644 GCAACCTAACCCAAGTAGGGAGGCGTCACTATAGATGACAAACTCTTTGCCTGATTCGGGCTACA
1 GCAACCTAACCCAAGTAGGGAGGCGTCACTATAGATGACAAACTCTTTGCCTGATTCGGGCTACA
159649709 CTAAGATTGGAGCTTCAGTCAAATAAGTTTTCAGTTGATCAAAACTTTTCTGACATTTTTCCGTC
66 CTAAGATTGGAGCTTCAGTCAAATAAGTTTTCAGTTGATCAAAACTTTTCTGACATTTTTCCGTC
159649774 CATTCGAACTTAACATCTTTTTGAAGTAGCTTCGTCATGGGTGTGGCTATCATCGAGAAACCTTT
131 CATTCGAACTTAACATCTTTTTGAAGTAGCTTCGTCATGGGTGTGGCTATCATCGAGAAACCTTT
*
159649839 TACAAACCGTCGGTAGTAACTGGCAAGTCCCAAAAAGCTCCGAACCTCA
196 TACAAACCGTCGGTAGTAACCGGCAAGTCCCAAAAAGCTCCGAACCTCA
*
159649888 GCAACCTAACCCAAGTAGGGAGGCGTCACTATAGATGACAAACTCTTTGCCTGATTCGGGCTGCA
1 GCAACCTAACCCAAGTAGGGAGGCGTCACTATAGATGACAAACTCTTTGCCTGATTCGGGCTACA
159649953 CTAAGATTGGAGCTTCAGTCAAATAAGTTTTCAGTTGATCAAAACTTTTCTGACATTTTTCCGTC
66 CTAAGATTGGAGCTTCAGTCAAATAAGTTTTCAGTTGATCAAAACTTTTCTGACATTTTTCCGTC
159650018 CATTCGAACTTAACATCTTTTTGAAGTAGCTTCGTCATGGGTGTGGCTATCATCGAGAAACCTTT
131 CATTCGAACTTAACATCTTTTTGAAGTAGCTTCGTCATGGGTGTGGCTATCATCGAGAAACCTTT
*
159650083 TACAAACCGTCGGTAGTAACCGGCAAGTCCCAAAAAGCTTCGAACCTCA
196 TACAAACCGTCGGTAGTAACCGGCAAGTCCCAAAAAGCTCCGAACCTCA
159650132 G
1 G
159650133 TAATATTTCT
Statistics
Matches: 242, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
244 242 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (244 bp):
GCAACCTAACCCAAGTAGGGAGGCGTCACTATAGATGACAAACTCTTTGCCTGATTCGGGCTACA
CTAAGATTGGAGCTTCAGTCAAATAAGTTTTCAGTTGATCAAAACTTTTCTGACATTTTTCCGTC
CATTCGAACTTAACATCTTTTTGAAGTAGCTTCGTCATGGGTGTGGCTATCATCGAGAAACCTTT
TACAAACCGTCGGTAGTAACCGGCAAGTCCCAAAAAGCTCCGAACCTCA
Found at i:159655790 original size:47 final size:47
Alignment explanation
Indices: 159655710--159655867 Score: 167
Period size: 47 Copynumber: 3.4 Consensus size: 47
159655700 ATTGTCTAAG
* * * * *
159655710 CTTATGACACATTAAGTAGCTGTATTAACTAGAACACATTAAATAAA
1 CTTAAGACATATTAAATAGCTGTACTAATTAGAACACATTAAATAAA
* *
159655757 CTTAAGACATATTAAATGGCTGTACTAATTAGAACACATT-AATTAA
1 CTTAAGACATATTAAATAGCTGTACTAATTAGAACACATTAAATAAA
* * * * *
159655803 CTTAAGACATATTAATTA-CCGAATCTAATTAGAACATATTAAATAGA
1 CTTAAGACATATTAAATAGCTGTA-CTAATTAGAACACATTAAATAAA
* *
159655850 CTCAAGGCATATTAAATA
1 CTTAAGACATATTAAATA
159655868 CTTAAACTAA
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
45 3 0.03
46 36 0.39
47 53 0.58
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTAAGACATATTAAATAGCTGTACTAATTAGAACACATTAAATAAA
Found at i:159655831 original size:46 final size:45
Alignment explanation
Indices: 159655739--159655864 Score: 135
Period size: 46 Copynumber: 2.7 Consensus size: 45
159655729 CTGTATTAAC
* * * *
159655739 TAGAACACATTAAATAAACTTAAGACATATTAAATGGCTGTACTAAT
1 TAGAACACATT-AATTAACTTAAGACATATT-AATGACCGAACTAAT
*
159655786 TAGAACACATTAATTAACTTAAGACATATTAATTACCGAATCTAAT
1 TAGAACACATTAATTAACTTAAGACATATTAATGACCGAA-CTAAT
* * * *
159655832 TAGAACATATTAAATAGACTCAAGGCATATTAA
1 TAGAACACATTAATTA-ACTTAAGACATATTAA
159655865 ATACTTAAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 6 0.09
46 37 0.54
47 25 0.37
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (45 bp):
TAGAACACATTAATTAACTTAAGACATATTAATGACCGAACTAAT
Found at i:159658417 original size:28 final size:28
Alignment explanation
Indices: 159658329--159658418 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
159658319 CTACAAAGGT
*
159658329 TTCCTTATCCAAAGATTGCCAAAATGGC
1 TTCCTTATCCAAAGATTTCCAAAATGGC
* * *
159658357 TTCATTATCCAGAGATTT-CAACAAAGGC
1 TTCCTTATCCAAAGATTTCCAA-AATGGC
* *
159658385 TTCCTTATCTAAAGATTTCCATAATGGC
1 TTCCTTATCCAAAGATTTCCAAAATGGC
*
159658413 GTCCTT
1 TTCCTT
159658419 TTCATTAAGT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
27 3 0.06
28 45 0.90
29 2 0.04
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (28 bp):
TTCCTTATCCAAAGATTTCCAAAATGGC
Found at i:159658543 original size:57 final size:57
Alignment explanation
Indices: 159658476--159658638 Score: 173
Period size: 57 Copynumber: 2.9 Consensus size: 57
159658466 AAAGGCGTCA
* * * * * *
159658476 TTTAAGAGGTTCACCGCAAAGGCTTACCTTTCCAGATTTTTTCTACAAAAGCTATCC
1 TTTAACAGGTTCACCACAAAGGCTTGCCTTTCCAGAGTTTTGCAACAAAAGCTATCC
* * * * * *
159658533 TTTAATAGGTTCACCATAAAGGCTTGCCTTTCTAGAGTTTTGCAACAAAGGTTGTCC
1 TTTAACAGGTTCACCACAAAGGCTTGCCTTTCCAGAGTTTTGCAACAAAAGCTATCC
* * * * *
159658590 TTTAGCAGGTCCGCCACAAAGGCTTGCCTTTCCAAAGTTTTGCCACAAA
1 TTTAACAGGTTCACCACAAAGGCTTGCCTTTCCAGAGTTTTGCAACAAA
159658639 GGATTTTTTT
Statistics
Matches: 87, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
57 87 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (57 bp):
TTTAACAGGTTCACCACAAAGGCTTGCCTTTCCAGAGTTTTGCAACAAAAGCTATCC
Found at i:159658583 original size:29 final size:29
Alignment explanation
Indices: 159658550--159658640 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
159658540 GGTTCACCAT
*
159658550 AAAGGCTTGCCTTTCTAGAGTTTTGCAAC
1 AAAGGCTTGCCTTTCTAGAGTTTTGCCAC
* **
159658579 AAAGG-TTGTCC-TT-TAGCAGGTCCGCCAC
1 AAAGGCTTG-CCTTTCTAG-AGTTTTGCCAC
* *
159658607 AAAGGCTTGCCTTTCCAAAGTTTTGCCAC
1 AAAGGCTTGCCTTTCTAGAGTTTTGCCAC
159658636 AAAGG
1 AAAGG
159658641 ATTTTTTTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
27 3 0.06
28 19 0.40
29 25 0.52
30 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (29 bp):
AAAGGCTTGCCTTTCTAGAGTTTTGCCAC
Found at i:159663894 original size:15 final size:16
Alignment explanation
Indices: 159663869--159663898 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
159663859 GACATGTCAC
159663869 TATGCTGATTATGTGT
1 TATGCTGATTATGTGT
159663885 TATG-TGATTATGTG
1 TATGCTGATTATGTG
159663899 ATTTGAGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.03, G:0.27, T:0.50
Consensus pattern (16 bp):
TATGCTGATTATGTGT
Found at i:159663897 original size:8 final size:8
Alignment explanation
Indices: 159663869--159663901 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
159663859 GACATGTCAC
159663869 TATGCTGAT
1 TATG-TGAT
159663878 TATGTG-T
1 TATGTGAT
159663885 TATGTGAT
1 TATGTGAT
159663893 TATGTGAT
1 TATGTGAT
159663901 T
1 T
159663902 TGAGTGCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.30
8 12 0.52
9 4 0.17
ACGTcount: A:0.21, C:0.03, G:0.24, T:0.52
Consensus pattern (8 bp):
TATGTGAT
Found at i:159670216 original size:40 final size:40
Alignment explanation
Indices: 159670161--159670368 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
159670151 TGAATGATAC
* *
159670161 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATAT
*
159670201 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
159670241 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * *
159670281 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
* * * *
159670321 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
159670361 CC-GGCTAA
1 CCGGGCTAA
159670369 ATTCGAAGAA
Statistics
Matches: 152, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 5 0.03
40 145 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
Found at i:159673734 original size:40 final size:40
Alignment explanation
Indices: 159673628--159673799 Score: 141
Period size: 40 Copynumber: 4.3 Consensus size: 40
159673618 TGCTGGAAAT
* * * * * **
159673628 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
159673668 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
159673708 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
159673746 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
159673787 CATATCCGGGCTA
1 TATATCCGGGCTA
159673800 TGTCCCAAAG
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.28
40 75 0.71
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:159681521 original size:39 final size:39
Alignment explanation
Indices: 159681398--159681603 Score: 132
Period size: 39 Copynumber: 5.2 Consensus size: 39
159681388 TGCTGGAAAT
* * * * *
159681398 TATAACCGGGTTAAGACCCGAAGGCA-ATGTGCTAGTGG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTCG
* *
159681436 CTATATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTCAT
1 -TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTC-G
* *
159681476 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATCG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTCG
* * * * * *
159681514 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC-
1 T-ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-T-CG
* * * * ** *
159681555 CATATCCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAG
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTCG
159681594 CTATATCCGG
1 -TATATCCGG
159681604 TTAAGCTCCG
Statistics
Matches: 128, Mismatches: 30, Indels: 17
0.73 0.17 0.10
Matches are distributed among these distances:
38 10 0.08
39 66 0.52
40 50 0.39
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTCG
Found at i:159685452 original size:80 final size:80
Alignment explanation
Indices: 159685368--159685516 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
159685358 TATGGTAACC
* * * *
159685368 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
159685432 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
159685448 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
159685513 CCGG
66 CCGG
159685517 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:159685458 original size:40 final size:38
Alignment explanation
Indices: 159685409--159685516 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
159685399 ATCACGATTT
*
159685409 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
159685449 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
159685489 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
159685517 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:159693569 original size:80 final size:80
Alignment explanation
Indices: 159693485--159693633 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
159693475 TATGGTAACC
* * * *
159693485 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
159693549 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
159693565 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
159693630 CCGG
66 CCGG
159693634 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:159693575 original size:40 final size:38
Alignment explanation
Indices: 159693526--159693633 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
159693516 ATCACGATTT
*
159693526 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
159693566 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
159693606 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
159693634 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:159704376 original size:20 final size:20
Alignment explanation
Indices: 159704341--159704463 Score: 108
Period size: 20 Copynumber: 6.1 Consensus size: 20
159704331 GCATCATAGA
* *
159704341 TGCATAACAAGGGCACCGAAG
1 TGCA-AACAGGGGCACCAAAG
*
159704362 TGCAGACAGGGGCA-CAAATG
1 TGCAAACAGGGGCACCAAA-G
159704382 TGCAAACAGGGGCACCATAGAG
1 TGCAAACAGGGGCACCA-A-AG
*
159704404 TG--AACAGGGACACCAAAG
1 TGCAAACAGGGGCACCAAAG
* * *
159704422 TGTATACAGGGGCACCGAAG
1 TGCAAACAGGGGCACCAAAG
* *
159704442 TGCAAACAGAGGTACCAAAG
1 TGCAAACAGGGGCACCAAAG
159704462 TG
1 TG
159704464 AAAATCTCAT
Statistics
Matches: 83, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.05
19 4 0.05
20 64 0.77
21 6 0.07
22 4 0.05
23 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.31, T:0.11
Consensus pattern (20 bp):
TGCAAACAGGGGCACCAAAG
Found at i:159709993 original size:40 final size:39
Alignment explanation
Indices: 159709828--159710011 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
159709818 AAATTGAATG
* * *
159709828 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
159709868 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
159709908 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
159709948 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
159709987 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
159710012 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:159710036 original size:80 final size:81
Alignment explanation
Indices: 159709868--159710056 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
159709858 GCTGGAAATT
* * * *
159709868 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
159709933 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
159709949 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
159710012 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
159710028 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
159710057 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:159718101 original size:40 final size:39
Alignment explanation
Indices: 159717936--159718119 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
159717926 AAATTGAATG
* * *
159717936 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
159717976 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
159718016 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
159718056 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
159718095 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
159718120 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:159718144 original size:80 final size:81
Alignment explanation
Indices: 159717976--159718164 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
159717966 GCTGGAAATT
* * * *
159717976 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
159718041 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
159718057 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
159718120 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
159718136 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
159718165 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:159720869 original size:37 final size:37
Alignment explanation
Indices: 159720814--159720940 Score: 229
Period size: 37 Copynumber: 3.4 Consensus size: 37
159720804 TTATTACGAA
159720814 GTCTTACCC-GACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
159720850 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
159720887 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
159720924 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
159720941 TTTCCAAGTT
Statistics
Matches: 88, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
36 9 0.10
37 74 0.84
38 5 0.06
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:159721038 original size:48 final size:48
Alignment explanation
Indices: 159720980--159721131 Score: 277
Period size: 48 Copynumber: 3.2 Consensus size: 48
159720970 TGTTACAACA
*
159720980 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
159721028 TTCACATTAGCCATTCGGCTTTTCCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
159721076 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
159721124 TTCACATT
1 TTCACATT
159721132 CATCACATCG
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 100 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:159721180 original size:49 final size:49
Alignment explanation
Indices: 159721123--159721407 Score: 470
Period size: 49 Copynumber: 5.9 Consensus size: 49
159721113 CACACATATA
*
159721123 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
159721172 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
159721219 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
159721266 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
159721315 TTTCACGTTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
159721364 TTTCACATTCATCACATTGGCCATTAGGCCATATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
159721408 CATCTCATAC
Statistics
Matches: 224, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 91 0.41
49 133 0.59
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:159721223 original size:96 final size:96
Alignment explanation
Indices: 159721123--159721409 Score: 479
Period size: 96 Copynumber: 3.0 Consensus size: 96
159721113 CACACATATA
* *
159721123 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
159721188 TCGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACAC
*
159721219 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTCTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
159721282 TTGGCCATTAGGCCTTATCACATGTATATACAC
66 TTGGCCATTAGGCCTTATCACA--TATATACAC
*
159721315 TTTCACGTTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
159721380 TTGGCCATTAGGCCATATCACATATATACA
66 TTGGCCATTAGGCCTTATCACATATATACA
159721410 TCTCATACAT
Statistics
Matches: 179, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
94 45 0.25
96 88 0.49
98 46 0.26
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATACAC
Found at i:159728672 original size:15 final size:15
Alignment explanation
Indices: 159728652--159728699 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
159728642 AAAATTTATT
159728652 AAAAATAATAATGTA
1 AAAAATAATAATGTA
*
159728667 AAAAATAAATAATAT-
1 AAAAAT-AATAATGTA
*
159728682 AAAAAT-ATATTGTA
1 AAAAATAATAATGTA
159728696 AAAA
1 AAAA
159728700 TTTATAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 5 0.18
14 4 0.14
15 12 0.43
16 7 0.25
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (15 bp):
AAAAATAATAATGTA
Found at i:159728677 original size:16 final size:15
Alignment explanation
Indices: 159728652--159728686 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
159728642 AAAATTTATT
*
159728652 AAAAATAATAATGTA
1 AAAAATAATAATATA
159728667 AAAAATAAATAATATA
1 AAAAAT-AATAATATA
159728683 AAAA
1 AAAA
159728687 TATATTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AAAAATAATAATATA
Found at i:159731154 original size:39 final size:38
Alignment explanation
Indices: 159731096--159731270 Score: 124
Period size: 39 Copynumber: 4.5 Consensus size: 38
159731086 AAATTGAATG
*
159731096 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAAAT-T
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCT--AATCT
* * * *
159731135 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAAT-CT
* * *
159731174 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AAGTTGT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAA--TCT
* * * * *
159731213 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAATC-T
*
159731252 GATATCCGGG-TAAGTCCCG
1 -ATATCCGGGCTAAGACCCG
159731271 TTAGGCCTTG
Statistics
Matches: 114, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
37 2 0.02
38 5 0.04
39 94 0.82
40 13 0.11
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAATCT
Found at i:159739287 original size:40 final size:39
Alignment explanation
Indices: 159739119--159739289 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
159739109 AGAAATTGAA
* *
159739119 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
159739159 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
159739199 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
159739239 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
159739279 TGATATCCGGG
1 TGATATCCGGG
159739290 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:159746266 original size:27 final size:27
Alignment explanation
Indices: 159746242--159746340 Score: 90
Period size: 27 Copynumber: 3.6 Consensus size: 27
159746232 ACCATACAGA
* *
159746242 GGTATTACGGTCATTTTGCTCTACAAG
1 GGTATTACGGTCATTTTACACTACAAG
* * *
159746269 GGTATTTCGATAATTTTACACTACAAG
1 GGTATTACGGTCATTTTACACTACAAG
* * * * *
159746296 GGTATTTCGGTCATTTTCCCCTATAGG
1 GGTATTACGGTCATTTTACACTACAAG
*
159746323 GGCATTACGGTCAATTTT
1 GGTATTACGGTC-ATTTT
159746341 CAAACTATGG
Statistics
Matches: 58, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
27 53 0.91
28 5 0.09
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTATTACGGTCATTTTACACTACAAG
Found at i:159749658 original size:63 final size:62
Alignment explanation
Indices: 159749454--159749721 Score: 249
Period size: 63 Copynumber: 4.3 Consensus size: 62
159749444 ATGTTACATG
** * *
159749454 TAAATAAATTATGGACTTCCAGAGGTTCGGTGGATGAGTAC-GAGAATCAGAATTGAAAATCGA
1 TAAATAAATTATGG-CTTTAAGAGATTCGGTGGATGAGTACAG-GAATCAAAATTGAAAATCGA
* * * * * *
159749517 TAAATAAATTATTGCTTT-TGAAATTTCGGTGGATGAGTACAGTAATCAAAATT-TAAATCAA
1 TAAATAAATTATGGCTTTAAGAGA-TTCGGTGGATGAGTACAGGAATCAAAATTGAAAATCGA
* * * * *
159749578 TGAATAAATTATGGCTTTAAGGAGATTCGGTGTACGTGTAC-GGAGATCAAAATTGAAAATTGA
1 TAAATAAATTATGGCTTTAA-GAGATTCGGTGGATGAGTACAGGA-ATCAAAATTGAAAATCGA
* * * * *
159749641 TAAATAAATTATGGCTTTGCAA-AGGTTTGGTGGATGAATACAGGAATCAAAACTGAAAATTGA
1 TAAATAAATTATGGCTTT--AAGAGATTCGGTGGATGAGTACAGGAATCAAAATTGAAAATCGA
*
159749704 TAAATAAATCATGGCTTT
1 TAAATAAATTATGGCTTT
159749722 GTAGAGGGTC
Statistics
Matches: 167, Mismatches: 29, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
61 26 0.16
62 50 0.30
63 86 0.51
64 3 0.02
65 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.31
Consensus pattern (62 bp):
TAAATAAATTATGGCTTTAAGAGATTCGGTGGATGAGTACAGGAATCAAAATTGAAAATCGA
Found at i:159749750 original size:63 final size:63
Alignment explanation
Indices: 159749623--159749743 Score: 170
Period size: 63 Copynumber: 1.9 Consensus size: 63
159749613 GTGTACGGAG
* * * ***
159749623 ATCAAAATTGAAAATTGATAAATAAATTATGGCTTTGCAAAGGTTTGGTGGATGAATACAGGA
1 ATCAAAACTGAAAATTGATAAATAAATCATGGCTTTGCAAAGGGTCAATGGATGAATACAGGA
* *
159749686 ATCAAAACTGAAAATTGATAAATAAATCATGGCTTTGTAGAGGGTCAATGGATGAATA
1 ATCAAAACTGAAAATTGATAAATAAATCATGGCTTTGCAAAGGGTCAATGGATGAATA
159749744 TGGGAATTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 50 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.29
Consensus pattern (63 bp):
ATCAAAACTGAAAATTGATAAATAAATCATGGCTTTGCAAAGGGTCAATGGATGAATACAGGA
Found at i:159766546 original size:39 final size:40
Alignment explanation
Indices: 159766490--159766681 Score: 266
Period size: 39 Copynumber: 4.8 Consensus size: 40
159766480 CATGAGCATT
*
159766490 TGAATGATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAAT-ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
159766531 TGAATATA-CCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
159766570 TG-ATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
* * ** *
159766609 TGATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
*
159766649 TTG--TCATATCCGGGCTAAGACCCGAAGGCATTT
1 -TGAAT-ATATCCGGGCTAAGTCCCGAAGGCATTT
159766682 GTGCAAGATA
Statistics
Matches: 141, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
38 5 0.04
39 67 0.48
40 62 0.44
41 7 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
Found at i:159766633 original size:40 final size:40
Alignment explanation
Indices: 159766500--159766745 Score: 277
Period size: 40 Copynumber: 6.2 Consensus size: 40
159766490 TGAATGATAC
* *
159766500 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATA-
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
159766539 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-TATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
*
159766578 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
** * *
159766618 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TCATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * ** *
159766658 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * * *
159766698 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
159766738 CC-GGCTAA
1 CCGGGCTAA
159766746 ATTCCGAAGA
Statistics
Matches: 183, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 4 0.02
39 74 0.40
40 103 0.56
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:159774690 original size:40 final size:40
Alignment explanation
Indices: 159774623--159774844 Score: 229
Period size: 40 Copynumber: 5.6 Consensus size: 40
159774613 AAGTAAGCAT
*
159774623 TGCTAGTGAATATA-CCGGGCTAAGTCCCGAAGGCATTTA
1 TGCTAGTGAATATATCCGGGCTAAGACCCGAAGGCATTTA
*
159774662 TGCTAGTGAATATATCCGGGCTAAGTCCCGAAGGCATTTA
1 TGCTAGTGAATATATCCGGGCTAAGACCCGAAGGCATTTA
* **
159774702 TGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 TGCTAGTGAATATATCCGGGCTAAGACCCGAAGGCATTTA
* *
159774742 TGCGAGTTG--TCATATCCGGGCTAAGACCCGAAGGCATTTG
1 TGCTAG-TGAAT-ATATCCGGGCTAAGACCCGAAGGCATTTA
* ** * * * *
159774782 TGCAAGAT-ACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 TGCTAG-TGAATATATCCGGGCTAAGACCCGAAGGCATTTA
* **
159774822 TGCTTGTGGTTATATCC-GGCTAA
1 TGCTAGTGAATATATCCGGGCTAA
159774845 ATTCTGAAGA
Statistics
Matches: 158, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 21 0.13
40 135 0.85
41 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TGCTAGTGAATATATCCGGGCTAAGACCCGAAGGCATTTA
Found at i:159777909 original size:93 final size:93
Alignment explanation
Indices: 159777797--159777968 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
159777787 GCCCATAAGT
* *
159777797 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
159777862 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
159777890 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
159777955 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
159777969 CAAATATCCC
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:159777964 original size:46 final size:46
Alignment explanation
Indices: 159777789--159777964 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
159777779 TGTAACCCGC
* * *
159777789 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
159777835 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
159777885 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
159777928 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
159777965 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:159780391 original size:30 final size:30
Alignment explanation
Indices: 159780347--159780435 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
159780337 CAAAGATAAC
159780347 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
159780376 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
159780406 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
159780436 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:159780395 original size:15 final size:15
Alignment explanation
Indices: 159780347--159780426 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
159780337 CAAAGATAAC
*
159780347 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
159780361 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
159780376 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
159780391 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
159780406 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
159780421 AAGAAA
1 AAGAAA
159780427 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:159780435 original size:15 final size:15
Alignment explanation
Indices: 159780358--159780435 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
159780348 AGAAAACCGA
159780358 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
159780373 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
159780387 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
159780402 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
159780418 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
159780433 ATA
1 ATA
159780436 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:159783496 original size:93 final size:93
Alignment explanation
Indices: 159783384--159783555 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
159783374 GCCCATAAGT
* *
159783384 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
159783449 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
159783477 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
159783542 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
159783556 CAAATATCCC
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:159783551 original size:46 final size:46
Alignment explanation
Indices: 159783376--159783551 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
159783366 TGTAACCCGC
* * *
159783376 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
159783422 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
159783472 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
159783515 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
159783552 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:159788065 original size:12 final size:12
Alignment explanation
Indices: 159788046--159788080 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
159788036 ATACAAGTTT
159788046 GAAAAAAAAATTC
1 GAAAAAAAAA-TC
159788059 GAAAAAAAAATC
1 GAAAAAAAAATC
159788071 GAAAAAAAAA
1 GAAAAAAAAA
159788081 AGTGATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.77, C:0.06, G:0.09, T:0.09
Consensus pattern (12 bp):
GAAAAAAAAATC
Found at i:159790236 original size:16 final size:15
Alignment explanation
Indices: 159790168--159790236 Score: 50
Period size: 17 Copynumber: 4.2 Consensus size: 15
159790158 AGCAAATGAG
159790168 AGAAAAAGAAAAAAA
1 AGAAAAAGAAAAAAA
**
159790183 AGAAAGTTGTAAAAAAA
1 AGAAA-AAG-AAAAAAA
159790200 TA-AAAGAAGAGAAAAATA
1 -AGAAA-AAGA-AAAAA-A
159790218 AGAAAAAGAAAACAAA
1 AGAAAAAGAAAA-AAA
159790234 AGA
1 AGA
159790237 GAGTGACAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
15 5 0.12
16 9 0.21
17 24 0.56
18 5 0.12
ACGTcount: A:0.75, C:0.01, G:0.16, T:0.07
Consensus pattern (15 bp):
AGAAAAAGAAAAAAA
Found at i:159795311 original size:30 final size:30
Alignment explanation
Indices: 159795277--159795359 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 30
159795267 TAAACTAAAA
*
159795277 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * *
159795307 TGAGCTGAGGTTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
159795337 TGAGCTAAGGTTTAGCTCGTGAG
1 TGAGCTAAGGTTTAGCTCGTGAG
159795360 TTGAAAGTGA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:159797353 original size:40 final size:40
Alignment explanation
Indices: 159797298--159797547 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
159797288 AACATTGGAA
159797298 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
159797338 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
159797378 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
159797418 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
159797458 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
159797497 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
159797538 CTATATCCGG
1 ATATATCCGG
159797548 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:159805529 original size:40 final size:40
Alignment explanation
Indices: 159805474--159805723 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
159805464 AACATTGGAA
159805474 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
159805514 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
159805554 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
159805594 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
159805634 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
159805673 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
159805714 CTATATCCGG
1 ATATATCCGG
159805724 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:159811892 original size:30 final size:30
Alignment explanation
Indices: 159811858--159811940 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 30
159811848 TAAACTAAAA
* *
159811858 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
* * * * * *
159811888 TGAGCTGAGATTAAACTCCTAAGCTGAAGC
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
*
159811918 TGAGCTAAGGTTTAGCTCGTGAG
1 TGAGCTAAGATTTAGCTCGTGAG
159811941 ATGAATATGA
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
Done.