Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 145 of 318
Found at i:44301599 original size:2 final size:2
Alignment explanation
Indices: 44301592--44301617 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44301582 CGATTTGTGC
44301592 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
44301618 AGTTAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:44303866 original size:40 final size:40
Alignment explanation
Indices: 44303821--44303951 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
44303811 CGGAATATAA
*
44303821 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
44303861 CCGGATAGAGTAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
44303901 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
44303941 CCGGATATAAT
1 CCGGATATAAT
44303952 TTCCAGCATA
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44311869 original size:40 final size:39
Alignment explanation
Indices: 44311824--44311989 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
44311814 CGGAATATAA
44311824 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
44311864 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
44311903 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
44311943 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
44311982 CCGGATAT
1 CCGGATAT
44311990 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:44311946 original size:79 final size:79
Alignment explanation
Indices: 44311840--44311989 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
44311830 ATAATCACGT
*
44311840 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAAC-CAGCA-GAATTGCCTTCGGGCTTAGC
44311903 CCGGATATAGCCACTA
64 CCGGATATAGCCACTA
* * ** * *
44311919 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
44311984 GGATAT
66 GGATAT
44311990 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.05
79 59 0.95
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACCAGCAGAATTGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:44314087 original size:39 final size:39
Alignment explanation
Indices: 44314027--44314166 Score: 205
Period size: 39 Copynumber: 3.6 Consensus size: 39
44314017 TTGAATGATA
* * *
44314027 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAG-ACCGAAGGCATTTGTGCGAGTTG-TTATAT
44314067 CCGGGCTAAGACCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCGAAGGCATTTGTGCGAGTTGTTATAT
44314106 CCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTGTTATAT
1 CCGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGTTATAT
44314145 CCGGGCTAAGACCG-AGGCATTT
1 CCGGGCTAAGACCGAAGGCATTT
44314167 CTGTATACCG
Statistics
Matches: 94, Mismatches: 3, Indels: 8
0.90 0.03 0.08
Matches are distributed among these distances:
37 5 0.05
38 5 0.05
39 63 0.67
40 21 0.22
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGACCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:44314229 original size:40 final size:40
Alignment explanation
Indices: 44314184--44314288 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
44314174 CCGAAGCGAG
*
44314184 TGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCAAT
* * *
44314224 TGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 TGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCAAT
** *
44314264 TGTGCTTGTGGTTATATCC-GGCTAA
1 TGTGCGAGTTGTTATATCCGGGCTAA
44314289 ATTCCGAAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 5 0.09
40 50 0.91
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (40 bp):
TGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCAAT
Found at i:44322323 original size:40 final size:40
Alignment explanation
Indices: 44322268--44322514 Score: 356
Period size: 40 Copynumber: 6.2 Consensus size: 40
44322258 TGAATGATAC
* * *
44322268 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
44322308 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
44322348 CCGGGCTAAGACCCGAA-GCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
44322387 CCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
44322427 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
44322467 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
44322507 CC-GGCTAA
1 CCGGGCTAA
44322515 ATTCCAAAGA
Statistics
Matches: 188, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 42 0.22
40 144 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:44322397 original size:79 final size:80
Alignment explanation
Indices: 44322268--44322514 Score: 356
Period size: 79 Copynumber: 3.1 Consensus size: 80
44322258 TGAATGATAC
* * *
44322268 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
44322332 GTGCGAGTTGTTATAT
65 GTGCGAGTTGTTATAT
* *
44322348 CCGGGCTAAGACCCGAA-GCATTCGTGCGAGTTGTTATATCCAGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
44322412 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
* * * *
44322427 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
** *
44322492 TGCTTGTGGTTATAT
66 TGCGAGTTGTTATAT
44322507 CC-GGCTAA
1 CCGGGCTAA
44322515 ATTCCAAAGA
Statistics
Matches: 151, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
79 78 0.52
80 73 0.48
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGTTATAT
Found at i:44322482 original size:119 final size:119
Alignment explanation
Indices: 44322271--44322514 Score: 359
Period size: 119 Copynumber: 2.1 Consensus size: 119
44322261 ATGATACCCG
* *
44322271 GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 GGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
* * *
44322336 GAGTTGTTATATCCGGGCTAAGACCCGAA-GC-ATTCGTGCGAGTTGTTATATCC
66 GAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGGTTATATCC
*
44322389 AGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTTGT
1 -GGCTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTTGT
* **
44322453 GCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC
64 GCGAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGGTTATATCC
44322509 GGCTAA
1 GGCTAA
44322515 ATTCCAAAGA
Statistics
Matches: 113, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
119 91 0.81
120 19 0.17
121 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
GGCTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
GAGTTGCTATACCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGGTTATATCC
Found at i:44326666 original size:47 final size:46
Alignment explanation
Indices: 44326419--44326682 Score: 174
Period size: 47 Copynumber: 5.7 Consensus size: 46
44326409 TATGAGAGCC
* *
44326419 AGTGTAAGACCATGTCTGAGACATGGCGTCGACATTGA-GAAGA-GAGAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATG--GATGAG-T
* * *
44326467 AGTGTAAGTA--GTGTCTGGGACAT-GCATC-AGCCTG-GGGATGTAATGT
1 AGTGTAAG-ACCATGTCTGGGACATGGCATCGA-CTTGATGGATG--A-GT
* * * *
44326513 AGTGTAAGA-CATGTCTGCGACAT-GCATCGGC-T-ACGAGATGTGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATG-GATGAGT
* * * * * *
44326556 CAGTGTAAGACCATGCCTGGGACATGGCATTGGCACGT-ATAGAGGTGT
1 -AGTGTAAGACCATGTCTGGGACATGGCA-TCG-ACTTGATGGATGAGT
44326604 CAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCT
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAG-T
44326652 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
44326683 GCATTACACC
Statistics
Matches: 175, Mismatches: 22, Indels: 39
0.74 0.09 0.17
Matches are distributed among these distances:
43 4 0.02
44 10 0.06
45 19 0.11
46 42 0.24
47 53 0.30
48 44 0.25
49 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGT
Found at i:44327856 original size:20 final size:21
Alignment explanation
Indices: 44327817--44327856 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44327807 GTTATAATGA
44327817 CCACACGGGCATGTTGCCCTT
1 CCACACGGGCATGTTGCCCTT
*
44327838 CCACACGGGCGTG-TGCCCT
1 CCACACGGGCATGTTGCCCT
44327857 ATTTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGGGCATGTTGCCCTT
Found at i:44329449 original size:29 final size:29
Alignment explanation
Indices: 44329407--44329479 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
44329397 GTGACAAGAT
44329407 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
44329436 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
44329465 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
44329480 GAATTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:44329498 original size:29 final size:29
Alignment explanation
Indices: 44329466--44329538 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
44329456 TGAAAAGTAT
* * *
44329466 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
44329495 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
44329524 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
44329539 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:44337391 original size:29 final size:29
Alignment explanation
Indices: 44337349--44337421 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
44337339 GTGACAAGAT
44337349 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
44337378 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
44337407 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
44337422 GAATTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:44337440 original size:29 final size:29
Alignment explanation
Indices: 44337408--44337480 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
44337398 TGAAAAGTAT
* * *
44337408 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
44337437 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
44337466 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
44337481 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:44344977 original size:38 final size:38
Alignment explanation
Indices: 44344926--44345091 Score: 197
Period size: 38 Copynumber: 4.3 Consensus size: 38
44344916 GCAAGCTATA
* *
44344926 TGCTGGAATTATATCCGGGTTAAATCTCGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
44344964 TGCTAGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
44345002 TGCTGGTATTATATCCAGGTTAAATCCCACAGGCCTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * * *
44345040 TGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTCA
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGCAGGCTTCG
*
44345080 TGCTGGTGTTAT
1 TGCTGGTATTAT
44345092 GTTTGGGTTT
Statistics
Matches: 107, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
38 81 0.76
39 6 0.06
40 20 0.19
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.33
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:44345006 original size:76 final size:78
Alignment explanation
Indices: 44344897--44345085 Score: 206
Period size: 76 Copynumber: 2.4 Consensus size: 78
44344887 ATTTGATGTG
* * * * *
44344897 TATCC-AGGCTTAAAGACCCGCAAGCTAT-ATGCTGGAATTATATCCGGGTTAAATCTCGCAGGC
1 TATCCGAGG-TTAAAGTCCCGCAGGCT-TCATGCTGGAATTATATCCAGGTTAAATCCCACAGGC
* *
44344960 TTCGTGCTAGTAATA
64 CTAGTGCTAGTAATA
* *
44344975 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTATATCCAGGTTAAATCCCACAGGCCT
1 TATCCGAGGTTAAAGTCCCGCAGGCTTCATGCTGGAATTATATCCAGGTTAAATCCCACAGGCCT
* *
44345038 AGTGCTGGTATTA
66 AGTGCTAGTAATA
* * *
44345051 TATCTGAGTTTAAAGTCCCGTAGGCTTCATGCTGG
1 TATCCGAGGTTAAAGTCCCGCAGGCTTCATGCTGG
44345086 TGTTATGTTT
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
75 1 0.01
76 55 0.60
77 11 0.12
78 25 0.27
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (78 bp):
TATCCGAGGTTAAAGTCCCGCAGGCTTCATGCTGGAATTATATCCAGGTTAAATCCCACAGGCCT
AGTGCTAGTAATA
Found at i:44345392 original size:17 final size:19
Alignment explanation
Indices: 44345350--44345393 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
44345340 ATGAAATTTT
*
44345350 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
44345369 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
44345387 AA-TATTA
1 AATTATTA
44345394 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:44347223 original size:28 final size:28
Alignment explanation
Indices: 44347191--44347259 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
44347181 GCGTAGATCA
44347191 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
44347219 CGAAATTACCCCTAAAGAGCAAAATTAT
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
44347247 CGATA-TACCCCTA
1 CGAAATTACCCCTA
44347260 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:44349691 original size:17 final size:19
Alignment explanation
Indices: 44349649--44349692 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
44349639 ATAAAATTTT
*
44349649 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
44349668 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
44349686 AA-TATTA
1 AATTATTA
44349693 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:44351399 original size:28 final size:28
Alignment explanation
Indices: 44351367--44351435 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
44351357 GCGTAGATCA
44351367 CGAAATTACCCCTAAAGAGAAAAATTAC
1 CGAAATTACCCCTAAAGAGAAAAATTAC
*
44351395 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGAAAAATTAC
*
44351423 CGATA-TACCCCTA
1 CGAAATTACCCCTA
44351436 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.45, C:0.26, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGAAAAATTAC
Found at i:44358637 original size:80 final size:80
Alignment explanation
Indices: 44358553--44358701 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
44358543 TATGGTAACC
* * * *
44358553 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
44358617 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
44358633 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
44358698 CCGG
66 CCGG
44358702 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:44358643 original size:40 final size:38
Alignment explanation
Indices: 44358594--44358701 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
44358584 ATCACGATTT
*
44358594 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
44358634 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
44358674 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
44358702 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:44363809 original size:79 final size:79
Alignment explanation
Indices: 44363671--44363854 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 79
44363661 TCGAATGATG
*
44363671 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCAAGGCATTCG
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCAAGGCATTCG
44363736 TGCGAGTTACTA-A
66 TGCGAGTTACTATA
* * **
44363749 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CC-AAGGCA
*
44363811 TTTGTGCGAGTTACTATA
62 TTCGTGCGAGTTACTATA
* *
44363829 ACCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
44363855 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 28 0.31
79 48 0.53
80 14 0.15
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCAAGGCATTCG
TGCGAGTTACTATA
Found at i:44363816 original size:40 final size:40
Alignment explanation
Indices: 44363671--44363854 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
44363661 TCGAATGATG
* * *
44363671 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
44363711 TCCGGACTAAGAT-CC-AAGGCATTCGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
44363750 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44363789 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
44363830 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44363855 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 54 0.43
40 66 0.53
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44363876 original size:79 final size:79
Alignment explanation
Indices: 44363726--44363877 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 79
44363716 ACTAAGATCC
* **
44363726 AAGGCATTCGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTCGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
44363791 CGGGTTAAGTCCCG
66 CGGGTTAAGTCCCG
* * * *
44363805 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCGTTTGAACGAG-TAGCTAT
1 AAGGCATTCGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
44363868 ATCC-GGTTAA
63 ATCCGGGTTAA
44363878 ACTCCGAAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 37 0.59
80 24 0.38
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
AAGGCATTCGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAGTCCCG
Found at i:44371147 original size:39 final size:40
Alignment explanation
Indices: 44371051--44371230 Score: 190
Period size: 40 Copynumber: 4.5 Consensus size: 40
44371041 TGATGTCCAG
* * *
44371051 GCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCG-
1 GCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGA
* *
44371090 GACTAAGATCCC-AAGGCATTCGTGCGAGTTACTAATTCCGA
1 G-CTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGA
*
44371131 GCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGA
* * *
44371170 GTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA-CCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGA
* *
44371210 GCTATGTCCCGAAGGCGTTTG
1 GCTAAGTCCCGAAGGCATTTG
44371231 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
38 3 0.02
39 32 0.26
40 73 0.60
41 13 0.11
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGA
Found at i:44371185 original size:79 final size:80
Alignment explanation
Indices: 44371051--44371230 Score: 206
Period size: 79 Copynumber: 2.2 Consensus size: 80
44371041 TGATGTCCAG
*
44371051 GCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCCAAGGCATTCGTGCG
1 GCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCCAAGGCATTCGTGCG
44371116 AGTTACTAATTCCGA
66 AGTTACTAATTCCGA
* * ** *
44371131 GCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTG
1 GCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAATCCGGACTAAGATCCC-AAGGCATTCGTG
* * *
44371193 TGAGTTACT-ATAACCGG
64 CGAGTTACTAAT-TCCGA
*
44371210 GCTATGTCCCGAAGGCGTTTG
1 GCTAAGTCCCGAAGGC-TTTG
44371231 AACGAGTAGC
Statistics
Matches: 85, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
78 6 0.07
79 53 0.62
80 26 0.31
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
GCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCCAAGGCATTCGTGCG
AGTTACTAATTCCGA
Found at i:44371252 original size:79 final size:78
Alignment explanation
Indices: 44371080--44371253 Score: 183
Period size: 79 Copynumber: 2.2 Consensus size: 78
44371070 GTGCTAAGTG
* *
44371080 ACTATATCCGGACTAAGATCCCAAGGCATTCGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAGATCCCAAGGCATTCGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGG
**
44371145 CATTTGTGCGAGTT
65 CATTTGAACGAGTT
* * * * *
44371159 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGA
1 ACTATATCC-GGTTAAGATCCC-AAGGCATTCGTGCGAGTTACTAAT-ACCGAGCTAAG-CCCGA
*
44371222 AGGCGTTTGAACGAG-T
62 AGGCATTTGAACGAGTT
44371238 AGCTATATCCGGTTAA
1 A-CTATATCCGGTTAA
44371254 ACTCCGAAGG
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
78 6 0.08
79 47 0.59
80 26 0.33
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.26
Consensus pattern (78 bp):
ACTATATCCGGTTAAGATCCCAAGGCATTCGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGC
ATTTGAACGAGTT
Found at i:44374807 original size:47 final size:47
Alignment explanation
Indices: 44374756--44375102 Score: 597
Period size: 47 Copynumber: 7.4 Consensus size: 47
44374746 GATGTACAAG
44374756 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
44374803 GTGTGTATATGTGATAAGGTCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
44374850 GTGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
44374897 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
44374944 GTGTGTATATGTGATAAGGCCTAATGG-CAGATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCTAATGGCCA-ATGTGATGAATGTGAAA
* * *
44374991 GTGTCTATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
44375038 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGGATGTGAAA
1 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
44375085 GTTTATAAATGTGATAAG
1 GTGTGTATATGTGATAAG
44375103 TCCCGAAGGG
Statistics
Matches: 284, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 2 0.01
47 280 0.99
48 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:44379550 original size:40 final size:39
Alignment explanation
Indices: 44379423--44379552 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
44379413 ATGCTGGAAA
* *
44379423 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
44379463 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
44379503 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
44379543 TTATATCCGG
1 TTATATCCGG
44379553 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:44387612 original size:40 final size:39
Alignment explanation
Indices: 44387485--44387614 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
44387475 ATGCTGGAAA
* *
44387485 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
44387525 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
44387565 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
44387605 TTATATCCGG
1 TTATATCCGG
44387615 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:44391153 original size:43 final size:42
Alignment explanation
Indices: 44391106--44391230 Score: 108
Period size: 42 Copynumber: 3.0 Consensus size: 42
44391096 CCTCAATTGA
*
44391106 GATTTACGTATAAGACCATGTCTGGGACATTGGCATTGTATCT
1 GATTTACGTATAAGACCATGTCTGGGACATTGGCGTTGTAT-T
* * * * ** *
44391149 GATTT-TGTGTAAGACCTTGTCTGAGACAGAGGCGTCGATATT
1 GATTTACGTATAAGACCATGTCTGGGACATTGGCGTTG-TATT
* * * * *
44391191 GAATTACATATAAGACCACGTCCGGGACGTTGGCGTTGTA
1 GATTTACGTATAAGACCATGTCTGGGACATTGGCGTTGTA
44391231 CTTGGTTATG
Statistics
Matches: 60, Mismatches: 20, Indels: 5
0.71 0.24 0.06
Matches are distributed among these distances:
42 31 0.52
43 29 0.48
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
GATTTACGTATAAGACCATGTCTGGGACATTGGCGTTGTATT
Found at i:44394567 original size:47 final size:47
Alignment explanation
Indices: 44394498--44394661 Score: 151
Period size: 47 Copynumber: 3.5 Consensus size: 47
44394488 GTGTCCATGC
* * *
44394498 CATGTCCTAGACACGGTCTTACACTAGCTCAT-ATCTCATGTCAGTGT
1 CATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCATG-CAGTGA
* **
44394545 CATGTCCCAGACATGGTCTTACACT-GACT-ATCATCTCGTAGCCA-ACA
1 CATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTCAT-G-CAGTGA
* * *
44394592 CATGTCCCAGACAT-GTCTTACACTAGCAC-TCATCTCGATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTAGCTCATCATCTC-ATGCAG-TGA
44394639 CATGTCCCAGACATGGTCTTACA
1 CATGTCCCAGACATGGTCTTACA
44394662 ATGGCTCTCA
Statistics
Matches: 95, Mismatches: 13, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
45 1 0.01
46 22 0.23
47 61 0.64
48 11 0.12
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCATGCAGTGA
Found at i:44395796 original size:2 final size:2
Alignment explanation
Indices: 44395789--44395819 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
44395779 CATTTTAACT
44395789 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44395820 CACATTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44411035 original size:28 final size:28
Alignment explanation
Indices: 44410995--44411067 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
44410985 GTTCAAATTG
* *
44410995 TATAGCACTAAGTGTGCAAGTTTGATTA
1 TATAGCACTAAGTGTGCAAGTTCGACTA
**
44411023 TATAGCACTAAGTGTGTGAGTTCGACTA
1 TATAGCACTAAGTGTGCAAGTTCGACTA
44411051 T-TAAGCACTAAGTGTGC
1 TAT-AGCACTAAGTGTGC
44411068 GGGCTTATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (28 bp):
TATAGCACTAAGTGTGCAAGTTCGACTA
Found at i:44422967 original size:29 final size:29
Alignment explanation
Indices: 44422934--44423093 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
44422924 GTGACGAGAT
44422934 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44422963 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
44422992 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
44423021 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
44423050 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
44423079 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
44423094 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:44428611 original size:15 final size:15
Alignment explanation
Indices: 44428591--44428642 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
44428581 ACTACAAAAC
44428591 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
44428606 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
44428625 ATTTATTATTAATAT
1 ATTTATTATTAATAT
44428640 ATT
1 ATT
44428643 AATATTGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 12 0.39
16 1 0.03
17 8 0.26
18 1 0.03
19 9 0.29
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:44428666 original size:19 final size:19
Alignment explanation
Indices: 44428642--44428687 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 19
44428632 ATTAATATAT
44428642 TAATATTGAATATTTTAAA
1 TAATATTGAATATTTTAAA
*
44428661 TAATATT---TATTTTCAA
1 TAATATTGAATATTTTAAA
44428677 TAATATGTGAA
1 TAATAT-TGAA
44428688 GAATCTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 7
0.73 0.03 0.23
Matches are distributed among these distances:
16 14 0.64
17 1 0.05
19 7 0.32
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (19 bp):
TAATATTGAATATTTTAAA
Found at i:44437391 original size:23 final size:23
Alignment explanation
Indices: 44437361--44437419 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
44437351 CGGGTAAATG
44437361 ACACGGGCGTGTGCATTGCCTCC
1 ACACGGGCGTGTGCATTGCCTCC
44437384 ACACGGGCGTGTGCATTGCCTCC
1 ACACGGGCGTGTGCATTGCCTCC
44437407 ACACGGGCGTGTG
1 ACACGGGCGTGTG
44437420 AGGCTTAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.14, C:0.32, G:0.34, T:0.20
Consensus pattern (23 bp):
ACACGGGCGTGTGCATTGCCTCC
Found at i:44445855 original size:15 final size:15
Alignment explanation
Indices: 44445837--44445868 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
44445827 TCCTTTAGAG
44445837 TTAGCCACTTTGGCA
1 TTAGCCACTTTGGCA
44445852 TTAGCCACTTTGGCA
1 TTAGCCACTTTGGCA
44445867 TT
1 TT
44445869 GGCTTTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (15 bp):
TTAGCCACTTTGGCA
Found at i:44446310 original size:23 final size:23
Alignment explanation
Indices: 44446275--44446318 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
44446265 CACATATATC
* * *
44446275 AGAACATCCACAATGGCTTCCTT
1 AGAACAACAACAAAGGCTTCCTT
44446298 AGAACAACAACAAAGGCTTCC
1 AGAACAACAACAAAGGCTTCC
44446319 ACATAATAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.30, G:0.14, T:0.18
Consensus pattern (23 bp):
AGAACAACAACAAAGGCTTCCTT
Found at i:44449011 original size:51 final size:51
Alignment explanation
Indices: 44448935--44449092 Score: 255
Period size: 51 Copynumber: 3.1 Consensus size: 51
44448925 ATCACATTTA
* *
44448935 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTACCACTTG
1 TCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
*
44448986 TCACTTGTCACTAATTAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
**
44449037 TCACTTGTCACTAATCAGATAAGTGTAG-TTGAGACTACCACTTATCACTTG
1 TCACTTGTCACTAATCAGATAAGTGTAGCTAAAG-CTACCACTTATCACTTG
44449088 TCACT
1 TCACT
44449093 GATCAGAAGT
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
50 3 0.03
51 97 0.97
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (51 bp):
TCACTTGTCACTAATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:44453751 original size:32 final size:32
Alignment explanation
Indices: 44453715--44453799 Score: 134
Period size: 32 Copynumber: 2.7 Consensus size: 32
44453705 CCTATCATAG
* *
44453715 TATCAGTTGGGCCTAGCCCATCTCAGAATCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
*
44453747 TATCAGTTGGGCCTAGTCCATATCAGAACCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
*
44453779 TATCAGTTGAGCCTAGCCCAT
1 TATCAGTTGGGCCTAGCCCAT
44453800 TTCAATTTCA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (32 bp):
TATCAGTTGGGCCTAGCCCATATCAGAACCAA
Found at i:44456901 original size:40 final size:39
Alignment explanation
Indices: 44456856--44457063 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
44456846 CGGAATACAA
*
44456856 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
44456896 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
44456936 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
44456976 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
44457016 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
44457056 CCGGATAT
1 CCGGATAT
44457064 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:44456996 original size:80 final size:80
Alignment explanation
Indices: 44456856--44457062 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
44456846 CGGAATACAA
* * *
44456856 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
44456920 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
44456936 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
44457000 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
44457016 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
44457063 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:44462391 original size:40 final size:40
Alignment explanation
Indices: 44462325--44462475 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
44462315 AAATTGAATG
* * *
44462325 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
44462364 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
44462404 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
44462444 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44462476 ACATGGTTAT
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:44462489 original size:40 final size:40
Alignment explanation
Indices: 44462362--44462491 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
44462352 ATGCTGGAAA
* * *
44462362 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
44462402 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
44462442 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
44462482 TTATATCCGG
1 TTATATCCGG
44462492 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:44470396 original size:40 final size:40
Alignment explanation
Indices: 44470311--44470461 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
44470301 AATTGAATGA
* * * **
44470311 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
44470351 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
44470392 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
44470431 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
44470462 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:44470475 original size:40 final size:40
Alignment explanation
Indices: 44470348--44470477 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
44470338 ATGCTGGAAA
* * *
44470348 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
44470388 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
44470428 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
44470468 TTATATCCGG
1 TTATATCCGG
44470478 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:44473922 original size:29 final size:29
Alignment explanation
Indices: 44473832--44473991 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
44473822 ACTCGATTTC
* * **
44473832 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
44473861 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
44473889 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
44473919 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
44473948 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
44473977 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
44473992 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:44482086 original size:29 final size:29
Alignment explanation
Indices: 44481996--44482155 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
44481986 ACTCGATTTC
* * **
44481996 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
44482025 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
44482053 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
44482083 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
44482112 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
44482141 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
44482156 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:44488717 original size:29 final size:29
Alignment explanation
Indices: 44488685--44488757 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
44488675 CTTCGAGCTC
*
44488685 GCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
44488714 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
44488743 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
44488758 ATCTCGTCAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:44490079 original size:25 final size:23
Alignment explanation
Indices: 44490044--44490091 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
44490034 ATCCACACTC
44490044 TTTTTTTTTTCATCATTTTCCTT
1 TTTTTTTTTTCATCATTTTCCTT
* *
44490067 TTTTTTTCATTTCTTTATTTTCCTT
1 TTTTTTT--TTTCATCATTTTCCTT
44490092 CCATAATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTTTTTTCATCATTTTCCTT
Found at i:44491520 original size:30 final size:30
Alignment explanation
Indices: 44491486--44491546 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
44491476 TTCCCGAGCC
44491486 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
44491516 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
44491546 T
1 T
44491547 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:44492162 original size:64 final size:64
Alignment explanation
Indices: 44492038--44492323 Score: 290
Period size: 64 Copynumber: 4.4 Consensus size: 64
44492028 TAATACGGGA
* *
44492038 TGTATACCATGT-GTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATAC
1 TGTACACCATGTAG-ACAAGAGAGCTACGAG--A-TAT-ATGTAGCTAGGTCGCATGGGTGATAC
44492102 TATG
61 TATG
*
44492106 TGTACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGATACTATG
1 TGTACACCATGTAGACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATG
* * * * * *
44492170 TGTACACCATGTAGACAAGAGAGCTACGAGATAAATGTAGCTAGGTTGCATGTGTGGTTCCAAGT
1 TGTACACCATGTAGACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATACTA-T
44492235 G
64 G
* * * * * * * * *
44492236 AAGGACACCATGTAAACAAGAGAGCTATGAGATA-AAGTGGCTAGGTCACATGGGTGGTACTAAG
1 -TGTACACCATGTAGACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATG
* *
44492300 TGTTCACTATGT-GTACAAGAGAGC
1 TGTACACCATGTAG-ACAAGAGAGC
44492324 CAAAATTATG
Statistics
Matches: 185, Mismatches: 28, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
63 18 0.10
64 81 0.44
65 11 0.06
66 19 0.10
67 29 0.16
68 26 0.14
69 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.24
Consensus pattern (64 bp):
TGTACACCATGTAGACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATG
Found at i:44495115 original size:41 final size:41
Alignment explanation
Indices: 44495058--44495139 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
44495048 AAATAGGGCC
*
44495058 TAAATGGAATAGTGGTTCCGAAACCACAAATCTGAGATAGA
1 TAAATGGAATAGTGGTTCCGAAACCACAAATATGAGATAGA
*
44495099 TAAATGGAATAGTGGTTGCGAAACCACAAATATGAGATAGA
1 TAAATGGAATAGTGGTTCCGAAACCACAAATATGAGATAGA
44495140 AATGTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (41 bp):
TAAATGGAATAGTGGTTCCGAAACCACAAATATGAGATAGA
Found at i:44496120 original size:30 final size:30
Alignment explanation
Indices: 44496074--44496134 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
44496064 TTCCCGAGCC
44496074 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
44496104 TAGGGGTAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
44496134 T
1 T
44496135 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:44496751 original size:64 final size:64
Alignment explanation
Indices: 44496627--44496900 Score: 291
Period size: 64 Copynumber: 4.2 Consensus size: 64
44496617 TAATACGGGA
* *
44496627 TGTATACCATGT-GTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATAC
1 TGTACACCATGTAG-ACAAGAGAGCTACGAG--A-TAT-ATGTAGCTAGGTCGCATGGGTGATAC
44496691 TATG
61 TATG
*
44496695 TGTACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGGGTGATACTATG
1 TGTACACCATGTAGACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATG
* * * * * *
44496759 TGTACACCATGTAGACAAGAGAGCTACGAGATAAATGTAGCTAGGTTGCATGTGTGGTTCCAAAT
1 TGTACACCATGTAGACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATAC-TAT
44496824 G
64 G
* * * * * * * * *
44496825 AAGGACACCATGTAAACAAGAGAGCTATGAGATA-AAGTGGCTAGGTCACATGGGTGGTACTAAG
1 -TGTACACCATGTAGACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATG
*
44496889 TGTTCACCATGT
1 TGTACACCATGT
44496901 GTACAAAGGA
Statistics
Matches: 176, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
63 9 0.05
64 82 0.47
65 9 0.05
66 20 0.11
67 29 0.16
68 26 0.15
69 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (64 bp):
TGTACACCATGTAGACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATG
Found at i:44504941 original size:15 final size:16
Alignment explanation
Indices: 44504921--44504950 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
44504911 GTATACTTTA
44504921 CCCTAAAG-TTTTTTC
1 CCCTAAAGCTTTTTTC
44504936 CCCTAAAGCTTTTTT
1 CCCTAAAGCTTTTTT
44504951 ATTATTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.47
Consensus pattern (16 bp):
CCCTAAAGCTTTTTTC
Found at i:44505152 original size:32 final size:32
Alignment explanation
Indices: 44505116--44505183 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
44505106 TTCTTATTTA
*
44505116 CATTTCTTTAAT-TTCTTCTTCCCTCCATCATG
1 CATTTCTTT-ATCTTCTTCTTCACTCCATCATG
*
44505148 CATTTCTTTATCTTCTTCTTCATTCCATCATG
1 CATTTCTTTATCTTCTTCTTCACTCCATCATG
44505180 CATT
1 CATT
44505184 CATTTACAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 2 0.06
32 31 0.94
ACGTcount: A:0.16, C:0.29, G:0.03, T:0.51
Consensus pattern (32 bp):
CATTTCTTTATCTTCTTCTTCACTCCATCATG
Found at i:44511783 original size:21 final size:21
Alignment explanation
Indices: 44511757--44511826 Score: 115
Period size: 21 Copynumber: 3.3 Consensus size: 21
44511747 ACAGAATTGA
44511757 AAGAGTTGAAAGCCCAGTTGC
1 AAGAGTTGAAAGCCCAGTTGC
*
44511778 AAGAGTTGAAAGCCCAATTGC
1 AAGAGTTGAAAGCCCAGTTGC
44511799 AAGAGTTGAAAGCCCAGCTT-C
1 AAGAGTTGAAAGCCCAG-TTGC
44511820 AAGAGTT
1 AAGAGTT
44511827 AACAAATAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 44 0.96
22 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.20
Consensus pattern (21 bp):
AAGAGTTGAAAGCCCAGTTGC
Found at i:44514180 original size:21 final size:22
Alignment explanation
Indices: 44514135--44514188 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
44514125 TGCGTGGCTC
*
44514135 ACACGCCCATGTGGTCCAAGGG
1 ACACGCCCATGTGGACCAAGGG
**
44514157 ACACGCCCATGT-GACCCTGGG
1 ACACGCCCATGTGGACCAAGGG
*
44514178 ACACACCCATG
1 ACACGCCCATG
44514189 CTACAGGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.24, C:0.37, G:0.26, T:0.13
Consensus pattern (22 bp):
ACACGCCCATGTGGACCAAGGG
Found at i:44518355 original size:48 final size:48
Alignment explanation
Indices: 44518294--44518390 Score: 167
Period size: 48 Copynumber: 2.0 Consensus size: 48
44518284 ATCAAGAAAA
* *
44518294 GCGAAATATGGATTTAGATAGGGGAAAGAACAAGGTTTTAGATTAATC
1 GCGAAATACGGATTTAGATAGGGGAAAGAACAAGGTTTCAGATTAATC
*
44518342 GCGAAATACGGATTTAGATATGGGAAAGAACAAGGTTTCAGATTAATC
1 GCGAAATACGGATTTAGATAGGGGAAAGAACAAGGTTTCAGATTAATC
44518390 G
1 G
44518391 ACTTAATTCG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (48 bp):
GCGAAATACGGATTTAGATAGGGGAAAGAACAAGGTTTCAGATTAATC
Found at i:44519232 original size:2 final size:2
Alignment explanation
Indices: 44519225--44519249 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44519215 GGTCATTTTG
44519225 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
44519250 GTTTGATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44520133 original size:19 final size:20
Alignment explanation
Indices: 44520105--44520145 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
44520095 GTCCCCTGTA
44520105 TTTTGAAAAAAATTC-TAAG
1 TTTTGAAAAAAATTCATAAG
*
44520124 TTTTGTAAAAAATTCATAAG
1 TTTTGAAAAAAATTCATAAG
44520144 TT
1 TT
44520146 ATCAGTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (20 bp):
TTTTGAAAAAAATTCATAAG
Found at i:44526058 original size:26 final size:26
Alignment explanation
Indices: 44526022--44526078 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
44526012 CTCCGATGCA
* * *
44526022 ATATTGTGATTGCATACTTTGGTGTG
1 ATATTGAGATTACACACTTTGGTGTG
44526048 ATATTGAGATTACACACTTTGGTGTG
1 ATATTGAGATTACACACTTTGGTGTG
44526074 ATATT
1 ATATT
44526079 ATGATGGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.25, C:0.09, G:0.23, T:0.44
Consensus pattern (26 bp):
ATATTGAGATTACACACTTTGGTGTG
Found at i:44527337 original size:18 final size:18
Alignment explanation
Indices: 44527291--44527368 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 18
44527281 CTTGGCCCAT
* *
44527291 TGCAGTAACAATAAACAG
1 TGCAGTAACAGTAATCAG
*
44527309 TGCAGTAACAGTAATCTG
1 TGCAGTAACAGTAATCAG
*
44527327 TGCAGTAACAGTCATCAG
1 TGCAGTAACAGTAATCAG
* * *
44527345 TGTAGCAATAGTAATCAG
1 TGCAGTAACAGTAATCAG
44527363 TGCAGT
1 TGCAGT
44527369 CAGTATACAA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (18 bp):
TGCAGTAACAGTAATCAG
Found at i:44527724 original size:27 final size:27
Alignment explanation
Indices: 44527692--44528002 Score: 301
Period size: 27 Copynumber: 11.5 Consensus size: 27
44527682 TACATCACAT
*
44527692 AGGGCAAAACAGTCATCTTACCATATA
1 AGGGCAAAACAGTCATTTTACCATATA
*
44527719 AGGGCAAAACAGTCATTTTCCCATATA
1 AGGGCAAAACAGTCATTTTACCATATA
* *
44527746 AGGGCAAAACAATCATTTTACC-TCATG
1 AGGGCAAAACAGTCATTTTACCAT-ATA
* * *
44527773 AGGGTAAAACAGTTATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCATATA
* * *
44527800 AGGGAAAAATAGTAATTTTACC-TCA-A
1 AGGGCAAAACAGTCATTTTACCAT-ATA
* * *
44527826 GAGGGCAAAATAGTTATTTTACCACATA
1 -AGGGCAAAACAGTCATTTTACCATATA
*
44527854 AGGGCAAAACAGTCATTTTGCC-TCATA
1 AGGGCAAAACAGTCATTTTACCAT-ATA
* *
44527881 AGGGCAAGACAATCATTTTACC-TCATA
1 AGGGCAAAACAGTCATTTTACCAT-ATA
* * *
44527908 AGAGCAAAACAATCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCATATA
* * *
44527935 AGGGAAAAATAGTCATTTTACC-TCATG
1 AGGGCAAAACAGTCATTTTACCAT-ATA
* *
44527962 AGGGCAAAACAATCATTTTACCATGTA
1 AGGGCAAAACAGTCATTTTACCATATA
*
44527989 AGTGCAAAACAGTC
1 AGGGCAAAACAGTC
44528003 TGTAACATCC
Statistics
Matches: 234, Mismatches: 40, Indels: 20
0.80 0.14 0.07
Matches are distributed among these distances:
26 2 0.01
27 230 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (27 bp):
AGGGCAAAACAGTCATTTTACCATATA
Found at i:44527832 original size:81 final size:81
Alignment explanation
Indices: 44527687--44527983 Score: 348
Period size: 81 Copynumber: 3.7 Consensus size: 81
44527677 GTATATACAT
* * *
44527687 CACAT-AGGGCAAAACAGTCATCTTACCATATAAGGGCAAAACAGTCATTTTCCCAT-ATAAGGG
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACC-TCATAAGGG
44527750 CAAAACAATCATTTTAC
65 CAAAACAATCATTTTAC
* * * * * * *
44527767 CTCATGAGGGTAAAACAGTTATTTTACCACATAAGGGAAAAATAGTAATTTTACCTCA-AGAGGG
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCATA-AGGG
* * *
44527831 CAAAATAGTTATTTTAC
65 CAAAACAATCATTTTAC
* * * * *
44527848 CACATAAGGGCAAAACAGTCATTTTGCCTCATAAGGGCAAGACAATCATTTTACCTCATAAGAGC
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
44527913 AAAACAATCATTTTAC
66 AAAACAATCATTTTAC
* * * * *
44527929 CACATAAGGGAAAAATAGTCATTTTACCTCATGAGGGCAAAACAATCATTTTACC
1 CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACC
44527984 ATGTAAGTGC
Statistics
Matches: 181, Mismatches: 32, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
80 6 0.03
81 174 0.96
82 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.26
Consensus pattern (81 bp):
CACATAAGGGCAAAACAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACCTCATAAGGGC
AAAACAATCATTTTAC
Found at i:44537808 original size:40 final size:40
Alignment explanation
Indices: 44537741--44537910 Score: 234
Period size: 40 Copynumber: 4.2 Consensus size: 40
44537731 CGGGATTTAA
* * * * *
44537741 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
44537781 CCGGATTTGGT-GACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44537821 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44537861 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44537901 CCGGATATAT
1 CCGGATATAT
44537911 TTCCAATGTT
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 114 0.99
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:44548027 original size:29 final size:29
Alignment explanation
Indices: 44547994--44548067 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
44547984 GTGACGAGAT
44547994 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44548023 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
44548052 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44548068 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:44548083 original size:29 final size:29
Alignment explanation
Indices: 44548051--44548126 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
44548041 CTGGAAATAT
* *
44548051 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
44548080 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
44548109 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
44548127 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:44548094 original size:58 final size:58
Alignment explanation
Indices: 44547994--44548126 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
44547984 GTGACGAGAT
* * * * * *
44547994 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
44548052 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
44548110 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
44548127 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:44550882 original size:30 final size:30
Alignment explanation
Indices: 44550828--44550890 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
44550818 TATGATATGG
* * *
44550828 TATCTTGGATTTCTGTACCTTGGATATCTT
1 TATCTTGGATTCCTCTACCATGGATATCTT
* *
44550858 TATCTTGGATTCCTCTATCATGGATTTCTT
1 TATCTTGGATTCCTCTACCATGGATATCTT
44550888 TAT
1 TAT
44550891 TCTGGTTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.51
Consensus pattern (30 bp):
TATCTTGGATTCCTCTACCATGGATATCTT
Found at i:44553808 original size:31 final size:31
Alignment explanation
Indices: 44553773--44553833 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
44553763 ATCGAGCCTC
44553773 CCGAAGAATATGTGTGCATTAAGGTTTTAGA
1 CCGAAGAATATGTGTGCATTAAGGTTTTAGA
44553804 CCGAAGAATATGTGTGCATTAAGGTTTTAG
1 CCGAAGAATATGTGTGCATTAAGGTTTTAG
44553834 CCCGGATGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (31 bp):
CCGAAGAATATGTGTGCATTAAGGTTTTAGA
Found at i:44556543 original size:29 final size:29
Alignment explanation
Indices: 44556498--44556555 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
44556488 GAAAAACAAA
*
44556498 ACAAATAAAAATCTACTATTAATTCTATC
1 ACAAATAAAAATATACTATTAATTCTATC
*
44556527 ACAAATAAAAATATACTGTTAATTCTATC
1 ACAAATAAAAATATACTATTAATTCTATC
44556556 CTAAAATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (29 bp):
ACAAATAAAAATATACTATTAATTCTATC
Found at i:44562118 original size:29 final size:29
Alignment explanation
Indices: 44562060--44562174 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
44562050 GTGAGCATGA
* * *
44562060 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
44562088 ATATAAATGTGATTTGGGCCTAATGGACC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
44562117 ATATACAA-GTGATTTGGGCCTAATGGGCC
1 ATATA-AATGTGATTTGGGCCTAATGGGCC
* * * *
44562146 ATATGAATATGA-TTGGACTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
44562174 A
1 A
44562175 GATACTAGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 28 0.37
29 45 0.60
30 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:44562869 original size:55 final size:55
Alignment explanation
Indices: 44562785--44562896 Score: 197
Period size: 55 Copynumber: 2.0 Consensus size: 55
44562775 TGGATAATTT
* *
44562785 GGATGGGACTGCATTGCATGTTTGATGATTTCTCTTTGAATGCTTGTTTTTCATC
1 GGATGGGACTGCATTGCATGTTTGATGATTTCCCTTTGAATGATTGTTTTTCATC
*
44562840 GGATGGGATTGCATTGCATGTTTGATGATTTCCCTTTGAATGATTGTTTTTCATC
1 GGATGGGACTGCATTGCATGTTTGATGATTTCCCTTTGAATGATTGTTTTTCATC
44562895 GG
1 GG
44562897 GGGTTGTACA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.17, C:0.13, G:0.25, T:0.45
Consensus pattern (55 bp):
GGATGGGACTGCATTGCATGTTTGATGATTTCCCTTTGAATGATTGTTTTTCATC
Found at i:44570004 original size:30 final size:30
Alignment explanation
Indices: 44569968--44570068 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
44569958 GACAAGATTG
* * *
44569968 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
44569998 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
44570026 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
44570055 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44570069 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:44570080 original size:29 final size:28
Alignment explanation
Indices: 44569997--44570072 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
44569987 AAAATTGTAC
* *
44569997 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
44570025 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
44570054 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
44570073 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:44577821 original size:30 final size:30
Alignment explanation
Indices: 44577785--44577885 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
44577775 GACAAGATTG
* * *
44577785 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
44577815 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
44577843 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
44577872 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44577886 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:44577897 original size:29 final size:28
Alignment explanation
Indices: 44577814--44577889 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
44577804 AAAATTGTAC
* *
44577814 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
44577842 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
44577871 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
44577890 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:44581727 original size:40 final size:39
Alignment explanation
Indices: 44581682--44581889 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
44581672 CGGAATACAA
*
44581682 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
44581722 CCGGATACAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
44581762 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
44581802 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
44581842 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
44581882 CCGGATAT
1 CCGGATAT
44581890 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:44581822 original size:80 final size:80
Alignment explanation
Indices: 44581682--44581888 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 80
44581672 CGGAATACAA
* * *
44581682 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
*
44581747 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* ** * *
44581762 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACA-ACGACTAGCACAAAT
*
44581826 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
44581842 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
44581889 TCATTCAATT
Statistics
Matches: 107, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
80 106 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:44589681 original size:40 final size:39
Alignment explanation
Indices: 44589636--44589843 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
44589626 CGGAATACAA
*
44589636 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
44589676 CCGGATACAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
44589716 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
44589756 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
44589796 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
44589836 CCGGATAT
1 CCGGATAT
44589844 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:44589776 original size:80 final size:80
Alignment explanation
Indices: 44589636--44589842 Score: 245
Period size: 80 Copynumber: 2.6 Consensus size: 80
44589626 CGGAATACAA
* * *
44589636 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
*
44589701 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* ** * *
44589716 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACA-ACGACTAGCACAAAT
*
44589780 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
44589796 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
44589843 TCATTCAATT
Statistics
Matches: 107, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
80 106 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATACAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:44594656 original size:14 final size:15
Alignment explanation
Indices: 44594632--44594661 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
44594622 TTGCATGATG
44594632 TTTCTTTCTCCTCAT
1 TTTCTTTCTCCTCAT
44594647 TTTC-TTCTCCTCAT
1 TTTCTTTCTCCTCAT
44594661 T
1 T
44594662 CTTTCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTCTTTCTCCTCAT
Found at i:44597815 original size:27 final size:26
Alignment explanation
Indices: 44597714--44597825 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
44597704 AGGAAGCGTC
*
44597714 CTGGTGGCTAC-GCCACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGTT
44597741 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
44597768 CTGGTGGCTCTGCCACAATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* ***
44597796 CTGGTGACTCTATAACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
44597822 CTGG
1 CTGG
44597826 CAGCTATGCT
Statistics
Matches: 76, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.11
27 53 0.70
28 15 0.20
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:44597818 original size:54 final size:54
Alignment explanation
Indices: 44597714--44597825 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
44597704 AGGAAGCGTC
* * *
44597714 CTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTACAACATATATCTGTT
*
44597768 CTGGTGGCT-CTGCCACAATTATCTGTATCTGGTGACTCTATAACAT-TATCTGTT
1 CTGGTGGCTAC-GCCACAATTATCTG-ATCTGGTGACTCTACAACATATATCTGTT
44597822 CTGG
1 CTGG
44597826 CAGCTATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
53 1 0.02
54 35 0.67
55 16 0.31
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTACAACATATATCTGTT
Found at i:44605652 original size:28 final size:26
Alignment explanation
Indices: 44605586--44605670 Score: 125
Period size: 27 Copynumber: 3.2 Consensus size: 26
44605576 AGGAAGTGTC
44605586 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
44605613 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
44605641 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
44605667 CTGG
1 CTGG
44605671 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
26 5 0.09
27 32 0.59
28 17 0.31
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:44607149 original size:24 final size:22
Alignment explanation
Indices: 44607121--44607164 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
44607111 ACAGTTCAAA
44607121 ATTTTTCTTTCCATTTATTAAAAT
1 ATTTTTC--TCCATTTATTAAAAT
*
44607145 ATTTTTCTGCATTTATTAAA
1 ATTTTTCTCCATTTATTAAA
44607165 TCTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
24 7 0.37
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTTTCTCCATTTATTAAAAT
Found at i:44609992 original size:23 final size:23
Alignment explanation
Indices: 44609966--44610010 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
44609956 TGGGTATGTA
*
44609966 ATGACGTTATCTT-ACAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
44609989 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
44610011 TTGAATTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:44610033 original size:14 final size:14
Alignment explanation
Indices: 44610010--44610039 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44610000 TTGAAAATAT
44610010 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
44610024 GTTGATTTGGATTG
1 GTTGAATTGGATTG
44610038 GT
1 GT
44610040 CTCGATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:44611946 original size:48 final size:48
Alignment explanation
Indices: 44611875--44611970 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
44611865 AACATAAAAA
*
44611875 CCACATTCATTAATCAATTTTTCATGGTCTAAATTAAACCACAAATAT
1 CCACATTCATTAATCAAATTTTCATGGTCTAAATTAAACCACAAATAT
*
44611923 CCACATTCATTAATCAAATTTTCATGGTCTAAATTAAACCATAAATAT
1 CCACATTCATTAATCAAATTTTCATGGTCTAAATTAAACCACAAATAT
44611971 TTAATACTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (48 bp):
CCACATTCATTAATCAAATTTTCATGGTCTAAATTAAACCACAAATAT
Found at i:44613346 original size:45 final size:44
Alignment explanation
Indices: 44613241--44613418 Score: 143
Period size: 45 Copynumber: 4.1 Consensus size: 44
44613231 ATGCTATCTC
* * * *
44613241 ATATCGATGCC-ACTATCCCAGGCAGGATCTTACACGAATCA-A-
1 ATATCGATGCCAAC-GTCCCAGACATGATCTTACACGAAACACAT
* *
44613283 ATA-CGATACCAACGTCCCAGACATGATCTTACACGTAACCACAT
1 ATATCGATGCCAACGTCCCAGACATGATCTTACACG-AAACACAT
* *
44613327 ATATCGATGCCAACGTCCCA-ACCGTGGTCTTACACGAAAACACAT
1 ATATCGATGCCAACGTCCCAGA-CATGATCTTACACG-AAACACAT
* * * ** **
44613372 ATATTGATGCCAACATCCTAGATGTGGCCTTACACGAAA-ACAT
1 ATATCGATGCCAACGTCCCAGACATGATCTTACACGAAACACAT
44613415 ATAT
1 ATAT
44613419 TGGAATCCTA
Statistics
Matches: 114, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
41 25 0.22
42 9 0.08
43 9 0.08
44 7 0.06
45 63 0.55
46 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (44 bp):
ATATCGATGCCAACGTCCCAGACATGATCTTACACGAAACACAT
Found at i:44614528 original size:14 final size:16
Alignment explanation
Indices: 44614504--44614536 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
44614494 AAATCATGAA
44614504 AAATATCACACAT-AT
1 AAATATCACACATAAT
44614519 AAAT-TCACACATAAT
1 AAATATCACACATAAT
44614534 AAA
1 AAA
44614537 CACAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATATCACACATAAT
Found at i:44617340 original size:103 final size:103
Alignment explanation
Indices: 44617161--44617367 Score: 396
Period size: 103 Copynumber: 2.0 Consensus size: 103
44617151 AGCATAAGGT
44617161 TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACA
1 TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACA
44617226 TATTTACCTAACGGGTTTGACACTTTGATCACAAATTC
66 TATTTACCTAACGGGTTTGACACTTTGATCACAAATTC
*
44617264 TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACG
1 TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACA
*
44617329 TATTTGCCTAACGGGTTTGACACTTTGATCACAAATTC
66 TATTTACCTAACGGGTTTGACACTTTGATCACAAATTC
44617367 T
1 T
44617368 GTAGATTCAA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (103 bp):
TAGTCGAAAAATAGTGACCTCTAATTATCAAAGGACAATTCTTACATACTTTATCATCTAACACA
TATTTACCTAACGGGTTTGACACTTTGATCACAAATTC
Found at i:44621644 original size:30 final size:29
Alignment explanation
Indices: 44621610--44621669 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
44621600 TTCCCGAGCC
44621610 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGC-AAAGTT
* * * *
44621640 TAGGGGCAAAATTGTAATTTTGCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAGTT
44621669 T
1 T
44621670 GAGTTAAGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (29 bp):
TAGGGGAAAAAGTGTAAATATGCAAAGTT
Found at i:44622455 original size:68 final size:66
Alignment explanation
Indices: 44622383--44622554 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
44622373 CATCATGTGT
* * * *
44622383 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
44622446 TGTAG
62 TGTAG
** * *
44622451 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
44622516 AG
65 AG
* * * *
44622518 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
44622555 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:44622488 original size:64 final size:64
Alignment explanation
Indices: 44622407--44622590 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
44622397 AGACATTATG
* * *
44622407 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
44622471 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
44622536 AA
63 AA
* * *
44622538 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
44622591 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:44626864 original size:68 final size:64
Alignment explanation
Indices: 44626748--44627006 Score: 233
Period size: 68 Copynumber: 3.9 Consensus size: 64
44626738 TGGATGATAC
** * * *
44626748 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCTAC
44626812 AAG
64 --G
* *
44626815 ACATTATGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGTAGACAAGAGAGCTA
44626879 CG
63 CG
* * * *
44626881 GGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAG-G-ACACCATGTAGACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGG-T--A-CTG-AGTGTACACCATGTAGACAAGAGAGC
44626944 TACG
61 TACG
* * *
44626948 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGC
44627007 CGAACTATAT
Statistics
Matches: 159, Mismatches: 20, Indels: 30
0.76 0.10 0.14
Matches are distributed among these distances:
61 2 0.01
62 4 0.03
63 19 0.12
64 20 0.13
65 5 0.03
66 19 0.12
67 36 0.23
68 51 0.32
69 2 0.01
70 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:44630477 original size:30 final size:30
Alignment explanation
Indices: 44630443--44630503 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
44630433 TTCCCGAGCC
44630443 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
44630473 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
44630503 T
1 T
44630504 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:44632826 original size:29 final size:29
Alignment explanation
Indices: 44632793--44632924 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
44632783 GTGACGAGAT
44632793 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44632822 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
44632851 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
44632880 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
44632909 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44632925 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:44643844 original size:40 final size:40
Alignment explanation
Indices: 44643799--44643965 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
44643789 CGGAATATAA
44643799 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
44643839 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
44643879 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
44643919 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
44643958 CCGGATAT
1 CCGGATAT
44643966 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:44647479 original size:30 final size:30
Alignment explanation
Indices: 44647443--44647543 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
44647433 GACAAGATTG
* * *
44647443 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
44647473 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
44647501 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
44647530 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
44647544 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:44647555 original size:29 final size:28
Alignment explanation
Indices: 44647472--44647547 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
44647462 AAAATTGTAC
* *
44647472 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
44647500 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
44647529 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
44647548 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:44656581 original size:40 final size:40
Alignment explanation
Indices: 44656439--44656574 Score: 186
Period size: 40 Copynumber: 3.4 Consensus size: 40
44656429 ATAATAGCTC
**
44656439 GCACAAATGCCTTCGGGA-CTTAACCCGGATTTGGGAACTT
1 GCACAAATGCCTTC-GGATCTTAGTCCGGATTTGGGAACTT
*
44656479 GCACAAATGCCTTCGGATCTTAGTCCGGATTTGGGAACTC
1 GCACAAATGCCTTCGGATCTTAGTCCGGATTTGGGAACTT
* **
44656519 GCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTT
1 GCACAAATGCCTTCGGATCTTAGTCCGGATTTGGGAACTT
44656559 AGCACAAA-GCCTTCGG
1 -GCACAAATGCCTTCGG
44656575 GACTTAGCCT
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.03
40 77 0.89
41 7 0.08
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGATCTTAGTCCGGATTTGGGAACTT
Found at i:44659347 original size:39 final size:39
Alignment explanation
Indices: 44659293--44659483 Score: 283
Period size: 39 Copynumber: 4.9 Consensus size: 39
44659283 AATGTTCGAG
*
44659293 TGATATCCGGGCTAAGCCCGAAGGAAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
44659332 TGATACCCAGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
44659371 TGATATTCGGGCTAAACCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
44659410 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
44659449 TAATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
44659484 GGTTACCATA
Statistics
Matches: 137, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 120 0.88
40 17 0.12
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:44659499 original size:40 final size:40
Alignment explanation
Indices: 44659295--44659513 Score: 239
Period size: 39 Copynumber: 5.6 Consensus size: 40
44659285 TGTTCGAGTG
* * *
44659295 ATATCCGGGCTAAG-CCCGAAGGAAATTGTGCGAGCTATG
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATA
* * * *
44659334 ATACCCAGGCTAAG-CCCGAAGGCAATTGTGCGAGCTATG
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATA
* * * *
44659373 ATATTCGGGCTAA-ACCCGAAGGCAATTGTGCGAGCTATG
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATA
*
44659412 ATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTA
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATA
* * * **
44659451 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACC
1 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATA
* *
44659491 ATAACCGGGCTACGTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
44659514 TGTTTTGAAC
Statistics
Matches: 158, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 118 0.75
40 40 0.25
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATA
Found at i:44662263 original size:25 final size:25
Alignment explanation
Indices: 44662186--44662256 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
44662176 GAGGAAGTGC
* *
44662186 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
44662211 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
44662236 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
44662257 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 31 0.72
26 12 0.28
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:44662269 original size:25 final size:26
Alignment explanation
Indices: 44662196--44662269 Score: 84
Period size: 25 Copynumber: 2.9 Consensus size: 26
44662186 AAAAGGGCTA
44662196 TGCCCCAGTTTACCGAAAAG-GGC-TT
1 TGCCCCAGTTTACC-AAAAGAGGCTTT
44662221 TGCCCCAGTTTACCAAAA-AGGGCTTT
1 TGCCCCAGTTTACCAAAAGA-GGCTTT
**
44662247 TGCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTACCAAAAGAGGCT
44662270 AGGCCTCCAG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 4 0.09
25 28 0.65
26 11 0.26
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (26 bp):
TGCCCCAGTTTACCAAAAGAGGCTTT
Found at i:44662522 original size:31 final size:31
Alignment explanation
Indices: 44662476--44662552 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
44662466 TTGTTACAGT
* *
44662476 AAAGGCTTCGACCCAGTGATATGTATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
44662507 AAAGGTTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
44662538 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
44662553 ATATATGCTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:44664590 original size:81 final size:82
Alignment explanation
Indices: 44664488--44664688 Score: 282
Period size: 81 Copynumber: 2.5 Consensus size: 82
44664478 CGTTTTTTGC
* * *
44664488 TAAAACGCCGCTAAAAA-TAGAGCAATAGCTGCGTTTTCGGCAAAACGCCGCTAAAAACCAGAGC
1 TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGTTTTCGGCAAAACGCCGCTAAAAACCAGAGA
*
44664552 ATTAG-AGTGCTTTCA-G
66 ATTAGCAGCGCTTT-AGG
* * *
44664568 TAAAACGCTGCTAAAAACTAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAACCAGAGA
1 TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGTTTTCGGCAAAACGCCGCTAAAAACCAGAGA
*
44664633 ATTAGCGGCGCTTTAGG
66 ATTAGCAGCGCTTTAGG
*
44664650 TAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT
1 TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCG-TTTT
44664689 GCTAAAACAT
Statistics
Matches: 106, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
80 16 0.15
81 48 0.45
82 39 0.37
83 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (82 bp):
TAAAACGCCGCTAAAAACTAGAGCATTAGCGGCGTTTTCGGCAAAACGCCGCTAAAAACCAGAGA
ATTAGCAGCGCTTTAGG
Found at i:44664662 original size:122 final size:121
Alignment explanation
Indices: 44664457--44664678 Score: 313
Period size: 122 Copynumber: 1.8 Consensus size: 121
44664447 TAAAATGACC
* * * * * *
44664457 CTAAAAACATAGCAATAGCGGCGTTTTTTGCTAAAACGCCGCTAAAAATAGAGCAATAGCTGCGT
1 CTAAAAACAGAGCAATAGCGGCGTCTTTCGCTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGC
*
44664522 TTTCGGCAAAACGCCGCTAAAAACCAGAGCATTAGAGTGCTTTCAGTAAAACGCTG
66 TTTAGGCAAAACGCCGCTAAAAACCAGAGCATTAGAGTGCTTTCAGTAAAACGCTG
* *
44664578 CTAAAAACTAGAGCATTAGCGGCG-CTTTCGGTAAAACGCCGCTAAAAACCAGAG-AATTAGCGG
1 CTAAAAAC-AGAGCAATAGCGGCGTCTTTCGCTAAAACGCCGCTAAAAA-CAGAGCAA-TAGCGG
*
44664641 CGCTTTAGGTAAAACGCCGCTAAAAACCAGAGCATTAG
63 CGCTTTAGGCAAAACGCCGCTAAAAACCAGAGCATTAG
44664679 CGGCGCTTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
121 31 0.35
122 57 0.65
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (121 bp):
CTAAAAACAGAGCAATAGCGGCGTCTTTCGCTAAAACGCCGCTAAAAACAGAGCAATAGCGGCGC
TTTAGGCAAAACGCCGCTAAAAACCAGAGCATTAGAGTGCTTTCAGTAAAACGCTG
Found at i:44664706 original size:41 final size:41
Alignment explanation
Indices: 44664424--44664696 Score: 270
Period size: 41 Copynumber: 6.7 Consensus size: 41
44664414 TTGTAAAATA
* * *
44664424 CAGAGCAATAGCGGCGTTTTTA-GTAAAATGACC-CTAAAAA-
1 CAGAGCATTAGCGGCG-CTTTAGGTAAAACG-CCGCTAAAAAC
* * * * *
44664464 CATAGCAATAGCGGCGTTTTTTGCTAAAACGCCGCTAAAAA-
1 CAGAGCATTAGCGGCG-CTTTAGGTAAAACGCCGCTAAAAAC
* * * * * *
44664505 TAGAGCAATAGCTGCGTTTTCGGCAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
* * *
44664546 CAGAGCATTAG-AGTGCTTTCA-GTAAAACGCTGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTT-AGGTAAAACGCCGCTAAAAAC
* *
44664586 TAGAGCATTAGCGGCGCTTTCGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
*
44664627 CAGAGAATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
1 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
* *
44664668 CAGAGCATTAGCGGCGCTTTTGCTAAAAC
1 CAGAGCATTAGCGGCGCTTTAGGTAAAAC
44664697 ATTGCTAAAA
Statistics
Matches: 198, Mismatches: 29, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
40 75 0.38
41 123 0.62
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCGCTAAAAAC
Found at i:44664894 original size:14 final size:14
Alignment explanation
Indices: 44664872--44664916 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
44664862 TTAATTATCA
*
44664872 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
44664886 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
44664900 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
44664914 TTA
1 TTA
44664917 AGATTTAGGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:44664988 original size:7 final size:7
Alignment explanation
Indices: 44664961--44665095 Score: 96
Period size: 7 Copynumber: 19.1 Consensus size: 7
44664951 GATGAATGAT
44664961 GGGTTTA
1 GGGTTTA
* *
44664968 GAGATTA
1 GGGTTTA
*
44664975 TGGTTTA
1 GGGTTTA
44664982 GGGTTTA
1 GGGTTTA
44664989 GGGTTTA
1 GGGTTTA
44664996 GGG-TT-
1 GGGTTTA
44665001 GGAGTTTA
1 GG-GTTTA
* *
44665009 AGGTGTAA
1 GGGT-TTA
*
44665017 GGGTTTG
1 GGGTTTA
*
44665024 GGGTTAA
1 GGGTTTA
*
44665031 GGGTTAA
1 GGGTTTA
*
44665038 GGGTTAA
1 GGGTTTA
44665045 GGGTTTA
1 GGGTTTA
*
44665052 GTGTTTA
1 GGGTTTA
*
44665059 GTGTTTA
1 GGGTTTA
*
44665066 TGGG-ATA
1 -GGGTTTA
*
44665073 GGGTTAA
1 GGGTTTA
44665080 GAGGTTTA
1 G-GGTTTA
44665088 GGGTTTA
1 GGGTTTA
44665095 G
1 G
44665096 ATTAATTAGT
Statistics
Matches: 101, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
5 2 0.02
6 6 0.06
7 79 0.78
8 14 0.14
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.39
Consensus pattern (7 bp):
GGGTTTA
Found at i:44670105 original size:26 final size:28
Alignment explanation
Indices: 44670071--44670122 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
44670061 TATTTTGATA
*
44670071 ATGAA-TTT-TAATTTTTTATATTTTGC
1 ATGAATTTTATAATATTTTATATTTTGC
*
44670097 ATGACTTTTATAATATTTTATATTTT
1 ATGAATTTTATAATATTTTATATTTT
44670123 TTAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 3 0.14
28 15 0.68
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.62
Consensus pattern (28 bp):
ATGAATTTTATAATATTTTATATTTTGC
Found at i:44673191 original size:40 final size:40
Alignment explanation
Indices: 44673083--44673292 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
44673073 CGGGATTTAA
* * * * *
44673083 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
44673123 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44673163 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44673203 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44673243 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
44673283 CCGGATATAT
1 CCGGATATAT
44673293 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Done.