Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 246 of 325
Found at i:77199509 original size:43 final size:43
Alignment explanation
Indices: 77199308--77199697 Score: 680
Period size: 43 Copynumber: 9.2 Consensus size: 43
77199298 GCATGAAACT
*
77199308 CGGTGATGTGTATT-GGGGCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
77199350 CGGTGATGTGTATT-GGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
77199392 CGGTGATGTGTATT-GGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
77199434 CGGTGATGTGTATT-GGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
77199476 CGATGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
77199519 CGATGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
77199562 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
77199605 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* **
77199648 CGGTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
77199691 CGGTGAT
1 CGGTGAT
77199698 TCGAGCAAGG
Statistics
Matches: 339, Mismatches: 8, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
42 138 0.41
43 201 0.59
ACGTcount: A:0.11, C:0.24, G:0.34, T:0.31
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:77199954 original size:29 final size:28
Alignment explanation
Indices: 77199854--77200012 Score: 124
Period size: 29 Copynumber: 5.5 Consensus size: 28
77199844 ATGATTAGAG
* *
77199854 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCGAATT-CTTTAACCGA
** **
77199883 GCACTATGTGTGCGAGA-TCAGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
77199911 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCGAATT-CTTTAACCGA
** **
77199941 GCACTATGTGTGCGAGA-TCGGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
* * *
77199969 GGCACTGTGTGTGCGAGTTCTTCAACCGA
1 -GCACTATGTGTGCGAATTCTTTAACCGA
77199998 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
77200013 GATCGGTCAG
Statistics
Matches: 99, Mismatches: 24, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
28 27 0.27
29 64 0.65
30 8 0.08
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:77200029 original size:28 final size:28
Alignment explanation
Indices: 77199883--77200037 Score: 89
Period size: 29 Copynumber: 5.4 Consensus size: 28
77199873 CTTTAACCGA
* * *
77199883 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTCACTG-G
* ** * * *
77199912 GCACTGTGTGTGCGA-ATTCCTTTAACCGA
1 GCACTATGTGTGCGAGA-T-CGGTCACTGG
* *
77199941 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTCACTG-G
* * * * *
77199970 GCACTGTGTGTGCGAGTTC-TTCAACCGA
1 GCACTATGTGTGCGAGATCGGTC-ACTGG
*
77199998 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCACTGG
*
77200026 GCACTAAGTGTG
1 GCACTATGTGTG
77200038 TGAAATGAGA
Statistics
Matches: 94, Mismatches: 26, Indels: 13
0.71 0.20 0.10
Matches are distributed among these distances:
28 37 0.39
29 51 0.54
30 6 0.06
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCACTGG
Found at i:77200039 original size:58 final size:58
Alignment explanation
Indices: 77199851--77200019 Score: 295
Period size: 58 Copynumber: 2.9 Consensus size: 58
77199841 CGAATGATTA
* *
77199851 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
77199909 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
77199967 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
77200020 CAGTGGGCAC
Statistics
Matches: 107, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
57 31 0.29
58 76 0.71
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:77203992 original size:35 final size:35
Alignment explanation
Indices: 77203953--77204025 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
77203943 GGTATGTGAT
77203953 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
77203988 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
77204023 ATA
1 ATA
77204026 AAGAATGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTGATCTGACGAGA
Found at i:77204374 original size:40 final size:40
Alignment explanation
Indices: 77204319--77204399 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
77204309 GAAAGTGTTA
77204319 TGTGATTTCAAACATTTGGTTTGTTTTTAAGTTCAACTGT
1 TGTGATTTCAAACATTTGGTTTGTTTTTAAGTTCAACTGT
*
77204359 TGTGATTTCGAACATTTGGTTTGTTTTTAAGTTCAACTGT
1 TGTGATTTCAAACATTTGGTTTGTTTTTAAGTTCAACTGT
77204399 T
1 T
77204400 TAAATTGCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.21, C:0.10, G:0.19, T:0.51
Consensus pattern (40 bp):
TGTGATTTCAAACATTTGGTTTGTTTTTAAGTTCAACTGT
Found at i:77207255 original size:11 final size:11
Alignment explanation
Indices: 77207239--77207263 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
77207229 CACATAATTG
77207239 ACCCCTAGTGA
1 ACCCCTAGTGA
77207250 ACCCCTAGTGA
1 ACCCCTAGTGA
77207261 ACC
1 ACC
77207264 TCTTTGAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.40, G:0.16, T:0.16
Consensus pattern (11 bp):
ACCCCTAGTGA
Found at i:77207368 original size:15 final size:15
Alignment explanation
Indices: 77207348--77207376 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
77207338 TAAGAATTTT
77207348 TCCCTTTTTATTGAC
1 TCCCTTTTTATTGAC
77207363 TCCCTTTTTATTGA
1 TCCCTTTTTATTGA
77207377 GATTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.24, G:0.07, T:0.55
Consensus pattern (15 bp):
TCCCTTTTTATTGAC
Found at i:77208786 original size:24 final size:24
Alignment explanation
Indices: 77208735--77208852 Score: 170
Period size: 23 Copynumber: 5.0 Consensus size: 24
77208725 GCTTTATCAT
*
77208735 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
77208760 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77208784 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
77208807 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
77208830 ATAACTGGGGCATATGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
77208853 GCACTTCCTC
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
23 45 0.52
24 30 0.34
25 12 0.14
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:77208930 original size:20 final size:20
Alignment explanation
Indices: 77208905--77208966 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
77208895 AATACACCAC
77208905 GTGCATATCATACATATCAT
1 GTGCATATCATACATATCAT
*
77208925 GTGCATATCATACATGTCAT
1 GTGCATATCATACATATCAT
*
77208945 GTGCATATCATACATACCAT
1 GTGCATATCATACATATCAT
77208965 GT
1 GT
77208967 TTATCAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (20 bp):
GTGCATATCATACATATCAT
Found at i:77214891 original size:49 final size:49
Alignment explanation
Indices: 77214726--77214908 Score: 204
Period size: 49 Copynumber: 3.7 Consensus size: 49
77214716 CTAGTACGCA
* ** * *
77214726 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * ** *
77214776 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACG
* * * *
77214827 TAATAGTCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
77214876 TAGTAGCCTGCACTTAGTACTACACACATGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
77214909 TCACAATAGA
Statistics
Matches: 108, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
49 38 0.35
50 35 0.32
51 35 0.32
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:77217664 original size:17 final size:19
Alignment explanation
Indices: 77217632--77217667 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
77217622 TAAATAAAAG
77217632 AAAAATTAATAATTAAATT
1 AAAAATTAATAATTAAATT
77217651 AAAAA-TAA-AATTAAATT
1 AAAAATTAATAATTAAATT
77217668 TCAATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
18 3 0.18
19 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTAATAATTAAATT
Found at i:77221821 original size:20 final size:18
Alignment explanation
Indices: 77221792--77221836 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
77221782 AATGAAAAGT
77221792 AGGG-AAAGAAAGAAAGAA
1 AGGGAAAAGAAAG-AAGAA
77221810 AGGAGAAAAGAAAGAAGAA
1 AGG-GAAAAGAAAGAAGAA
77221829 AGGGAAAA
1 AGGGAAAA
77221837 TTTAAGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGGGAAAAGAAAGAAGAA
Found at i:77222687 original size:20 final size:20
Alignment explanation
Indices: 77222662--77222704 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
77222652 AAGTGAATTG
77222662 AAATATATAT-ATTGAACTGA
1 AAATATATATGATT-AACTGA
*
77222682 AAATATATATGATTAGCTGA
1 AAATATATATGATTAACTGA
77222702 AAA
1 AAA
77222705 ATGTACTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.33
Consensus pattern (20 bp):
AAATATATATGATTAACTGA
Found at i:77222689 original size:18 final size:19
Alignment explanation
Indices: 77222655--77222691 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
77222645 TAATGTAAAG
*
77222655 TGAATTGAAATATATATAT
1 TGAACTGAAATATATATAT
77222674 TGAACTGAAA-ATATATAT
1 TGAACTGAAATATATATAT
77222692 GATTAGCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.38
Consensus pattern (19 bp):
TGAACTGAAATATATATAT
Found at i:77223107 original size:18 final size:18
Alignment explanation
Indices: 77223084--77223181 Score: 81
Period size: 18 Copynumber: 5.4 Consensus size: 18
77223074 TAAATAAATG
*
77223084 TACTGAATAATTGACTAT
1 TACTGAATAATTGACTGT
*
77223102 TACTGAA-AGACTGACTGT
1 TACTGAATA-ATTGACTGT
* *
77223120 TACTGAATAATTGACCGC
1 TACTGAATAATTGACTGT
** *
77223138 TACTGAATAACCGATTGT
1 TACTGAATAATTGACTGT
* * * *
77223156 TATTGAATAATTAATTAT
1 TACTGAATAATTGACTGT
77223174 TACTGAAT
1 TACTGAAT
77223182 GATAATGATA
Statistics
Matches: 62, Mismatches: 16, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
17 1 0.02
18 60 0.97
19 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (18 bp):
TACTGAATAATTGACTGT
Found at i:77223131 original size:36 final size:36
Alignment explanation
Indices: 77223084--77223181 Score: 108
Period size: 36 Copynumber: 2.7 Consensus size: 36
77223074 TAAATAAATG
*
77223084 TACTGAATAATTGACTATTACTGAA-AGACTGACTGT
1 TACTGAATAATTGACTATTACTGAATA-ACCGACTGT
*** *
77223120 TACTGAATAATTGACCGCTACTGAATAACCGATTGT
1 TACTGAATAATTGACTATTACTGAATAACCGACTGT
* * *
77223156 TATTGAATAATTAATTATTACTGAAT
1 TACTGAATAATTGACTATTACTGAAT
77223182 GATAATGATA
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
36 49 0.98
37 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (36 bp):
TACTGAATAATTGACTATTACTGAATAACCGACTGT
Found at i:77225183 original size:43 final size:43
Alignment explanation
Indices: 77225115--77225234 Score: 161
Period size: 43 Copynumber: 2.8 Consensus size: 43
77225105 TCTGAATTCA
* *
77225115 TTCACCGGCATTTC-GCCTACTAGGCTCGAAGCCCGATATTAT
1 TTCACCGGCATTACAGCCTGCTAGGCTCGAAGCCCGATATTAT
* * *
77225157 TTCATCGGCATTACAGCCTGCTAGGCTCGAGGCCTGATATTAT
1 TTCACCGGCATTACAGCCTGCTAGGCTCGAAGCCCGATATTAT
* * *
77225200 TTCACCGGCATTATAGCCTGCTAGGGTCAAAGCCC
1 TTCACCGGCATTACAGCCTGCTAGGCTCGAAGCCC
77225235 AAATTCATCA
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 12 0.18
43 54 0.82
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (43 bp):
TTCACCGGCATTACAGCCTGCTAGGCTCGAAGCCCGATATTAT
Found at i:77227543 original size:26 final size:26
Alignment explanation
Indices: 77227507--77227616 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
77227497 TGATACAAAT
77227507 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
77227533 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
77227559 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
77227585 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
77227611 TGATAA
1 TGATAA
77227617 GAATTTCATA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:77229262 original size:27 final size:27
Alignment explanation
Indices: 77229219--77229331 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
77229209 GAGGAAGCGT
*
77229219 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
77229246 TCTGGTGGCTCTACCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
77229273 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
77229301 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
77229327 TCTGG
1 TCTGG
77229332 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 53 0.73
28 15 0.21
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:77229324 original size:54 final size:54
Alignment explanation
Indices: 77229217--77229331 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
77229207 TGGAGGAAGC
*
77229217 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTACCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTACCACATATATCT
* * * **
77229271 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTACCACATATATCT
77229325 GTTCTGG
1 GTTCTGG
77229332 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 37 0.69
55 17 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTACCACATATATCT
Found at i:77233790 original size:25 final size:25
Alignment explanation
Indices: 77233762--77233809 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
77233752 TTATACCATG
* * *
77233762 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
77233787 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
77233810 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:77233899 original size:9 final size:9
Alignment explanation
Indices: 77233849--77233901 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
77233839 ATAAACATGG
77233849 TATGTATGA
1 TATGTATGA
77233858 TATGCTCATGA
1 TATG-T-ATGA
*
77233869 CATGTATGA
1 TATGTATGA
*
77233878 TATGCACATGA
1 TATG--TATGA
77233889 TATGTATGA
1 TATGTATGA
77233898 TATG
1 TATG
77233902 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 19 0.53
10 2 0.06
11 15 0.42
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:77233909 original size:20 final size:20
Alignment explanation
Indices: 77233843--77233909 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
77233833 ATTTTGATAA
*
77233843 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
77233863 TCATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
77233883 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
77233903 ACATGAT
1 ACATGAT
77233910 GTAATCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:77234014 original size:24 final size:23
Alignment explanation
Indices: 77233958--77234124 Score: 228
Period size: 24 Copynumber: 7.0 Consensus size: 23
77233948 GAGGAAGTGA
77233958 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
77233981 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
77234004 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
77234028 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
77234052 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
77234075 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
77234100 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
77234124 A
1 A
77234125 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
23 43 0.33
24 76 0.58
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:77234027 original size:47 final size:47
Alignment explanation
Indices: 77233958--77234124 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 47
77233948 GAGGAAGTGA
*
77233958 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
77234004 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
77234052 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
77234100 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
77234125 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 65 0.60
48 31 0.29
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:77234074 original size:71 final size:71
Alignment explanation
Indices: 77233958--77234123 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
77233948 GAGGAAGTGA
* *
77233958 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
77234023 GTTATC
66 GTTATC
*
77234029 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
77234094 GTTATT
66 GTTATC
*
77234100 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
77234124 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:77234350 original size:31 final size:31
Alignment explanation
Indices: 77234315--77234378 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
77234305 CGTTTACAGT
77234315 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
77234346 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
77234377 AA
1 AA
77234379 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:77236010 original size:44 final size:46
Alignment explanation
Indices: 77235959--77236047 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
77235949 TACAACAGCT
77235959 ATTCCATTCAACCAAACACA-AGAATT-C-TATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-ATAGAATTACTTATTACAGCTCTATTCC
*
77236003 ATTCCATTCAACCAAACAATTGAATTACTTATTACAGCTCTATTC
1 ATTCCATTCAACCAAACAATAGAATTACTTATTACAGCTCTATTC
77236048 TATTACAGCT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
43 1 0.02
44 23 0.56
45 1 0.02
46 16 0.39
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAATAGAATTACTTATTACAGCTCTATTCC
Found at i:77236053 original size:16 final size:16
Alignment explanation
Indices: 77236033--77236103 Score: 90
Period size: 16 Copynumber: 4.4 Consensus size: 16
77236023 TGAATTACTT
*
77236033 ATTACAGCTCTATTCT
1 ATTACAGCTCTATTCC
*
77236049 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
* *
77236065 ATTACAGTTCTATTCA
1 ATTACAGCTCTATTCC
77236081 ATTACAGC-CTTATTCC
1 ATTACAGCTC-TATTCC
77236097 ATTACAG
1 ATTACAG
77236104 TGAACCAAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
15 1 0.02
16 46 0.98
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:77236077 original size:32 final size:32
Alignment explanation
Indices: 77236033--77236104 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
77236023 TGAATTACTT
* * *
77236033 ATTACAGCTCTATTCTATTACAGCTTTATTCC
1 ATTACAGTTCTATTCAATTACAGCCTTATTCC
77236065 ATTACAGTTCTATTCAATTACAGCCTTATTCC
1 ATTACAGTTCTATTCAATTACAGCCTTATTCC
77236097 ATTACAGT
1 ATTACAGT
77236105 GAACCAAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.42
Consensus pattern (32 bp):
ATTACAGTTCTATTCAATTACAGCCTTATTCC
Found at i:77236674 original size:23 final size:24
Alignment explanation
Indices: 77236651--77236697 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
77236641 TAGAAATTAT
77236651 CAAAAACGGAACAAAAATCATATCA
1 CAAAAACGGAACAAAAATCATAT-A
77236676 CAAAAACGGAACAAAAATCATA
1 CAAAAACGGAACAAAAATCATA
77236698 CCTTAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.62, C:0.19, G:0.09, T:0.11
Consensus pattern (24 bp):
CAAAAACGGAACAAAAATCATATA
Found at i:77237587 original size:13 final size:13
Alignment explanation
Indices: 77237569--77237600 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
77237559 GAGCACGCAT
*
77237569 AAAACATATCTTG
1 AAAACATAACTTG
77237582 AAAACATAACTTG
1 AAAACATAACTTG
77237595 AAAACA
1 AAAACA
77237601 GAGTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.06, T:0.22
Consensus pattern (13 bp):
AAAACATAACTTG
Found at i:77244048 original size:12 final size:12
Alignment explanation
Indices: 77244003--77244053 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
77243993 TGTGTTAAAA
*
77244003 TATATATTAAAT
1 TATATATTATAT
77244015 TAT-TATTATA-
1 TATATATTATAT
**
77244025 T-TATGGTATAT
1 TATATATTATAT
77244036 TATATATTATAT
1 TATATATTATAT
77244048 TATATA
1 TATATA
77244054 AATAAGTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
9 1 0.03
10 6 0.19
11 7 0.23
12 17 0.55
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:77244079 original size:10 final size:10
Alignment explanation
Indices: 77244064--77244111 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
77244054 AATAAGTAAA
77244064 GAAACAGAAT
1 GAAACAGAAT
77244074 GAAACAGAAT
1 GAAACAGAAT
*
77244084 GAAAGCA-AAC
1 GAAA-CAGAAT
*
77244094 GAAACAGAGAA
1 GAAACAGA-AT
77244105 GAAACAG
1 GAAACAG
77244112 GGGAGAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 2 0.06
10 21 0.64
11 10 0.30
ACGTcount: A:0.60, C:0.12, G:0.23, T:0.04
Consensus pattern (10 bp):
GAAACAGAAT
Found at i:77245397 original size:18 final size:19
Alignment explanation
Indices: 77245376--77245414 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
77245366 ATATATAGAT
77245376 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
77245394 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
77245413 AT
1 AT
77245415 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:77245933 original size:18 final size:19
Alignment explanation
Indices: 77245912--77245952 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
77245902 AATGAAATGA
77245912 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
77245930 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
77245949 GAAA
1 GAAA
77245953 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:77249517 original size:43 final size:43
Alignment explanation
Indices: 77249456--77249614 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
77249446 CAAAGCCATA
* * *
77249456 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCCACTG
1 TCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAATG
* * * * *
77249499 TCCCAGACAGGGTCTTACATGAAATTA-ATTAACGATTCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACA-TATCGATGCCAATG
* * * *
77249542 TCCCAAACATGGTCTTACACGTAATCACA-ATACAATGCCAATT
1 TCCCAGACATGGTCTTACATGTAATCACATAT-CGATGCCAATG
*
77249585 TCCAAGACATGGTCTTACATGTAATCACAT
1 TCCCAGACATGGTCTTACATGTAATCACAT
77249615 CTCGGTAACA
Statistics
Matches: 92, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 2 0.02
43 89 0.97
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.29
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCACATATCGATGCCAATG
Found at i:77253529 original size:46 final size:47
Alignment explanation
Indices: 77253395--77253657 Score: 247
Period size: 47 Copynumber: 5.6 Consensus size: 47
77253385 GTAAGGTGCT
* * *
77253395 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCTAGTC
* *
77253442 GATGTCATGTCCCAGACATGGTCTTACACTGGC-CATCATCTCATAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTC-TAGTC
* * *
77253490 GATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCGAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCTAGTC
*
77253535 TGATG-CATGTCCCAGACAT-GTCTTACACTAGCATT-CATCT-TAGTGCC
1 -GATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACATCTCTAGT--C
* * * * * * *
77253582 GATGCCATGTCCCAAACATGGTCTTACACTAGCTTCCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACAT-CTCTAGTC
*
77253630 GATG-CATGTCCCAAACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
77253658 AGCACACACA
Statistics
Matches: 189, Mismatches: 15, Indels: 25
0.83 0.07 0.11
Matches are distributed among these distances:
45 5 0.03
46 69 0.37
47 83 0.44
48 29 0.15
49 1 0.01
50 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCTAGTC
Found at i:77253638 original size:47 final size:46
Alignment explanation
Indices: 77253441--77253661 Score: 177
Period size: 46 Copynumber: 4.7 Consensus size: 46
77253431 TATCTCAAGT
* * *
77253441 CGATGTCATGTCCCAGACATGGTCTTACACTGGCCA-TCATCTCATAGT--
1 CGATG-CATGTCCCAAACAT-GTCTTACACTAG-CATTCA--TAATAGTGC
* * * * * *
77253489 CGATGCATGTCCTAGACATGTCTTACACTGGC-TTACAT-CTCGAGAC
1 CGATGCATGTCCCAAACATGTCTTACACTAGCATT-CATAATAGTG-C
* * **
77253535 TGATGCATGTCCCAGACATGTCTTACACTAGCATTCATCTTAGTGC
1 CGATGCATGTCCCAAACATGTCTTACACTAGCATTCATAATAGTGC
77253581 CGATGCCATGTCCCAAACATGGTCTTACACTAGC-TTCCATAAT-GTGGC
1 CGATG-CATGTCCCAAACAT-GTCTTACACTAGCATT-CATAATAGT-GC
77253629 CGATGCATGTCCCAAACATGTCTTACACTAGCA
1 CGATGCATGTCCCAAACATGTCTTACACTAGCA
77253662 CACACAAGTG
Statistics
Matches: 147, Mismatches: 14, Indels: 25
0.79 0.08 0.13
Matches are distributed among these distances:
43 2 0.01
44 1 0.01
45 2 0.01
46 64 0.44
47 49 0.33
48 29 0.20
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGCATTCATAATAGTGC
Found at i:77254054 original size:30 final size:30
Alignment explanation
Indices: 77253975--77254057 Score: 148
Period size: 30 Copynumber: 2.8 Consensus size: 30
77253965 ATTCACATCC
* *
77253975 TTGGTAAAATGACCATTTTGCCCCTAGTCT
1 TTGGCAAAATGACCATTTTTCCCCTAGTCT
77254005 TTGGCAAAATGACCATTTTTCCCCTAGTCT
1 TTGGCAAAATGACCATTTTTCCCCTAGTCT
77254035 TTGGCAAAATGACCATTTTTCCC
1 TTGGCAAAATGACCATTTTTCCC
77254058 ATAGGCTTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.36
Consensus pattern (30 bp):
TTGGCAAAATGACCATTTTTCCCCTAGTCT
Found at i:77259773 original size:41 final size:41
Alignment explanation
Indices: 77259728--77259845 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
77259718 TGAAAGATAA
77259728 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
77259769 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
77259799 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
77259840 ATGTAG
1 ATGTAG
77259846 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:77259784 original size:71 final size:71
Alignment explanation
Indices: 77259696--77259859 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
77259686 GAGATGTATC
77259696 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
77259761 AGGACA
66 AGGACA
77259767 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
77259832 AGGACA
66 AGGACA
77259838 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
77259860 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:77266882 original size:41 final size:41
Alignment explanation
Indices: 77266837--77266954 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
77266827 TGAAAGATAA
77266837 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
77266878 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
77266908 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
77266949 ATGTAG
1 ATGTAG
77266955 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:77266893 original size:71 final size:71
Alignment explanation
Indices: 77266805--77266968 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
77266795 GAGATGTATC
77266805 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
77266870 AGGACA
66 AGGACA
77266876 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
77266941 AGGACA
66 AGGACA
77266947 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
77266969 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:77273245 original size:47 final size:48
Alignment explanation
Indices: 77273174--77273390 Score: 247
Period size: 47 Copynumber: 4.6 Consensus size: 48
77273164 GTAAGGTGCC
77273174 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGTC-
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AGTCT
* * *
77273221 GGTGCCATGTCCCAGACATGGTCTTACACTGAC-CATCATCTC-GTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAGT--CT
* *
77273269 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AGTCT
* * *
77273315 GATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTCAGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAGT-CT
77273361 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
77273391 AGCTTCCATA
Statistics
Matches: 147, Mismatches: 12, Indels: 21
0.82 0.07 0.12
Matches are distributed among these distances:
45 4 0.03
46 63 0.43
47 66 0.45
48 14 0.10
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAGTCT
Found at i:77273308 original size:46 final size:48
Alignment explanation
Indices: 77273171--77273436 Score: 241
Period size: 47 Copynumber: 5.7 Consensus size: 48
77273161 TGGGTAAGGT
* * *
77273171 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA
* * * *
77273218 GTCGGTGCCATGTCCCAGACATGGTCTTACACTGAC-CATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCGTA
77273266 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA
* * * *
77273311 GGCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCACT-CGTCTCAGT-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACATCTC-GTA
* * * * *
77273358 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTTCCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACAT-CTCGTA
* *
77273406 GCCGATG-CATGTCCAAGACAT-GTGTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
77273437 AGCACACATA
Statistics
Matches: 188, Mismatches: 19, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
45 1 0.01
46 74 0.39
47 85 0.45
48 27 0.14
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGTA
Found at i:77273434 original size:140 final size:141
Alignment explanation
Indices: 77273174--77273436 Score: 349
Period size: 140 Copynumber: 1.9 Consensus size: 141
77273164 GTAAGGTGCC
* * *
77273174 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGGTGCCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGTCGATGCCATGTCCCAGACA
* *
77273239 TGGTCTTACACTGACCATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAC
66 TGGTCTTACACTGACCATCATATCGTAGCCGATGCATGTCCAAGACATGTCTTACACTGGCTTAC
77273304 ATCTCGAGGCT
131 ATCTCGAGGCT
*
77273315 GATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTC-AGTGCTGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACAT-ATCTCAAGT-C-GATGCCATGTCCCAG
* * * *
77273376 ACATGGTCTTACACT-AGCTTCCATAAT-GTGGCCGATGCATGTCCAAGACATGTGTTACACT
63 ACATGGTCTTACACTGACCAT-CAT-ATCGTAGCCGATGCATGTCCAAGACATGTCTTACACT
77273437 AGCACACATA
Statistics
Matches: 107, Mismatches: 10, Indels: 11
0.84 0.08 0.09
Matches are distributed among these distances:
138 4 0.04
139 21 0.20
140 77 0.72
141 5 0.05
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (141 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGTCGATGCCATGTCCCAGACA
TGGTCTTACACTGACCATCATATCGTAGCCGATGCATGTCCAAGACATGTCTTACACTGGCTTAC
ATCTCGAGGCT
Found at i:77274148 original size:12 final size:12
Alignment explanation
Indices: 77274131--77274155 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
77274121 CAAAAATGTA
77274131 AAAATCATCAAG
1 AAAATCATCAAG
77274143 AAAATCATCAAG
1 AAAATCATCAAG
77274155 A
1 A
77274156 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:77274738 original size:26 final size:26
Alignment explanation
Indices: 77274709--77274760 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
77274699 AGAGTCAATC
77274709 AAACAATTTTGATTCTCCATAGTTTT
1 AAACAATTTTGATTCTCCATAGTTTT
77274735 AAACAATTTTGATTCTCCATAGTTTT
1 AAACAATTTTGATTCTCCATAGTTTT
77274761 TCCTTTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (26 bp):
AAACAATTTTGATTCTCCATAGTTTT
Found at i:77275023 original size:2 final size:2
Alignment explanation
Indices: 77275016--77275046 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
77275006 TCATCTCATG
77275016 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
77275047 GTATCACAAT
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:77276286 original size:26 final size:26
Alignment explanation
Indices: 77276247--77276303 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
77276237 TCTCATTCCT
*
77276247 ATTTTACCCCTAGTAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGACG
* *
77276273 ATTTTATCCTTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
77276299 ATTTT
1 ATTTT
77276304 GGTTCAGGTA
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:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:77276480 original size:6 final size:6
Alignment explanation
Indices: 77276466--77276499 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
77276456 CAAATGACTT
* *
77276466 ATTTAC ATTTTC ATTTCC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
77276500 TTGGAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.56
Consensus pattern (6 bp):
ATTTCC
Found at i:77283094 original size:80 final size:80
Alignment explanation
Indices: 77283010--77283158 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
77283000 TATGGTAACC
* * * *
77283010 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
77283074 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
77283090 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
77283155 CCGG
66 CCGG
77283159 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:77283100 original size:40 final size:38
Alignment explanation
Indices: 77283051--77283158 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
77283041 ATCACGATTT
*
77283051 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
77283091 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
77283131 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
77283159 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:77287118 original size:25 final size:25
Alignment explanation
Indices: 77287089--77287136 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
77287079 TTATAATATG
* * *
77287089 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
77287114 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
77287137 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:77287239 original size:20 final size:20
Alignment explanation
Indices: 77287179--77287239 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
77287169 ATAAATATGG
*
77287179 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
77287199 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
77287219 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
77287239 T
1 T
77287240 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:77287315 original size:24 final size:24
Alignment explanation
Indices: 77287288--77287454 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
77287278 GAGGAAGTGA
77287288 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
77287312 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
77287336 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
77287360 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
77287383 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
77287407 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
77287431 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
77287455 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 101 0.75
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:77287405 original size:71 final size:71
Alignment explanation
Indices: 77287288--77287455 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
77287278 GAGGAAGTGA
77287288 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
77287353 AGTTATC
65 AGTTATC
** *
77287360 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
77287425 GTTATT
66 GTTATC
*
77287431 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
77287456 TGATAAAGCA
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 54 0.61
72 35 0.39
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:77287681 original size:31 final size:31
Alignment explanation
Indices: 77287646--77287740 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
77287636 CGTTTACAGT
77287646 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
77287677 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
77287708 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
77287739 AA
1 AA
77287741 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:77292224 original size:25 final size:25
Alignment explanation
Indices: 77292195--77292242 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
77292185 TTATAATATG
* * *
77292195 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
77292220 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
77292243 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:77292345 original size:20 final size:20
Alignment explanation
Indices: 77292285--77292345 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
77292275 ATAAATATGG
*
77292285 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
77292305 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
77292325 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
77292345 T
1 T
77292346 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:77292422 original size:24 final size:24
Alignment explanation
Indices: 77292395--77292536 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
77292385 GAGGAAGTGA
77292395 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
77292419 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
77292443 AAAAGGGCTTATG-CCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
77292465 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
77292489 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
77292513 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
77292537 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 13 0.12
23 18 0.17
24 67 0.61
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:77292480 original size:46 final size:47
Alignment explanation
Indices: 77292395--77292536 Score: 198
Period size: 46 Copynumber: 3.0 Consensus size: 47
77292385 GAGGAAGTGA
77292395 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
77292443 AAAAGGGCTTATG-CCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
77292489 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
77292537 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
46 34 0.40
47 17 0.20
48 24 0.28
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:77292763 original size:31 final size:31
Alignment explanation
Indices: 77292728--77292791 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
77292718 CGTTTACAGT
77292728 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
77292759 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
77292790 AA
1 AA
77292792 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:77300887 original size:92 final size:92
Alignment explanation
Indices: 77300776--77300945 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
77300766 GCCCCTAAGT
* *
77300776 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77300841 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
77300868 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
77300933 CGAGTTCGGATGC
66 CGAGTTCGGATGC
77300946 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:77300942 original size:46 final size:46
Alignment explanation
Indices: 77300771--77300942 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
77300761 AACCCGCCCC
* * *
77300771 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
77300817 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
77300863 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
77300909 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
77300943 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 95 0.88
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:77300961 original size:46 final size:46
Alignment explanation
Indices: 77300773--77300961 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
77300763 CCCGCCCCTA
* ** * *
77300773 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
77300818 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
77300866 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
77300911 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
77300957 AGTGA
1 AGTGA
77300962 CATGTCACTT
Statistics
Matches: 116, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 95 0.82
47 1 0.01
48 4 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:77301389 original size:30 final size:30
Alignment explanation
Indices: 77301355--77301414 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
77301345 ATTTAATACG
77301355 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
77301385 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
77301415 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:77311111 original size:40 final size:40
Alignment explanation
Indices: 77311067--77311160 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
77311057 TACGGTACCT
* *
77311067 CTTGGTGTGTAGGGTTAGATGGGTTAATTTTATCCCCATA
1 CTTGGTGTGTAGGGTTAGATGGGTCAATCTTATCCCCATA
* * * *
77311107 CTTGGTTTGTAGGGCTGGATGGGTCGATCTTATCCCCATA
1 CTTGGTGTGTAGGGTTAGATGGGTCAATCTTATCCCCATA
*
77311147 --TGGTGTGTTGGGTT
1 CTTGGTGTGTAGGGTT
77311161 GGACAGAGAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 11 0.24
40 34 0.76
ACGTcount: A:0.15, C:0.14, G:0.32, T:0.39
Consensus pattern (40 bp):
CTTGGTGTGTAGGGTTAGATGGGTCAATCTTATCCCCATA
Found at i:77320767 original size:40 final size:40
Alignment explanation
Indices: 77320723--77320819 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 40
77320713 TACGGTACCT
* *
77320723 CTTGGTGTGTAGGGTTGGATGGGTTGATTTTATCCCCATA
1 CTTGGTGTGTAGGGTTGGATGGGTCGATCTTATCCCCATA
* * *
77320763 CTTGGTTTGTAGGGCTGGGTGGGTCGATCTTATCCCCATA
1 CTTGGTGTGTAGGGTTGGATGGGTCGATCTTATCCCCATA
*
77320803 --TGGTGTGTTGGGTTGGA
1 CTTGGTGTGTAGGGTTGGA
77320820 CGGAGATGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
38 13 0.27
40 35 0.73
ACGTcount: A:0.12, C:0.13, G:0.36, T:0.38
Consensus pattern (40 bp):
CTTGGTGTGTAGGGTTGGATGGGTCGATCTTATCCCCATA
Found at i:77326837 original size:22 final size:22
Alignment explanation
Indices: 77326812--77326857 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
77326802 AAAATATATG
*
77326812 AACA-GCTTGTTTATAAATTGAT
1 AACATGCTTGATTAT-AATTGAT
*
77326834 AACATGCTTGATTATAGTTGAT
1 AACATGCTTGATTATAATTGAT
77326856 AA
1 AA
77326858 ACGTTGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (22 bp):
AACATGCTTGATTATAATTGAT
Found at i:77327463 original size:44 final size:44
Alignment explanation
Indices: 77327414--77327497 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
77327404 TGTTCAGGGA
* * *
77327414 TACTTCAACCTT-GAGTCGATGAGGCACTATAAGTGTCGTATTGT
1 TACTTCAA-CTTCGAGTCAATAAGGCACCATAAGTGTCGTATTGT
* *
77327458 TACTTCGACTTCGAGTCAATAAGGCACCATATGTGTCGTA
1 TACTTCAACTTCGAGTCAATAAGGCACCATAAGTGTCGTA
77327498 CTGCTACTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.09
44 31 0.91
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (44 bp):
TACTTCAACTTCGAGTCAATAAGGCACCATAAGTGTCGTATTGT
Found at i:77328162 original size:2 final size:2
Alignment explanation
Indices: 77328157--77328184 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
77328147 TATATATATA
77328157 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
77328185 ATAAATCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:77338073 original size:14 final size:15
Alignment explanation
Indices: 77338049--77338084 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
77338039 AGTTATCAGA
77338049 ATTTATAAAATAGTT
1 ATTTATAAAATAGTT
*
77338064 ATTT-TAAAATATTT
1 ATTTATAAAATAGTT
77338078 ATTTATA
1 ATTTATA
77338085 TTAGAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTTATAAAATAGTT
Found at i:77340762 original size:14 final size:15
Alignment explanation
Indices: 77340743--77340776 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
77340733 AAGAATTGAA
*
77340743 ATTTAATAA-ATAAT
1 ATTTAATAATAAAAT
77340757 ATTTAATAATAAAAT
1 ATTTAATAATAAAAT
77340772 ATTTA
1 ATTTA
77340777 GCGGATAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTTAATAATAAAAT
Found at i:77341264 original size:29 final size:28
Alignment explanation
Indices: 77341200--77341266 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
77341190 ATTAATATTT
* * *
77341200 AATTATTTTTTAGAATTTAAAAATTATAA
1 AATTA-TTTTTAAAAATTAAAAATCATAA
*
77341229 ATTTTATTTTTAAAAATTAAAAATCATTAA
1 A-ATTATTTTTAAAAATTAAAAATCA-TAA
77341259 AATTATTT
1 AATTATTT
77341267 AAAAGTATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
29 24 0.77
30 7 0.23
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
AATTATTTTTAAAAATTAAAAATCATAA
Found at i:77347615 original size:2 final size:2
Alignment explanation
Indices: 77347608--77347644 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
77347598 CAAATCTATT
77347608 TA TA TA 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 TA TA TA T
77347645 GTTTTGTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:77348491 original size:127 final size:127
Alignment explanation
Indices: 77348339--77348645 Score: 400
Period size: 127 Copynumber: 2.4 Consensus size: 127
77348329 AATATTTGAT
* * *
77348339 GTTTAGAAATTCGGGAAATCATGCCCTACCGTGTTGGGTTTCGATTTCTCGTTTGTTCAAAATAA
1 GTTTGGAAATTCGGGGAATCATGCCCTACCGTGCTGGGTTTCGATTTCTCGTTTGTTCAAAATAA
* *
77348404 TCGAATATTCTTTTAGAATTTCACTCGTGTTTTCCAAATTCTAAAACAAGGCAATGTTCAAG
66 TCGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTCTAAAACAAGGCAATGTTCAAG
* * * * *
77348466 GTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGTTTTTGATTTC-CGGTTTGTTCCAAATA
1 GTTTGGAAATTCGGGGAATCATGCCCTACCGTGCTGGGTTTCGATTTCTC-GTTTGTTCAAAATA
* * * * * * *
77348530 ATTGAATGTTCCTTTAGTATTTCACTCGTGTTTTATAAATTTTAAAGCAAGGCAATGTTCAAT
65 ATCGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTCTAAAACAAGGCAATGTTCAAG
* ** * *
77348593 GTTTGGAAGTTCAAGGAATCATGCCCTACCGTGCCGGGTTTCGATTTTTCGTT
1 GTTTGGAAATTCGGGGAATCATGCCCTACCGTGCTGGGTTTCGATTTCTCGTT
77348646 GGACTAAATA
Statistics
Matches: 152, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
126 1 0.01
127 150 0.99
128 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.38
Consensus pattern (127 bp):
GTTTGGAAATTCGGGGAATCATGCCCTACCGTGCTGGGTTTCGATTTCTCGTTTGTTCAAAATAA
TCGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTCTAAAACAAGGCAATGTTCAAG
Found at i:77354723 original size:43 final size:43
Alignment explanation
Indices: 77354672--77354815 Score: 216
Period size: 43 Copynumber: 3.3 Consensus size: 43
77354662 TTTAATGTAA
77354672 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTATT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTATT
* *
77354715 TGACACTAAGTGTGCGATACAATTATAGCTTCGGCTAGTTATT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTATT
* * * * * *
77354758 TGGCACTAAATGTGCAAAATAATTATAGCTTCGACTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTATT
77354801 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
77354816 AAGTTAGTTG
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 90 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (43 bp):
TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTATT
Found at i:77361290 original size:54 final size:52
Alignment explanation
Indices: 77361140--77361294 Score: 197
Period size: 54 Copynumber: 2.9 Consensus size: 52
77361130 CACATTTCTT
77361140 CGATGCCATAGCCCAGCTATGGTCTTATAC-GAATCGCTTGTATCATTTTAATC
1 CGATGCCATAGCCCAGCTATGGTCTTATACGGAATCGC-T-TATCATTTTAATC
* * ** *
77361193 CGAAGCCATAACCCAGCTATGGTCTTATACGGGAATCATTTATCACTTATT-TTC
1 CGATGCCATAGCCCAGCTATGGTCTTATAC-GGAATCGCTTATCA-TT-TTAATC
77361247 CGATGCCATAGCCCAGCTATGGTCTTATACGGATATCGCTTATCATTT
1 CGATGCCATAGCCCAGCTATGGTCTTATACGGA-ATCGCTTATCATTT
77361295 GTTGCCATAG
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
52 1 0.01
53 38 0.43
54 42 0.48
55 7 0.08
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.34
Consensus pattern (52 bp):
CGATGCCATAGCCCAGCTATGGTCTTATACGGAATCGCTTATCATTTTAATC
Found at i:77363597 original size:43 final size:43
Alignment explanation
Indices: 77363536--77363681 Score: 229
Period size: 43 Copynumber: 3.4 Consensus size: 43
77363526 TTTGATGTAA
*
77363536 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTATT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
* * * *
77363579 TGGTACTAAGTTTACGATACAATTATAGCTTTGGCTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
* *
77363622 TGGCACTAAGTGTGCGATATAATTATAGCTTCGACTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
77363665 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
77363682 GTTAGTTGGA
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 92 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (43 bp):
TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
Found at i:77372126 original size:10 final size:9
Alignment explanation
Indices: 77372111--77372172 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
77372101 ATTTTTCTTT
77372111 AAAATTATTA
1 AAAATTA-TA
77372121 AAAATTAT-
1 AAAATTATA
77372129 AAAATTAT-
1 AAAATTATA
*
77372137 AAAATAATAA
1 AAAATTAT-A
* *
77372147 AAAAGTGTA
1 AAAATTATA
*
77372156 AAAAATATA
1 AAAATTATA
77372165 AAAATTAT
1 AAAATTAT
77372173 TGTATATGAC
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
8 15 0.35
9 16 0.37
10 12 0.28
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAATTATA
Found at i:77372134 original size:8 final size:8
Alignment explanation
Indices: 77372110--77372148 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
77372100 GATTTTTCTT
77372110 TAAAATTA
1 TAAAATTA
77372118 TTAAAAATTA
1 -T-AAAATTA
77372128 TAAAATTA
1 TAAAATTA
*
77372136 TAAAATAA
1 TAAAATTA
77372144 TAAAA
1 TAAAA
77372149 AAGTGTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 19 0.68
9 2 0.07
10 7 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
TAAAATTA
Found at i:77372234 original size:19 final size:18
Alignment explanation
Indices: 77372212--77372270 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
77372202 AAACTTTTTT
* *
77372212 AAAAAATAGGAAATTACTG
1 AAAAAATAGAAAATTAC-A
* *
77372231 AAAATATATAAAATTACA
1 AAAAAATAGAAAATTACA
*
77372249 AAAAAATAAAAAATTACA
1 AAAAAATAGAAAATTACA
77372267 AAAA
1 AAAA
77372271 TTTTACAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
18 20 0.59
19 14 0.41
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAAAATAGAAAATTACA
Found at i:77374541 original size:105 final size:104
Alignment explanation
Indices: 77374354--77374563 Score: 296
Period size: 105 Copynumber: 2.0 Consensus size: 104
77374344 TAAAAGCCTT
* * * *
77374354 AAACTCGTAATTTTTGTAATAATTTCATCTAGAAATTCTACTTGCACAATCTTCACTAAAACGGT
1 AAACTAGTAATTTTTGTAATAATTTCATCCAAAAATTCTACTTG-ACAATCTTCACTAAAACGAT
77374419 CATAAATTGAGCCCCTGAAAACGAAATCAAGTGATTCAAA
65 CATAAATTGAGCCCCTGAAAACGAAATCAAGTGATTCAAA
* *
77374459 AAACTAGTAATTTTTGTACTAATTTCATCCAAAAATTCTACTCATG-CAATCTTCACTAAAATGA
1 AAACTAGTAATTTTTGTAATAATTTCATCCAAAAATTCTACT--TGACAATCTTCACTAAAACGA
* * * *
77374523 TCATAAATTGAGCTCCTGAAATCTAAATCGAGTGATTCAAA
64 TCATAAATTGAGCCCCTGAAAACGAAATCAAGTGATTCAAA
77374564 GTGCGTTTTG
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
105 91 0.98
107 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (104 bp):
AAACTAGTAATTTTTGTAATAATTTCATCCAAAAATTCTACTTGACAATCTTCACTAAAACGATC
ATAAATTGAGCCCCTGAAAACGAAATCAAGTGATTCAAA
Found at i:77377030 original size:28 final size:28
Alignment explanation
Indices: 77376956--77377023 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
77376946 TACGTACATG
77376956 CATATGGCCCATTAGGCCCAATCTCATT
1 CATATGGCCCATTAGGCCCAATCTCATT
*
77376984 CATATGGCCCATTACGCCCAATCTCATT
1 CATATGGCCCATTAGGCCCAATCTCATT
*
77377012 CATATGGTCCAT
1 CATATGGCCCAT
77377024 CTGGCCCGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.29
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCCAATCTCATT
Found at i:77377281 original size:16 final size:16
Alignment explanation
Indices: 77377257--77377290 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
77377247 GTAGCCAGAC
* *
77377257 TTTCGGCTTTTCGGCA
1 TTTCAGCTTTTCGACA
77377273 TTTCAGCTTTTCGACA
1 TTTCAGCTTTTCGACA
77377289 TT
1 TT
77377291 CTAACGTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.24, G:0.18, T:0.47
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:77378038 original size:14 final size:15
Alignment explanation
Indices: 77378019--77378047 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
77378009 CAGGTATTTG
77378019 CAAAAAAAAA-AAAA
1 CAAAAAAAAACAAAA
77378033 CAAAAAAAAACAAAA
1 CAAAAAAAAACAAAA
77378048 GAGTCAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
CAAAAAAAAACAAAA
Found at i:77382030 original size:13 final size:13
Alignment explanation
Indices: 77382012--77382036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77382002 TGGTCATCAT
77382012 GGTGTGAACACAA
1 GGTGTGAACACAA
77382025 GGTGTGAACACA
1 GGTGTGAACACA
77382037 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:77386719 original size:2 final size:2
Alignment explanation
Indices: 77386712--77386754 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
77386702 ATTGGTATTT
77386712 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
77386754 T
1 T
77386755 TCTATTGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:77387008 original size:21 final size:22
Alignment explanation
Indices: 77386982--77387043 Score: 90
Period size: 23 Copynumber: 2.8 Consensus size: 22
77386972 GGTGGATCAA
*
77386982 CTCTTACGAGCTTTTGTT-TAG
1 CTCTTACGAGCTTTTGTTACAG
77387003 CTCTTACGAGCTTTTGTTACCAG
1 CTCTTACGAGCTTTTGTTA-CAG
*
77387026 CTCTTATGAGCTTTTGTT
1 CTCTTACGAGCTTTTGTT
77387044 GATGATGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 18 0.49
23 19 0.51
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (22 bp):
CTCTTACGAGCTTTTGTTACAG
Found at i:77387834 original size:13 final size:14
Alignment explanation
Indices: 77387799--77387834 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
77387789 TATTTATTTA
77387799 AAAAT-TTATAGTT
1 AAAATATTATAGTT
77387812 AAAATA-TATA-TT
1 AAAATATTATAGTT
77387824 AAAATATTATA
1 AAAATATTATA
77387835 ATAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
AAAATATTATAGTT
Found at i:77387873 original size:5 final size:5
Alignment explanation
Indices: 77387865--77387889 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
77387855 AGTATATATG
77387865 TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA
77387890 AATAAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:77387959 original size:17 final size:17
Alignment explanation
Indices: 77387947--77387980 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
77387937 AGAGAAGGAA
77387947 AGAAAGAAAAGAAAAAG
1 AGAAAGAAAAGAAAAAG
77387964 AGAAAGAAAAGAGAAAA
1 AGAAAGAAAAGA-AAAA
77387981 AGCTAGGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAAGAAAAAG
Found at i:77389824 original size:41 final size:42
Alignment explanation
Indices: 77389757--77389836 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
77389747 ATTTTGAGTC
*
77389757 CACATGGCTAGACACATGGGCTTGTGACTAGACCGTGTGAGA
1 CACATGGCTAGACACACGGGCTTGTGACTAGACCGTGTGAGA
* *
77389799 CACATGGCTA-ACACACGGG-TGTGTGACTTGGCCGTGTG
1 CACATGGCTAGACACACGGGCT-TGTGACTAGACCGTGTG
77389837 TCCCTTGCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 1 0.03
41 23 0.68
42 10 0.29
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.23
Consensus pattern (42 bp):
CACATGGCTAGACACACGGGCTTGTGACTAGACCGTGTGAGA
Found at i:77393163 original size:57 final size:57
Alignment explanation
Indices: 77393070--77393183 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
77393060 GAATATAGTT
* *
77393070 TTGCTGATGACAAAGTTGTTGCAAAAGAATTTTTAGTTCGTCTGGGATGATCAGTGC
1 TTGCCGATGACAAAGTTGTTGCAAAAGAATTTTTAGTTCGTCTGGAATGATCAGTGC
*
77393127 TTGCCGATGAGAAAGTTGTTGCAAAAGAATTTTTAGTTCGTCTGGAATGATCAGTGC
1 TTGCCGATGACAAAGTTGTTGCAAAAGAATTTTTAGTTCGTCTGGAATGATCAGTGC
77393184 CAAGAAACTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.34
Consensus pattern (57 bp):
TTGCCGATGACAAAGTTGTTGCAAAAGAATTTTTAGTTCGTCTGGAATGATCAGTGC
Found at i:77396254 original size:2 final size:2
Alignment explanation
Indices: 77396247--77396279 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
77396237 GTATAATAAC
77396247 AT AT AT AT 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 AT AT AT AT A
77396280 GATTCATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:77401340 original size:5 final size:5
Alignment explanation
Indices: 77401332--77401380 Score: 98
Period size: 5 Copynumber: 9.8 Consensus size: 5
77401322 AAGTTAAGTG
77401332 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
77401381 AAGGAAAAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 44 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:77401748 original size:30 final size:28
Alignment explanation
Indices: 77401694--77401750 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 28
77401684 AATTGTGGAA
*
77401694 TAAATTATAAATTTTGAGTATTAGGGAC
1 TAAATTATAAATTTTGAATATTAGGGAC
77401722 TAAATTATAAAAATTTTGAA-ATTTAGGGA
1 TAAATTAT--AAATTTTGAATA-TTAGGGA
77401751 TGTGAGTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 8 0.32
29 1 0.04
30 16 0.64
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.39
Consensus pattern (28 bp):
TAAATTATAAATTTTGAATATTAGGGAC
Found at i:77403488 original size:18 final size:18
Alignment explanation
Indices: 77403467--77403503 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
77403457 GGACATGGAA
*
77403467 ACTGGCTGGGACACAGAC
1 ACTGGCCGGGACACAGAC
*
77403485 ACTGGCCGGGACACGGAC
1 ACTGGCCGGGACACAGAC
77403503 A
1 A
77403504 TGTGTCCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.30, G:0.35, T:0.08
Consensus pattern (18 bp):
ACTGGCCGGGACACAGAC
Found at i:77405820 original size:15 final size:17
Alignment explanation
Indices: 77405802--77405835 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
77405792 TAGCATGTTT
77405802 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
77405817 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
77405834 TA
1 TA
77405836 AGTGTCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:77413595 original size:31 final size:31
Alignment explanation
Indices: 77413555--77413621 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
77413545 ATTAAACGTG
* * *
77413555 TATAATTGAATTAAAATGAAAGTTTCATTTA
1 TATATTTGAATTAAAATCAAAGTTTCATATA
*
77413586 TATATTTGAATTATAATCAAAGTTTCATATA
1 TATATTTGAATTAAAATCAAAGTTTCATATA
77413617 TATAT
1 TATAT
77413622 ATATATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (31 bp):
TATATTTGAATTAAAATCAAAGTTTCATATA
Found at i:77413619 original size:2 final size:2
Alignment explanation
Indices: 77413612--77413636 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
77413602 TCAAAGTTTC
77413612 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
77413637 ATTGCACCAA
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:77418826 original size:14 final size:13
Alignment explanation
Indices: 77418801--77418825 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77418791 ACAAAAGCGA
77418801 AATTTTTAAAAAG
1 AATTTTTAAAAAG
77418814 AATTTTTAAAAA
1 AATTTTTAAAAA
77418826 ATTACAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATTTTTAAAAAG
Found at i:77419074 original size:59 final size:59
Alignment explanation
Indices: 77419000--77419159 Score: 189
Period size: 59 Copynumber: 2.7 Consensus size: 59
77418990 TTAGCCTTTT
* * *
77419000 AACTTGACAAATGTTCTCACATTGAAGCTTGAACTTTCTTTTATCCAAATTAGGCTC-TA
1 AACTTGACAATTGTTCTCACATTGAAGCCTAAACTTTCTTTTATCCAAATTAGGC-CGTA
** * * *
77419059 AACTTGACAATTGTTCTCACATTGGGGCCTAAACTTTTTTTTATCCAAATTAGTCCGTG
1 AACTTGACAATTGTTCTCACATTGAAGCCTAAACTTTCTTTTATCCAAATTAGGCCGTA
* * *
77419118 AACTTGGCAATTGTTCTCAC-TTTAAGGCCTAAACTTTTTTTT
1 AACTTGACAATTGTTCTCACATTGAA-GCCTAAACTTTCTTTT
77419160 TATTAAGTTA
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
58 3 0.03
59 84 0.97
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (59 bp):
AACTTGACAATTGTTCTCACATTGAAGCCTAAACTTTCTTTTATCCAAATTAGGCCGTA
Found at i:77419187 original size:59 final size:60
Alignment explanation
Indices: 77419038--77419219 Score: 178
Period size: 59 Copynumber: 3.1 Consensus size: 60
77419028 TTGAACTTTC
* * *
77419038 TTTTATCCAAATTAGGCTC-TAAAC-TTGACAATTGTTCTCACATTGGGGCCTAAAC-TTTT
1 TTTTATCCAAATTAGTC-CGTAAACATAG-CAATTGTTCTCACATTAGGGCCTAAACTTTTT
* * * * *
77419097 TTTTATCCAAATTAGTCCGTGAACTTGGCAATTGTTCTCACTTTAAGGCCTAAACTTTTT
1 TTTTATCCAAATTAGTCCGTAAACATAGCAATTGTTCTCACATTAGGGCCTAAACTTTTT
* * * *
77419157 TTTTAT-TAAGTTAGGTCC-TAAACATAGCAATTGTT-TCCACATTAGGGCATAAATTTTTT
1 TTTTATCCAAATTA-GTCCGTAAACATAGCAATTGTTCT-CACATTAGGGCCTAAACTTTTT
77419216 TTTT
1 TTTT
77419220 TGTCTTAGTC
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
58 2 0.02
59 85 0.83
60 16 0.16
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (60 bp):
TTTTATCCAAATTAGTCCGTAAACATAGCAATTGTTCTCACATTAGGGCCTAAACTTTTT
Found at i:77419297 original size:31 final size:31
Alignment explanation
Indices: 77419254--77419324 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
77419244 GAAAACCCTA
*
77419254 AAGTTCAAGCCCCAATGTAAGAACAATTGCT
1 AAGTTCAAGCCCCAATATAAGAACAATTGCT
* ** *
77419285 AAGTTCATGCCCCAATATGGGAACAATTGCC
1 AAGTTCAAGCCCCAATATAAGAACAATTGCT
*
77419316 AAGGTCAAG
1 AAGTTCAAG
77419325 GATTAACTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (31 bp):
AAGTTCAAGCCCCAATATAAGAACAATTGCT
Found at i:77422609 original size:231 final size:231
Alignment explanation
Indices: 77422206--77422654 Score: 871
Period size: 231 Copynumber: 1.9 Consensus size: 231
77422196 GAGACACGGG
*
77422206 CGTGTGTCTCAGCCGTGTACGACACACGACTATGTTGCACGGTCGTGTGTCCCCTAGGGTACCCT
1 CGTGTGTCTCAACCGTGTACGACACACGACTATGTTGCACGGTCGTGTGTCCCCTAGGGTACCCT
77422271 ACAATTTTAAGTCAGGCCCGAACATGGCCAAAGCACACCGGCATGTGGCTAGCCGTGTGGCCTGA
66 ACAATTTTAAGTCAGGCCCGAACATGGCCAAAGCACACCGGCATGTGGCTAGCCGTGTGGCCTGA
77422336 GTTTGGCTTTACCACGGCCAAGGCACACGGGCGTGTCTTGTGGCAGTGTGGGCAAGTCAGTAGCT
131 GTTTGGCTTTACCACGGCCAAGGCACACGGGCGTGTCTTGTGGCAGTGTGGGCAAGTCAGTAGCT
77422401 ATGCCCTGTTTTGCCACGGCTTAAGCACACCGGCAT
196 ATGCCCTGTTTTGCCACGGCTTAAGCACACCGGCAT
77422437 CGTGTGTCTCAACCGTGTACGACACACGACTATGTTGCACGGTCGTGTGTCCCCTAGGGTACCCT
1 CGTGTGTCTCAACCGTGTACGACACACGACTATGTTGCACGGTCGTGTGTCCCCTAGGGTACCCT
77422502 ACAATTTTAAGTCAGGCCCGAACATGGCCAAAGCACACCGGCATGTGGCTAGCCGTGTGGCCTGA
66 ACAATTTTAAGTCAGGCCCGAACATGGCCAAAGCACACCGGCATGTGGCTAGCCGTGTGGCCTGA
* *
77422567 GTTTGGCTTTACCACGGCCAAGGTACACGGGCGTGTCTTGTGGCCGTGTGGGCAAGTCAGTAGCT
131 GTTTGGCTTTACCACGGCCAAGGCACACGGGCGTGTCTTGTGGCAGTGTGGGCAAGTCAGTAGCT
77422632 ATGCCCTGTTTTGCCACGGCTTA
196 ATGCCCTGTTTTGCCACGGCTTA
77422655 GACACACAGG
Statistics
Matches: 215, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
231 215 1.00
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.24
Consensus pattern (231 bp):
CGTGTGTCTCAACCGTGTACGACACACGACTATGTTGCACGGTCGTGTGTCCCCTAGGGTACCCT
ACAATTTTAAGTCAGGCCCGAACATGGCCAAAGCACACCGGCATGTGGCTAGCCGTGTGGCCTGA
GTTTGGCTTTACCACGGCCAAGGCACACGGGCGTGTCTTGTGGCAGTGTGGGCAAGTCAGTAGCT
ATGCCCTGTTTTGCCACGGCTTAAGCACACCGGCAT
Found at i:77428917 original size:27 final size:27
Alignment explanation
Indices: 77428879--77428934 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
77428869 GGAACCCTTA
*
77428879 AAGTTGTGATGTCAACTCCAAAATTTG
1 AAGTTGTGATGTCAACACCAAAATTTG
*
77428906 AAGTTGTGATGTCAACACTAAAATTTG
1 AAGTTGTGATGTCAACACCAAAATTTG
77428933 AA
1 AA
77428935 AACATTACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (27 bp):
AAGTTGTGATGTCAACACCAAAATTTG
Found at i:77429438 original size:17 final size:17
Alignment explanation
Indices: 77429399--77429450 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
77429389 GAAAAAAAAT
*
77429399 GATAAGGTTAAGGGTTTA
1 GATAGGGTT-AGGGTTTA
* *
77429417 TATAGGGTTAGGGTTTG
1 GATAGGGTTAGGGTTTA
*
77429434 GATAGTCGTTAGGGTTT
1 GATAG-GGTTAGGGTTT
77429451 TTTTTAATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.23, C:0.02, G:0.37, T:0.38
Consensus pattern (17 bp):
GATAGGGTTAGGGTTTA
Found at i:77431978 original size:181 final size:181
Alignment explanation
Indices: 77431674--77432034 Score: 472
Period size: 181 Copynumber: 2.0 Consensus size: 181
77431664 AAAGTAAATA
* *
77431674 AATAATTAACCTTTAAAACAAAACTAGACTTAAACCGAAACTAAAATAACACACATGAGGACTCA
1 AATAATTAACCTTTAAAACAAAACTAGACTTAAACCAAAACTAAAATAACACACATAAGGACTCA
*** * ** ** *
77431739 AACTTGAGACCCAATGATAGACTAACACTCATTCAACCACTGAACCAGTAGGCTCATTCTAGCAC
66 AACCCAAGACCCAATGATAAACTAACACTCATTCAACCACCAAACCAACAGGCTCATTCTAACAC
* * * *
77431804 TAAATTGAGAAAATAATTTTAACT-GCTCGACCTACTCATTGACCCTAACTT
131 TAAATTGAGAAAATAAATTCAA-TAGCTCAACCAACTCATTGACCCTAACTT
* * * **
77431855 AATAATTAATCTTTAAAACAAAACTAGATTTGAACCAAAACTAAAATAACACACATAAGGACTTG
1 AATAATTAACCTTTAAAACAAAACTAGACTTAAACCAAAACTAAAATAACACACATAAGGACTCA
* * * *
77431920 AACCCAAGACCTAATGATAAATTAACACTTATTCAACCACCAAACCAACAGGCTCATTCTAATAC
66 AACCCAAGACCCAATGATAAACTAACACTCATTCAACCACCAAACCAACAGGCTCATTCTAACAC
* *
77431985 TAAATTGCGAAAATAAATTCAATAGCTCAACCAATTCATTGACCCTAACT
131 TAAATTGAGAAAATAAATTCAATAGCTCAACCAACTCATTGACCCTAACT
77432035 ACAAACCTCA
Statistics
Matches: 153, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
180 1 0.01
181 152 0.99
ACGTcount: A:0.44, C:0.23, G:0.09, T:0.24
Consensus pattern (181 bp):
AATAATTAACCTTTAAAACAAAACTAGACTTAAACCAAAACTAAAATAACACACATAAGGACTCA
AACCCAAGACCCAATGATAAACTAACACTCATTCAACCACCAAACCAACAGGCTCATTCTAACAC
TAAATTGAGAAAATAAATTCAATAGCTCAACCAACTCATTGACCCTAACTT
Found at i:77432418 original size:26 final size:26
Alignment explanation
Indices: 77432389--77432441 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
77432379 AACTTAGGAT
77432389 TTAAGTATT-AATTAATAAATTA-AAAA
1 TTAAGTATTAAATT--TAAATTATAAAA
77432415 TTAAGTATTAAATTTAAATTATAAAA
1 TTAAGTATTAAATTTAAATTATAAAA
77432441 T
1 T
77432442 ATATTTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 7 0.28
26 14 0.56
27 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (26 bp):
TTAAGTATTAAATTTAAATTATAAAA
Found at i:77446569 original size:20 final size:20
Alignment explanation
Indices: 77446540--77446584 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
77446530 TTATTTTAAA
*
77446540 TCAAATTTTCAAACAGGGTT
1 TCAAAATTTCAAACAGGGTT
* *
77446560 TCAAAATTTCAAATAGTGTT
1 TCAAAATTTCAAACAGGGTT
77446580 TCAAA
1 TCAAA
77446585 CAATCAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (20 bp):
TCAAAATTTCAAACAGGGTT
Found at i:77459458 original size:40 final size:40
Alignment explanation
Indices: 77459381--77459462 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
77459371 TTGACTTGTA
* * * *
77459381 AATGGTTGGATAATATGGTGGTATACACCGTGGAAGGTGT
1 AATGGTTGGACAACATGGTGGTACACACCGTGAAAGGTGT
* **
77459421 AATGGTTGGACAACATGGTGGTACATATTGTGAAAGGTGT
1 AATGGTTGGACAACATGGTGGTACACACCGTGAAAGGTGT
77459461 AA
1 AA
77459463 AGAGTCATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.29
Consensus pattern (40 bp):
AATGGTTGGACAACATGGTGGTACACACCGTGAAAGGTGT
Found at i:77463063 original size:16 final size:18
Alignment explanation
Indices: 77463038--77463080 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
77463028 CAAGCACTCT
*
77463038 CATAATCCAGCAG-TTCC
1 CATAAACCAGCAGCTTCC
*
77463055 CA-AAACCAGCAGCTTTC
1 CATAAACCAGCAGCTTCC
77463072 CATAAACCA
1 CATAAACCA
77463081 TCCCATTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 9 0.41
17 7 0.32
18 6 0.27
ACGTcount: A:0.37, C:0.35, G:0.09, T:0.19
Consensus pattern (18 bp):
CATAAACCAGCAGCTTCC
Found at i:77466950 original size:202 final size:200
Alignment explanation
Indices: 77466549--77466938 Score: 672
Period size: 202 Copynumber: 1.9 Consensus size: 200
77466539 ATCCTGATAT
* * * *
77466549 TTAGATTACCTAATTTGTCTTTGACAGATACCTTACATCTTCGGACAGACACACAAACACATACA
1 TTAGATTACCTAATCTGTCTTTGACAGACACCTTACATCTTCAGACAGACACACAAACACACACA
* *
77466614 CACATATATATACCTATGTGATACTTACCATCCTTAATGAATCATCATTAACTTAACTCATTGGC
66 CACACATATATACCTATGTGATACTTACCATCCTTAATGAATCATCATTAACTTAACTCATTGAC
77466679 TGACTTCAGATCTTACCAAACAGTTCTACATCTTCTTCTCCATTCAGATAACTTGCATCATTATT
131 TGACTTCAGATCTTACCAAACAGTTCTACATCTTCTTCTCCATTCAGATAACTTGCATCATTATT
77466744 CTAAA
196 CTAAA
* *
77466749 TTAGATTACCTAATCTGTTTTTGGCAGACACCTTACATCTTCAGACAGACACACAAACACACACA
1 TTAGATTACCTAATCTGTCTTTGACAGACACCTTACATCTTCAGACAGACACAC-AA-ACACACA
*
77466814 CACACACATATATACCTATGTGCTACTTACCATCCTTAATGAATCATCATTAACTTAACTCATTG
64 CACACACATATATACCTATGTGATACTTACCATCCTTAATGAATCATCATTAACTTAACTCATTG
*
77466879 ACTGACTTCAGATCTTACCAAACAGTTCTACATCTTCTTCTCTATTCAGATAACTTGCAT
129 ACTGACTTCAGATCTTACCAAACAGTTCTACATCTTCTTCTCCATTCAGATAACTTGCAT
77466939 TGATATTCTA
Statistics
Matches: 178, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
200 49 0.28
201 2 0.01
202 127 0.71
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (200 bp):
TTAGATTACCTAATCTGTCTTTGACAGACACCTTACATCTTCAGACAGACACACAAACACACACA
CACACATATATACCTATGTGATACTTACCATCCTTAATGAATCATCATTAACTTAACTCATTGAC
TGACTTCAGATCTTACCAAACAGTTCTACATCTTCTTCTCCATTCAGATAACTTGCATCATTATT
CTAAA
Found at i:77473054 original size:17 final size:19
Alignment explanation
Indices: 77472994--77473082 Score: 64
Period size: 18 Copynumber: 4.9 Consensus size: 19
77472984 AAAAAAGTTC
* *
77472994 TAAATAATTTTTAA-AATT
1 TAAAAAATTTATAATAATT
* * *
77473012 CAAAATATTTATAA-AAAT
1 TAAAAAATTTATAATAATT
* *
77473030 TCAAAAATTTAT-AT-TTT
1 TAAAAAATTTATAATAATT
77473047 TAAAAAA-TTATAATAATT
1 TAAAAAATTTATAATAATT
77473065 TAAAAAATTCTA-AATAAT
1 TAAAAAATT-TATAATAAT
77473083 ATATAAATAA
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
16 4 0.07
17 10 0.19
18 31 0.57
19 7 0.13
20 2 0.04
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAAAAATTTATAATAATT
Found at i:77473080 original size:19 final size:19
Alignment explanation
Indices: 77472984--77473082 Score: 67
Period size: 19 Copynumber: 4.9 Consensus size: 19
77472974 ATTACAAAAA
77472984 AAAAAAGTTCTAAATAATTT
1 AAAAAA-TTCTAAATAATTT
** *
77473004 TTAAAATTCAAAAT-ATTT
1 AAAAAATTCTAAATAATTT
*
77473022 ATAAAAATTCAAAAATTTATATTTTT
1 A-AAAAATTC-TAAA--TA-A--TTT
*
77473048 AAAAAATTAT-AATAATTT
1 AAAAAATTCTAAATAATTT
77473066 AAAAAATTCTAAATAAT
1 AAAAAATTCTAAATAAT
77473083 ATATAAATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
18 16 0.26
19 20 0.32
20 9 0.15
21 2 0.03
22 1 0.02
23 2 0.03
24 1 0.02
25 7 0.11
26 4 0.06
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (19 bp):
AAAAAATTCTAAATAATTT
Found at i:77477398 original size:12 final size:12
Alignment explanation
Indices: 77477381--77477420 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
77477371 CCAAGCCAAT
77477381 TAATTATTATAA
1 TAATTATTATAA
*
77477393 TAATTATTATAT
1 TAATTATTATAA
*
77477405 TATTTATTATAA
1 TAATTATTATAA
77477417 TAAT
1 TAAT
77477421 AGATAGTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TAATTATTATAA
Done.