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 170 of 325
Found at i:52387650 original size:47 final size:47
Alignment explanation
Indices: 52387596--52387717 Score: 201
Period size: 47 Copynumber: 2.6 Consensus size: 47
52387586 CATGCCTTGG
* *
52387596 CATGGTCTTACATGATATCCTTATCTTACCAAATG-CTATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTC-ATGTTCCAAA
*
52387643 CATGGTCTTACATGGTATACTTGTCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAAA
52387690 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
52387718 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
47 69 0.99
48 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGTCATGTTCCAAA
Found at i:52387806 original size:47 final size:45
Alignment explanation
Indices: 52387740--52387841 Score: 107
Period size: 45 Copynumber: 2.2 Consensus size: 45
52387730 CATCTTGATG
* * * *
52387740 TGGTCTTACATGGAGTCCTTAATCAATGCCGATGCCATGTCATGACA
1 TGGTCTTACAGGGAGTCCTT--GCAATACCAATGCCATGTCATGACA
** *
52387787 TGGTCTTACACGGGA-TCCTTGCCTTACCAATGCCATGTCTTGACA
1 TGGTCTTACA-GGGAGTCCTTGCAATACCAATGCCATGTCATGACA
52387832 TGGTCTTACA
1 TGGTCTTACA
52387842 TAGTATTCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
45 29 0.62
47 15 0.32
48 3 0.06
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (45 bp):
TGGTCTTACAGGGAGTCCTTGCAATACCAATGCCATGTCATGACA
Found at i:52387939 original size:44 final size:44
Alignment explanation
Indices: 52387854--52387940 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
52387844 GTATTCTTAA
* ** *
52387854 CCGTCAATTCCTCCTTAAATGCCATGTTTTGAACATGGACTTTT
1 CCGTCAATTCCTCCTTAAATGCCATGTGTACAACATCGACTTTT
* *
52387898 CCGTCAATTCTTCCTTAATTGCCATG-GTACAACCATCGACTTT
1 CCGTCAATTCCTCCTTAAATGCCATGTGTACAA-CATCGACTTT
52387941 GAGATATCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 3 0.08
44 33 0.92
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.37
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGTGTACAACATCGACTTTT
Found at i:52389236 original size:19 final size:19
Alignment explanation
Indices: 52389212--52389251 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
52389202 AGCTCCCATG
52389212 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
52389231 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
52389250 TA
1 TA
52389252 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:52390915 original size:11 final size:11
Alignment explanation
Indices: 52390899--52390950 Score: 63
Period size: 12 Copynumber: 4.7 Consensus size: 11
52390889 TATACAAGTT
*
52390899 AAAAAAAATTCA
1 AAAAAAAA-TCG
52390911 AAAAAAAATTCG
1 AAAAAAAA-TCG
52390923 AAAAAAAAT--
1 AAAAAAAATCG
52390932 AAAAAAAATCG
1 AAAAAAAATCG
52390943 AAAAAAAA
1 AAAAAAAA
52390951 AGTTGATTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 9 0.24
11 9 0.24
12 19 0.51
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.12
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:52390951 original size:21 final size:21
Alignment explanation
Indices: 52390911--52390950 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
52390901 AAAAAATTCA
52390911 AAAAAAAATTCGAAAAAAAAT
1 AAAAAAAATTCGAAAAAAAAT
52390932 AAAAAAAA-TCGAAAAAAAA
1 AAAAAAAATTCGAAAAAAAA
52390951 AGTTGATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.10
Consensus pattern (21 bp):
AAAAAAAATTCGAAAAAAAAT
Found at i:52396140 original size:19 final size:19
Alignment explanation
Indices: 52396116--52396155 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
52396106 AGCTCCCATG
52396116 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
52396135 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
52396154 TA
1 TA
52396156 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:52397241 original size:42 final size:42
Alignment explanation
Indices: 52397182--52397289 Score: 207
Period size: 42 Copynumber: 2.5 Consensus size: 42
52397172 TGCATTTAAG
52397182 CATCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACT
1 CATCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACT
52397224 CATCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACT
1 CATCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACT
52397266 CATCTTAGTTTAATTAAATGAGTT
1 CATCTTAGTTTAA-TAAATGAGTT
52397290 TATTTAATGA
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 55 0.85
43 10 0.15
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (42 bp):
CATCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACT
Found at i:52397291 original size:14 final size:14
Alignment explanation
Indices: 52397272--52397316 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
52397262 AACTCATCTT
*
52397272 AGTTTAATTAAATG
1 AGTTTAATTTAATG
52397286 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
52397299 AATTTAATTTAATG
1 AGTTTAATTTAATG
52397313 AGTT
1 AGTT
52397317 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:52399855 original size:80 final size:80
Alignment explanation
Indices: 52399739--52400006 Score: 360
Period size: 80 Copynumber: 3.4 Consensus size: 80
52399729 ACCACATGCT
* *
52399739 CGAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTTGCGCAAATGCCTTCGGGTATTAGCCCGG
1 CGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCCCGG
52399804 ATTTAACAACTTGCA
66 ATTTAACAACTTGCA
52399819 CGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCCCGG
1 CGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCCCGG
52399884 ATTTAACAACTTGCA
66 ATTTAACAACTTGCA
* * * * *
52399899 CGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCACTAGCACAATTGCCTTCGGGTCTTAACCC
1 CGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTTGCACAAATGCCTTCGGGTATTAGCCC
* ** *
52399962 GGATATAATTACTAGCA
64 GGATTTAACAACTTGCA
** * * *
52399979 TAAATGTCTTCGGGACTTAGCCCAGATA
1 CGAATGCCTTCGGGTCTTAGCCCGGATA
52400007 TCATTCAATT
Statistics
Matches: 169, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
78 1 0.01
79 2 0.01
80 166 0.98
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (80 bp):
CGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGCCCGG
ATTTAACAACTTGCA
Found at i:52399976 original size:40 final size:40
Alignment explanation
Indices: 52399741--52400007 Score: 302
Period size: 40 Copynumber: 6.7 Consensus size: 40
52399731 CACATGCTCG
* ** *
52399741 AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTTGCGCA
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACA
* * *
52399781 AATGCCTTCGGGTATTAGCCCGGATTTAACAACTTGCACG
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACA
* *
52399821 AATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACA
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACA
* * *
52399861 AATGCCTTCGGGTATTAGCCCGGATTTAACAACTTGCACG
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACA
* * *
52399901 AATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACA
1 AATGCCTTCGGGTCTTAGCCCGGATATA-ACAACTTGCACA
* * ** * *
52399941 ATTGCCTTCGGGTCTTAACCCGGATATAATTACTAGCATA
1 AATGCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACA
* * *
52399981 AATGTCTTCGGGACTTAGCCCAGATAT
1 AATGCCTTCGGGTCTTAGCCCGGATAT
52400008 CATTCAATTG
Statistics
Matches: 192, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 191 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
AATGCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACA
Found at i:52413188 original size:46 final size:45
Alignment explanation
Indices: 52413095--52413180 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
52413085 TACATTTCAC
* *
52413095 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
52413141 GAACTCAGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
52413181 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (45 bp):
GAACTCAGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:52413626 original size:30 final size:30
Alignment explanation
Indices: 52413592--52413651 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
52413582 ATTTAATACG
52413592 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
52413622 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
52413652 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:52420662 original size:93 final size:93
Alignment explanation
Indices: 52420555--52420725 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
52420545 GCCCCTAAGT
* *
52420555 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52420620 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
52420648 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52420713 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52420726 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:52420722 original size:46 final size:46
Alignment explanation
Indices: 52420550--52420722 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
52420540 AACCCGCCCC
* * *
52420550 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
52420596 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
52420644 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
52420689 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52420723 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:52421176 original size:30 final size:30
Alignment explanation
Indices: 52421142--52421201 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
52421132 ATTTAATATG
52421142 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
52421172 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
52421202 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:52423294 original size:30 final size:31
Alignment explanation
Indices: 52423258--52423354 Score: 110
Period size: 30 Copynumber: 3.2 Consensus size: 31
52423248 AGTTCACTCC
*
52423258 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
52423288 TAGCTCAAC-TTCAGCTTAAGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
*
52423318 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
52423348 TAGCTCA
1 TAGCTCA
52423355 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
30 49 0.92
31 4 0.08
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:52424241 original size:22 final size:20
Alignment explanation
Indices: 52424209--52424257 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
52424199 GCCGAATTTA
52424209 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
52424232 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
52424252 TGAACA
1 TGAACA
52424258 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:52426983 original size:30 final size:30
Alignment explanation
Indices: 52426897--52426994 Score: 97
Period size: 30 Copynumber: 3.3 Consensus size: 30
52426887 TTAAACTAAA
* *
52426897 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * * * * *
52426927 TTGAGCTGAGATTAAACTCCTAAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
* * *
52426957 CTGAGCTAAGGTTTAGCTCGTGAGCTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
52426987 ATGAGCTA
1 ATGAGCTA
52426995 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAGCTGAAG
Found at i:52429267 original size:30 final size:30
Alignment explanation
Indices: 52429196--52429278 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
52429186 CTTTTGTTTC
* *
52429196 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
52429227 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
52429256 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
52429279 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:52429278 original size:18 final size:18
Alignment explanation
Indices: 52429229--52429284 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
52429219 CACTCTCAAA
* *
52429229 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
52429246 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
52429264 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
52429283 TT
1 TT
52429285 CAAAGACTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:52429285 original size:12 final size:12
Alignment explanation
Indices: 52429254--52429278 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52429244 TTTTTCAATC
52429254 TCATTTTCTTTT
1 TCATTTTCTTTT
52429266 TCATTTTCTTTT
1 TCATTTTCTTTT
52429278 T
1 T
52429279 GCTTTTCAAA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:52429296 original size:12 final size:12
Alignment explanation
Indices: 52429281--52429311 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
52429271 TTCTTTTTGC
52429281 TTTTCAAAGACT
1 TTTTCAAAGACT
*
52429293 TTTTCAAAGGCT
1 TTTTCAAAGACT
52429305 TTTTCAA
1 TTTTCAA
52429312 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGACT
Found at i:52429368 original size:5 final size:5
Alignment explanation
Indices: 52429358--52429412 Score: 60
Period size: 5 Copynumber: 11.0 Consensus size: 5
52429348 CCTTTGCCTC
* *
52429358 TCTTT TCTTT T-TATT TCGTTT TCTTT T-TCT TCTTT TCTTT TGTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT
52429408 TCTTT
1 TCTTT
52429413 GTTTTCTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
4 4 0.10
5 33 0.79
6 4 0.10
7 1 0.02
ACGTcount: A:0.02, C:0.16, G:0.04, T:0.78
Consensus pattern (5 bp):
TCTTT
Found at i:52429384 original size:15 final size:13
Alignment explanation
Indices: 52429358--52429419 Score: 61
Period size: 15 Copynumber: 4.2 Consensus size: 13
52429348 CCTTTGCCTC
52429358 TCTTTTCTTTTTATT
1 TCTTTTC-TTTT-TT
52429373 TCGTTTTCTTTTTCT
1 TC-TTTTCTTTTT-T
52429388 TCTTTTCTTTTGTTT
1 TCTTTTC-TTT-TTT
52429403 TCTTTTCTTTGTTT
1 TCTTTTCTTT-TTT
52429417 TCT
1 TCT
52429420 CTTTACAAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
14 16 0.37
15 20 0.47
16 7 0.16
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.77
Consensus pattern (13 bp):
TCTTTTCTTTTTT
Found at i:52429402 original size:24 final size:25
Alignment explanation
Indices: 52429362--52429408 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
52429352 TGCCTCTCTT
52429362 TTCTTTTTATTTCGTTTTCTTTTTC
1 TTCTTTTTATTTCGTTTTCTTTTTC
52429387 TTCTTTTCT-TTT-GTTTTCTTTT
1 TTCTTTT-TATTTCGTTTTCTTTT
52429409 CTTTGTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.48
25 10 0.48
26 1 0.05
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (25 bp):
TTCTTTTTATTTCGTTTTCTTTTTC
Found at i:52432115 original size:30 final size:30
Alignment explanation
Indices: 52432030--52432126 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
52432020 TAAACTAAAA
* * *
52432030 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTAAGCTGAAGT
* * * *
52432060 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTAAGCTGAAGT
*
52432090 TGAGCTAAGGTTTAGCTCGTAAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTAAGCTGAAGT
52432119 ATGAGCTA
1 -TGAGCTA
52432127 GGAGTGAGCT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 1 0.02
30 53 0.98
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTAAGCTGAAGT
Found at i:52436879 original size:49 final size:49
Alignment explanation
Indices: 52436774--52437056 Score: 471
Period size: 49 Copynumber: 5.8 Consensus size: 49
52436764 CGTTGGCCGA
* * * *
52436774 ATTCATCACGTTGGCCATTCGGCCTTATCAC--ATATATACACCTTCAC
1 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
*
52436821 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATGCACTTTCAC
1 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
* *
52436870 ATTCTTCACATCGGCCATTAGGCCTTATCACATATATATGCACTTTCAC
1 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
*
52436919 ATTCATCACATCGGCCATTTGGCCTTATCACATATATATACACTTTCAC
1 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
*
52436968 ATTCATCACATCGGCCATTTGGCCTTATCACATATATATACACTTTCAC
1 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
52437017 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
52437057 TCTCATACAT
Statistics
Matches: 224, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 28 0.12
49 196 0.88
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (49 bp):
ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCAC
Found at i:52439492 original size:2 final size:2
Alignment explanation
Indices: 52439485--52439513 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
52439475 TTTAACTTAC
52439485 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 A
52439514 CCACAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52441551 original size:69 final size:70
Alignment explanation
Indices: 52441433--52441575 Score: 243
Period size: 69 Copynumber: 2.1 Consensus size: 70
52441423 TACCAAGCCC
52441433 CAAAGTGTAAAAATACCAAAAATCAATAGCAGGATAGTGTGATGCGATCTCCGTTGACTTCCAAC
1 CAAAGTGTAAAAATACCAAAAATCAATAGCAGGATAGTGTGATGCGATCTCCGTTGACTTCCAAC
*
52441498 CCGAG
66 CAGAG
* * *
52441503 CAAA-TGTAAAAATACCAAAAATCAATAGTAGGATAGTGTGATGTGATCTCTGTTGACTTCCAAC
1 CAAAGTGTAAAAATACCAAAAATCAATAGCAGGATAGTGTGATGCGATCTCCGTTGACTTCCAAC
52441567 CAGAG
66 CAGAG
52441572 CAAA
1 CAAA
52441576 CTTCTGAAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
69 65 0.94
70 4 0.06
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (70 bp):
CAAAGTGTAAAAATACCAAAAATCAATAGCAGGATAGTGTGATGCGATCTCCGTTGACTTCCAAC
CAGAG
Found at i:52442140 original size:32 final size:32
Alignment explanation
Indices: 52442099--52442171 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
52442089 ATTTTCGTAC
* * *
52442099 ATACATGTACTATATTGTACAAATTTCCATAT
1 ATACCTGTACCATATTGTACAAATTTCCATAG
* * *
52442131 ATACCTGTACCATATTGTACCAATTTTCGTAG
1 ATACCTGTACCATATTGTACAAATTTCCATAG
52442163 ATACCTGTA
1 ATACCTGTA
52442172 TCATCTCGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (32 bp):
ATACCTGTACCATATTGTACAAATTTCCATAG
Found at i:52442320 original size:28 final size:28
Alignment explanation
Indices: 52442289--52442362 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
52442279 TTCTGGATGT
*
52442289 TTCGCACACTAAGTGCCAT-CCTCGTTAC
1 TTCGCACACTAAGTGCCATCCCT-GATAC
52442317 TTCGCACACTAAGTGCCATCCCTGATAC
1 TTCGCACACTAAGTGCCATCCCTGATAC
**
52442345 TTCGCACGTTAAGTGCCA
1 TTCGCACACTAAGTGCCA
52442363 CATATAATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 39 0.93
29 3 0.07
ACGTcount: A:0.23, C:0.34, G:0.16, T:0.27
Consensus pattern (28 bp):
TTCGCACACTAAGTGCCATCCCTGATAC
Found at i:52449277 original size:47 final size:47
Alignment explanation
Indices: 52449226--52449645 Score: 506
Period size: 47 Copynumber: 9.1 Consensus size: 47
52449216 TTAGGATTTT
*
52449226 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
52449273 ATGTGATGAGTGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
52449320 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
52449371 ATGTGATGAATGTGAACCTG--TA--TAT-AT-AGGCC-AATGTG---
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATG-GCCA
** * *
52449409 ATGAATG-TGAACCTGTATAT--ATATGTGTGATAAGGCCGAATGGCCA
1 ATG--TGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
52449455 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
52449502 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
52449549 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * * *
52449596 ATGTGATGAATGTGAACATGTATATATGCGGTAAGGTCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
52449643 ATG
1 ATG
52449646 CGAAATGTGT
Statistics
Matches: 327, Mismatches: 27, Indels: 38
0.83 0.07 0.10
Matches are distributed among these distances:
38 3 0.01
39 10 0.03
40 6 0.02
41 8 0.02
42 4 0.01
43 8 0.02
44 6 0.02
45 11 0.03
46 3 0.01
47 223 0.68
49 2 0.01
51 43 0.13
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:52449371 original size:51 final size:51
Alignment explanation
Indices: 52449248--52449398 Score: 229
Period size: 51 Copynumber: 3.0 Consensus size: 51
52449238 TGAACATGCG
* ***
52449248 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAGTGTGAA--C--ATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATA
52449295 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATA
*
52449346 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATA
52449397 TA
1 TA
52449399 GGCCAATGTG
Statistics
Matches: 95, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
47 40 0.42
49 1 0.01
51 54 0.57
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (51 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATA
Found at i:52449403 original size:33 final size:33
Alignment explanation
Indices: 52449366--52449431 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
52449356 AAGGCCGAAT
52449366 GGCCAATGTGATGAATGTGAACCTGTATATATA
1 GGCCAATGTGATGAATGTGAACCTGTATATATA
52449399 GGCCAATGTGATGAATGTGAACCTGTATATATA
1 GGCCAATGTGATGAATGTGAACCTGTATATATA
52449432 TGTGTGATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (33 bp):
GGCCAATGTGATGAATGTGAACCTGTATATATA
Found at i:52449407 original size:84 final size:84
Alignment explanation
Indices: 52449315--52449471 Score: 305
Period size: 84 Copynumber: 1.9 Consensus size: 84
52449305 AAGGCCGAAT
52449315 GGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 GGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
52449380 ATGTGAACCTGTATATATA
66 ATGTGAACCTGTATATATA
*
52449399 GGCCAATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 GGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
52449464 ATGTGAAC
66 ATGTGAAC
52449472 ATGCATATGT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (84 bp):
GGCCAATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
ATGTGAACCTGTATATATA
Found at i:52449438 original size:29 final size:30
Alignment explanation
Indices: 52449371--52449439 Score: 95
Period size: 33 Copynumber: 2.2 Consensus size: 30
52449361 CGAATGGCCA
52449371 ATGTGATGAATGTGAACCTGTATATATAGG
1 ATGTGATGAATGTGAACCTGTATATATAGG
*
52449401 CCAATGTGATGAATGTGAACCTGTATATATATG
1 ---ATGTGATGAATGTGAACCTGTATATATAGG
52449434 -TGTGAT
1 ATGTGAT
52449440 AAGGCCGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
29 6 0.17
33 29 0.83
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.35
Consensus pattern (30 bp):
ATGTGATGAATGTGAACCTGTATATATAGG
Found at i:52449461 original size:22 final size:22
Alignment explanation
Indices: 52449434--52449508 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
52449424 TATATATATG
52449434 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
52449456 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
52449479 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
52449503 TGTGAT
1 TGTGAT
52449509 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:52449675 original size:46 final size:46
Alignment explanation
Indices: 52449619--52449754 Score: 182
Period size: 46 Copynumber: 3.0 Consensus size: 46
52449609 GAACATGTAT
* * *
52449619 ATATGCGGTAAGGTCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
* *
52449665 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
* * * * *
52449711 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGAT
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGAT
52449755 GTGTATATAT
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
Found at i:52450044 original size:37 final size:37
Alignment explanation
Indices: 52449899--52450043 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
52449889 GGAAATATAT
*
52449899 TCCGGGTAATACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52449936 TCCGGGTAAGACCCGATGACTACGTATGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52449973 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
52450010 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
52450044 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:52452962 original size:11 final size:13
Alignment explanation
Indices: 52452937--52452968 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
52452927 ACAAGTTTGA
52452937 AAAAAAAATTCCG
1 AAAAAAAATTCCG
52452950 AAAAAAAA-T-CG
1 AAAAAAAATTCCG
52452961 AAAAAAAA
1 AAAAAAAA
52452969 AAGTGATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.53
12 1 0.05
13 8 0.42
ACGTcount: A:0.75, C:0.09, G:0.06, T:0.09
Consensus pattern (13 bp):
AAAAAAAATTCCG
Found at i:52459802 original size:40 final size:40
Alignment explanation
Indices: 52459747--52460111 Score: 545
Period size: 40 Copynumber: 9.1 Consensus size: 40
52459737 GAGAATTGAG
52459747 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
52459787 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
52459827 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTACT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
52459867 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
52459907 AGTGATATATCCGGGCTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
52459947 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
52459987 AGTGATGTATCCGGGCTAAGTTCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
52460027 AGTGATATATCCGTGCTAA-ACCCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCC-GAAGAGCATTCGTGCT
* * ** *
52460067 GGTGTTATATCCGGGCTTGGTCCCGAAGAGCAATT-ATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGC-ATTCGTGCT
52460107 AGTGA
1 AGTGA
52460112 CGTGTATTCG
Statistics
Matches: 291, Mismatches: 31, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.00
40 284 0.98
41 6 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:52463691 original size:47 final size:47
Alignment explanation
Indices: 52463640--52464026 Score: 567
Period size: 47 Copynumber: 8.1 Consensus size: 47
52463630 TTAGGATTTT
*
52463640 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
52463687 ATGTGATGAGTGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
**
52463734 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
**
52463785 ATGTGATGAATGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCATATGTGTGATAAGGCCGAATGGCCA
52463836 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
52463883 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
52463930 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
52463977 ATGTGATGAATGTGAACATGTATATATGCGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
52464024 ATG
1 ATG
52464027 CGAAATGTGT
Statistics
Matches: 320, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
47 225 0.70
49 1 0.00
50 3 0.01
51 91 0.28
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:52463842 original size:22 final size:22
Alignment explanation
Indices: 52463815--52463889 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
52463805 TATATATATG
52463815 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
52463837 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
52463860 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
52463884 TGTGAT
1 TGTGAT
52463890 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:52464136 original size:46 final size:46
Alignment explanation
Indices: 52464000--52464136 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
52463990 GAACATGTAT
* * * *
52464000 ATATGCGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
*
52464046 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
52464092 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATG
52464137 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:52464425 original size:37 final size:37
Alignment explanation
Indices: 52464280--52464424 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
52464270 GGAAATATAT
*
52464280 TCCGGGTAATACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52464317 TCCGGGTAAGACCCGATGACTACGTATGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
52464354 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
52464391 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
52464425 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:52466206 original size:12 final size:12
Alignment explanation
Indices: 52466189--52466219 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
52466179 GACTCGAGTC
52466189 TTTTGTTTAGCA
1 TTTTGTTTAGCA
52466201 TTTTGTTTAGCA
1 TTTTGTTTAGCA
52466213 TTTTGTT
1 TTTTGTT
52466220 AAGTAGCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.06, G:0.16, T:0.65
Consensus pattern (12 bp):
TTTTGTTTAGCA
Found at i:52469267 original size:14 final size:15
Alignment explanation
Indices: 52469248--52469280 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
52469238 TCAATAGTAT
52469248 ATAAAACAT-AAAAC
1 ATAAAACATCAAAAC
*
52469262 ATAAAACATCAACAC
1 ATAAAACATCAAAAC
52469277 ATAA
1 ATAA
52469281 GTATTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.67, C:0.18, G:0.00, T:0.15
Consensus pattern (15 bp):
ATAAAACATCAAAAC
Found at i:52473182 original size:27 final size:27
Alignment explanation
Indices: 52473152--52473203 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
52473142 TCATTGAAGC
* *
52473152 ATCTTCATTGTCGTCCATGCATGTATT
1 ATCTTCAATGTCATCCATGCATGTATT
*
52473179 ATCTTTAATGTCATCCATGCATGTA
1 ATCTTCAATGTCATCCATGCATGTA
52473204 CCTCTACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.42
Consensus pattern (27 bp):
ATCTTCAATGTCATCCATGCATGTATT
Found at i:52474541 original size:17 final size:17
Alignment explanation
Indices: 52474519--52474553 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
52474509 TTCTGGATAC
52474519 TTAGAAAAATTATGCAA
1 TTAGAAAAATTATGCAA
52474536 TTAGAAAAATTATGCAA
1 TTAGAAAAATTATGCAA
52474553 T
1 T
52474554 CACAAGTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.31
Consensus pattern (17 bp):
TTAGAAAAATTATGCAA
Found at i:52475893 original size:42 final size:43
Alignment explanation
Indices: 52475779--52475944 Score: 119
Period size: 43 Copynumber: 3.9 Consensus size: 43
52475769 AAAGCTTGTA
* * *
52475779 CAATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAATAT
* * *
52475822 CAATGCCACTGTCCCAAACAGGGTCTTACACGAAATCATATA-
1 CAATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATAT
* * **
52475864 CGATGCCGA-TGTCCCAGACATGGTTTTACATATAAATCTCAAAT-T
1 CAATGCC-ACTGTCCCAGACATGGTCTTACA-CGAAA--TCAAATAT
* * *
52475909 -GATGCGAAC-GTCCCAGACGTGGTCTTACACGAAATC
1 CAATGC-CACTGTCCCAGACATGGTCTTACACGAAATC
52475945 TTATATCAGA
Statistics
Matches: 97, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
41 2 0.02
42 26 0.27
43 40 0.41
44 24 0.25
45 5 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
CAATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATAT
Found at i:52479747 original size:43 final size:42
Alignment explanation
Indices: 52479630--52479758 Score: 102
Period size: 43 Copynumber: 3.0 Consensus size: 42
52479620 CATAGGATTC
* * * *
52479630 CGATATGTGATTTCATGTAAGACCAAGTTTGGGAT-GTGGCAT
1 CGATATTTGATTACATGTAAGA-CTAGTCTGGGATAGTGGCAT
* * *
52479672 CGAT-TTGAGATTTACGTGTAAGGCCCTA-TCTGGGATAGTGGCAT
1 CGATATT-TGA-TTACATGTAA-G-ACTAGTCTGGGATAGTGGCAT
* *
52479716 CGATATTTGATTACATGTAAGACTACGTCTGGGACATTGGCAT
1 CGATATTTGATTACATGTAAGACTA-GTCTGGGATAGTGGCAT
52479759 TGTACGAGCT
Statistics
Matches: 67, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
41 4 0.06
42 7 0.10
43 38 0.57
44 16 0.24
45 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.33
Consensus pattern (42 bp):
CGATATTTGATTACATGTAAGACTAGTCTGGGATAGTGGCAT
Found at i:52481028 original size:21 final size:21
Alignment explanation
Indices: 52481004--52481045 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
52480994 TCATCAGATC
*
52481004 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
52481025 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
52481046 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:52484919 original size:15 final size:15
Alignment explanation
Indices: 52484899--52484928 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52484889 TCATCACTTA
*
52484899 TACTTAATGATTACC
1 TACTTAACGATTACC
52484914 TACTTAACGATTACC
1 TACTTAACGATTACC
52484929 AAATACAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (15 bp):
TACTTAACGATTACC
Found at i:52492523 original size:14 final size:14
Alignment explanation
Indices: 52492476--52492523 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
52492466 GTACGAATGG
*
52492476 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
52492490 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
52492504 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
52492518 ATTGGT
1 AATGGT
52492524 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:52495994 original size:30 final size:31
Alignment explanation
Indices: 52495913--52495995 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 31
52495903 CTTTTGTTTC
* *
52495913 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCATTTTCTTTTTCAATCTCA
* **
52495944 AATTTCTTTTT-GTTCCCTTTTTCAATCTC-
1 AATTTCTTTTTCATTTTCTTTTTCAATCTCA
*
52495973 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTCATTTTCTTTTT
52495996 GCTTTTCAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
29 10 0.24
30 21 0.50
31 11 0.26
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (31 bp):
AATTTCTTTTTCATTTTCTTTTTCAATCTCA
Found at i:52495995 original size:18 final size:19
Alignment explanation
Indices: 52495960--52496001 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
52495950 TTTTTGTTCC
52495960 CTTTTTCAATCTCATTTT-
1 CTTTTTCAATCTCATTTTG
* * *
52495978 CTTTTTCATTTTCTTTTTG
1 CTTTTTCAATCTCATTTTG
52495997 CTTTT
1 CTTTT
52496002 CAAAGACTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.10, C:0.19, G:0.02, T:0.69
Consensus pattern (19 bp):
CTTTTTCAATCTCATTTTG
Found at i:52496002 original size:12 final size:12
Alignment explanation
Indices: 52495971--52495995 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52495961 TTTTTCAATC
52495971 TCATTTTCTTTT
1 TCATTTTCTTTT
52495983 TCATTTTCTTTT
1 TCATTTTCTTTT
52495995 T
1 T
52495996 GCTTTTCAAA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:52496013 original size:12 final size:12
Alignment explanation
Indices: 52495998--52496028 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
52495988 TTCTTTTTGC
52495998 TTTTCAAAGACT
1 TTTTCAAAGACT
*
52496010 TTTTCAAAGGCT
1 TTTTCAAAGACT
52496022 TTTTCAA
1 TTTTCAA
52496029 GTTCTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGACT
Found at i:52496086 original size:5 final size:5
Alignment explanation
Indices: 52496076--52496132 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
52496066 CTCTTGCCTC
*
52496076 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
52496123 TCTTT TCTTT
1 TCTTT TCTTT
52496133 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:52496116 original size:15 final size:14
Alignment explanation
Indices: 52496076--52496132 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
52496066 CTCTTGCCTC
*
52496076 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
52496091 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
52496106 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
52496123 TCTTTTCTTT
1 TCTTTTCTTT
52496133 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:52496133 original size:21 final size:21
Alignment explanation
Indices: 52496076--52496143 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
52496066 CTCTTGCCTC
* *
52496076 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
52496097 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
52496118 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
52496138 CTCTTT
1 -TCTTT
52496144 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:52497504 original size:14 final size:14
Alignment explanation
Indices: 52497457--52497504 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
52497447 GTACGAATGG
*
52497457 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
52497471 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
52497485 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
52497499 ATTGGT
1 AATGGT
52497505 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:52498766 original size:30 final size:30
Alignment explanation
Indices: 52498732--52498813 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
52498722 TAAACTAAAA
* *
52498732 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
* * * * * *
52498762 TGAGCTGAGATTAAACTCCTAAGCTGAAGC
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
*
52498792 TGAGCTAAGGTTTAGCTCGTGA
1 TGAGCTAAGATTTAGCTCGTGA
52498814 ACTGAATATG
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGC
Found at i:52498819 original size:30 final size:30
Alignment explanation
Indices: 52498731--52498828 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
52498721 TTAAACTAAA
* * *
52498731 ATGAGCTAAGCTTTAGCTCGTGAGCTAAAG
1 ATGAGCTAAGATTTAGCTCGTGAACTGAAG
* * * * *
52498761 TTGAGCTGAGATTAAACTCCT-AAGCTGAAG
1 ATGAGCTAAGATTTAGCTCGTGAA-CTGAAG
* * *
52498791 CTGAGCTAAGGTTTAGCTCGTGAACTGAAT
1 ATGAGCTAAGATTTAGCTCGTGAACTGAAG
52498821 ATGAGCTA
1 ATGAGCTA
52498829 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
29 1 0.02
30 47 0.94
31 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.28
Consensus pattern (30 bp):
ATGAGCTAAGATTTAGCTCGTGAACTGAAG
Found at i:52504502 original size:30 final size:29
Alignment explanation
Indices: 52504456--52504521 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
52504446 CCTCAAGTAA
52504456 CCAAAGCCAGTTAAATCGCACAATTAGTG
1 CCAAAGCCAGTTAAATCGCACAATTAGTG
* * *
52504485 CTAAAGCTAGTTTAAATCGCACACTTAGTG
1 CCAAAGCCAG-TTAAATCGCACAATTAGTG
52504515 CCAAAGC
1 CCAAAGC
52504522 ATCCGATTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 8 0.25
30 24 0.75
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (29 bp):
CCAAAGCCAGTTAAATCGCACAATTAGTG
Found at i:52507323 original size:49 final size:50
Alignment explanation
Indices: 52507193--52507336 Score: 200
Period size: 49 Copynumber: 2.9 Consensus size: 50
52507183 TCTATTGTGA
*
52507193 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAG-AAACTGT
* * * * * *
52507244 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACAGT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAACTGT
*
52507293 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
52507337 TAGCTTCGGC
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 40 0.49
50 3 0.04
51 38 0.47
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAAACTGT
Found at i:52509990 original size:19 final size:19
Alignment explanation
Indices: 52509966--52510005 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
52509956 AGCTCCCATG
52509966 TAGCTC-CACACCAGCTCAT
1 TAGCTCGCA-ACCAGCTCAT
*
52509985 TAGCTCGGAACCAGCTCAT
1 TAGCTCGCAACCAGCTCAT
52510004 TA
1 TA
52510006 TCAGCTCGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCGCAACCAGCTCAT
Found at i:52511268 original size:14 final size:14
Alignment explanation
Indices: 52511246--52511293 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
52511236 ACCTAAACCG
* *
52511246 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
52511260 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
52511274 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
52511288 ACCATT
1 ACCATT
52511294 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:52511642 original size:21 final size:22
Alignment explanation
Indices: 52511603--52511646 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
52511593 ATGCATACTC
52511603 CTTCAAGCTCAAATCAGCTCAA
1 CTTCAAGCTCAAATCAGCTCAA
* *
52511625 CTTCAA-CTCAACTTAGCTCAA
1 CTTCAAGCTCAAATCAGCTCAA
52511646 C
1 C
52511647 GAGCTCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.34, C:0.34, G:0.07, T:0.25
Consensus pattern (22 bp):
CTTCAAGCTCAAATCAGCTCAA
Found at i:52518729 original size:10 final size:11
Alignment explanation
Indices: 52518698--52518727 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
52518688 GTATCTTTAG
52518698 GAAAAAAAATT
1 GAAAAAAAATT
52518709 GAAAAAAAATT
1 GAAAAAAAATT
52518720 GAATAAAA
1 GAA-AAAA
52518728 TTCGTGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (11 bp):
GAAAAAAAATT
Found at i:52524218 original size:30 final size:29
Alignment explanation
Indices: 52524175--52524234 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
52524165 CAAGTAACCG
*
52524175 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCACACACTTAGTGCCA
52524204 AAGCTAGTTTAAATCACACACTTAGTGCCA
1 AAGCTAG-TTAAATCACACACTTAGTGCCA
52524234 A
1 A
52524235 TGCTTTCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCA
Found at i:52527597 original size:48 final size:49
Alignment explanation
Indices: 52527476--52527606 Score: 149
Period size: 48 Copynumber: 2.7 Consensus size: 49
52527466 ATGAGATCTC
* * *
52527476 GTGTGAGACCATGTCTGGGACATGGCATCAGCATCTGAGATGAGAGCCA
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCATCTGAGATGAGAGCCA
* * * * * *
52527525 ATGTAAGACCATGT-TTGGACATGGCATCGGCGT-TGATATGTGTGCCA
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCATCTGAGATGAGAGCCA
* *
52527572 GTGTAAGACCATATCTAGGATATGGCATCGGCATC
1 GTGTAAGACCATGTCTAGGACATGGCATCGGCATC
52527607 AGTATGTGAT
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 23 0.34
48 32 0.48
49 12 0.18
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
GTGTAAGACCATGTCTAGGACATGGCATCGGCATCTGAGATGAGAGCCA
Found at i:52534304 original size:49 final size:48
Alignment explanation
Indices: 52534226--52534339 Score: 113
Period size: 49 Copynumber: 2.3 Consensus size: 48
52534216 GTTGTGTGTT
* * * *
52534226 AGTGTAAGACCTGTTTGGGACATAGCATCGAGATCGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTAGGA-ATAGCATCGACATCGATAGATGAAAGCC
* * *
52534275 AGTGTAAGACCTGTCTAGG-ATACGACATCGACCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTAGGAATA-G-CATCGACATCGATAGATGAAAGCC
* *
52534324 AATGTAAGAGCTGTCT
1 AGTGTAAGACCTGTCT
52534340 GGGACATGGC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
47 3 0.06
48 1 0.02
49 50 0.93
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTAGGAATAGCATCGACATCGATAGATGAAAGCC
Found at i:52536277 original size:17 final size:18
Alignment explanation
Indices: 52536255--52536292 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
52536245 GCTACAGCCA
52536255 AATTTA-TG-TTGTGTCTT
1 AATTTATTGTTTGTGT-TT
52536272 AATTTATTGTTTGTGTTT
1 AATTTATTGTTTGTGTTT
52536290 AAT
1 AAT
52536293 ATGTCTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.21, C:0.03, G:0.16, T:0.61
Consensus pattern (18 bp):
AATTTATTGTTTGTGTTT
Found at i:52537916 original size:16 final size:16
Alignment explanation
Indices: 52537883--52537913 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
52537873 TCGTAGTAGG
52537883 TTTGATATTAAAAAAA
1 TTTGATATTAAAAAAA
52537899 TTTGA-ATTAAAAAAA
1 TTTGATATTAAAAAAA
52537914 ATTCTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
TTTGATATTAAAAAAA
Found at i:52540195 original size:16 final size:17
Alignment explanation
Indices: 52540175--52540217 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
52540165 TAAAAAACAA
*
52540175 AAAAAAAAAGAAAGAAT
1 AAAAGAAAAGAAAGAAT
*
52540192 AAAAGAATA-AAAGAAT
1 AAAAGAAAAGAAAGAAT
52540208 AAAAGAAAAG
1 AAAAGAAAAG
52540218 TGAGCGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (17 bp):
AAAAGAAAAGAAAGAAT
Found at i:52540196 original size:8 final size:8
Alignment explanation
Indices: 52540185--52540214 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
52540175 AAAAAAAAAG
52540185 AAAGAATA
1 AAAGAATA
52540193 AAAGAATA
1 AAAGAATA
52540201 AAAGAATA
1 AAAGAATA
52540209 AAAGAA
1 AAAGAA
52540215 AAGTGAGCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (8 bp):
AAAGAATA
Found at i:52544303 original size:33 final size:33
Alignment explanation
Indices: 52544234--52544304 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
52544224 TCTCAGAGCC
**
52544234 ATCAGAATCAGTTGGGCCTAGCCCATTCTCAAA
1 ATCAGAATCAGTTGGGCCTAGCCCATTAACAAA
*
52544267 ATCAGTAA-CAGTTGGGCCTAGCCCATTAACAGA
1 ATCAG-AATCAGTTGGGCCTAGCCCATTAACAAA
52544300 ATCAG
1 ATCAG
52544305 GTGGGCCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 32 0.94
34 2 0.06
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (33 bp):
ATCAGAATCAGTTGGGCCTAGCCCATTAACAAA
Found at i:52544325 original size:27 final size:26
Alignment explanation
Indices: 52544279--52544330 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 26
52544269 CAGTAACAGT
52544279 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCA-TAACAGAATCAGG
52544306 TGGGCCTAAGCCCA-ACACAGAATCA
1 TGGGCCT-AGCCCATA-ACAGAATCA
52544331 ATATCAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 1 0.04
27 16 0.70
28 6 0.26
ACGTcount: A:0.33, C:0.29, G:0.23, T:0.15
Consensus pattern (26 bp):
TGGGCCTAGCCCATAACAGAATCAGG
Found at i:52557476 original size:30 final size:30
Alignment explanation
Indices: 52557442--52557498 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
52557432 CGAGCCTAGA
52557442 GGCAAAAGTGTAAATATGCAAAAGTTTAAG
1 GGCAAAAGTGTAAATATGCAAAAGTTTAAG
* * *
52557472 GGCAAAATTGTAAATTTGCCAAAGTTT
1 GGCAAAAGTGTAAATATGCAAAAGTTT
52557499 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATGCAAAAGTTTAAG
Found at i:52559543 original size:30 final size:30
Alignment explanation
Indices: 52559458--52559554 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
52559448 TAAACTAAAA
* *
52559458 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * *
52559488 TGAGCTAAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
52559518 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
52559547 ATGAGCTA
1 -TGAGCTA
52559555 GGAGTGAGCT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 1 0.02
30 53 0.98
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:52561730 original size:30 final size:30
Alignment explanation
Indices: 52561659--52561741 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
52561649 CTTTTGTTTC
* *
52561659 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
52561690 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
52561719 ATTTTCTTTTTCTTTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
52561742 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.12, C:0.22, G:0.01, T:0.65
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:52561759 original size:12 final size:12
Alignment explanation
Indices: 52561744--52561774 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
52561734 TTCTTTTTGC
52561744 TTTTCAAAGGCT
1 TTTTCAAAGGCT
52561756 TTTTCAAAGGCT
1 TTTTCAAAGGCT
52561768 TTTTCAA
1 TTTTCAA
52561775 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:52561842 original size:15 final size:14
Alignment explanation
Indices: 52561822--52561885 Score: 56
Period size: 16 Copynumber: 4.2 Consensus size: 14
52561812 CTCTTGCCTC
52561822 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
52561837 TCTTTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
*
52561852 TCTTTTGTTTTTTCTGT
1 TCTTTT-CTTTTT-T-T
*
52561869 TCTTTTCTTTGTTT
1 TCTTTTCTTTTTTT
52561883 TCT
1 TCT
52561886 CTTTACAAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 8 0.20
15 11 0.28
16 14 0.35
17 7 0.17
ACGTcount: A:0.02, C:0.16, G:0.05, T:0.78
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:52561879 original size:21 final size:21
Alignment explanation
Indices: 52561839--52561889 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
52561829 TTTTTATTTC
52561839 TTTTTCTTTTTCTTCTTTTGT
1 TTTTTCTTTTTCTTCTTTTGT
52561860 TTTTTCTGTTCTT-TTC-TTTGT
1 TTTTTCT-TT-TTCTTCTTTTGT
*
52561881 TTTCTCTTT
1 TTTTTCTTT
52561890 ACAAGAATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 18 0.67
22 5 0.19
23 2 0.07
ACGTcount: A:0.00, C:0.16, G:0.06, T:0.78
Consensus pattern (21 bp):
TTTTTCTTTTTCTTCTTTTGT
Found at i:52562810 original size:12 final size:11
Alignment explanation
Indices: 52562793--52562852 Score: 65
Period size: 11 Copynumber: 5.7 Consensus size: 11
52562783 CATTAAACAC
52562793 TTTTTTTTCAA
1 TTTTTTTTCAA
52562804 -TTTTTTT---
1 TTTTTTTTCAA
* *
52562811 TTCTTTTTGAA
1 TTTTTTTTCAA
52562822 TTTTTTTTCAA
1 TTTTTTTTCAA
52562833 TTTTTTTTCGAA
1 TTTTTTTTC-AA
52562845 TTTTTTTT
1 TTTTTTTT
52562853 TAACTTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 6 0.15
10 7 0.17
11 18 0.44
12 10 0.24
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:52564638 original size:30 final size:30
Alignment explanation
Indices: 52564604--52564688 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
52564594 TAAACTAAAA
52564604 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * * *
52564634 TGAGCTGAGGC-TAAACTCCTAAGTTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
52564664 TGAGCTAAGGTTTAGCTCGTGAGCT
1 TGAGCTAAGCTTTAGCTCGTGAGCT
52564689 GAATATGAAC
Statistics
Matches: 39, Mismatches: 14, Indels: 4
0.68 0.25 0.07
Matches are distributed among these distances:
29 2 0.05
30 34 0.87
31 3 0.08
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:52565165 original size:68 final size:64
Alignment explanation
Indices: 52565048--52565194 Score: 161
Period size: 68 Copynumber: 2.2 Consensus size: 64
52565038 ATACAGATAG
* * * * *
52565048 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTGTACAAGAGAGCTAC--GACA-
52565113 TA
63 TA
* * * *
52565115 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGAGAT
1 T-ATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGT-GTACAAGAGAGCTACGACAT
52565179 A
64 A
52565180 TATGTAGCTAGGTCG
1 TATGTAGCTAGGTCG
52565195 TATTGTAGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
64 14 0.20
65 3 0.04
66 3 0.04
67 1 0.01
68 47 0.68
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.27
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATACTAAGTGCACACCATGTGTACAAGAGAGCTACGACATA
Found at i:52565315 original size:50 final size:49
Alignment explanation
Indices: 52565198--52565387 Score: 236
Period size: 50 Copynumber: 3.8 Consensus size: 49
52565188 TAGGTCGTAT
* ** * * *
52565198 TGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT-GGTCACGTG
*
52565249 TGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT-GGTCACGTG
* * * *
52565299 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCACGTG
* *
52565348 TGTAGTACTAAGTGCAGGCTACTATGGGTACCAGATAGTT
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
52565388 TGGCTACATA
Statistics
Matches: 122, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
49 43 0.35
50 48 0.39
51 31 0.25
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTCACGTG
Found at i:52565383 original size:99 final size:101
Alignment explanation
Indices: 52565198--52565387 Score: 276
Period size: 99 Copynumber: 1.9 Consensus size: 101
52565188 TAGGTCGTAT
* *
52565198 TGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCACGTGTGTAGTACTAAGTG
1 TGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTCGATCACATGTGTAGTACTAAGTG
* *
52565263 CAGGCTACTACGTGTATCAGATAGTTAGGTCACGTG
66 CAGGCTACTACGGGTACCAGATAGTTAGGTCACGTG
** * * *
52565299 TGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT-GGTCGCATGTGTAGTACTAAGTG
1 TGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTCGATCACATGTGTAGTACTAAGTG
*
52565362 CAGGCTACTATGGGTACCAGATAGTT
66 CAGGCTACTACGGGTACCAGATAGTT
52565388 TGGCTACATA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 43 0.54
100 2 0.03
101 34 0.43
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (101 bp):
TGTAGTACTAAGTGCAGGCTACTACGCATACCCGATAACTTCGATCACATGTGTAGTACTAAGTG
CAGGCTACTACGGGTACCAGATAGTTAGGTCACGTG
Found at i:52572474 original size:18 final size:19
Alignment explanation
Indices: 52572451--52572487 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
52572441 TGTATTTCAG
52572451 ACTTTTGATA-CTTTGTGA
1 ACTTTTGATATCTTTGTGA
*
52572469 ACTTTTTATATCTTTGTGA
1 ACTTTTGATATCTTTGTGA
52572488 GTATAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.22, C:0.11, G:0.14, T:0.54
Consensus pattern (19 bp):
ACTTTTGATATCTTTGTGA
Found at i:52579240 original size:13 final size:13
Alignment explanation
Indices: 52579222--52579246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52579212 TGGTCATCAT
52579222 GGTGTGAACACAA
1 GGTGTGAACACAA
52579235 GGTGTGAACACA
1 GGTGTGAACACA
52579247 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:52585971 original size:24 final size:23
Alignment explanation
Indices: 52585944--52585988 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
52585934 ATGTTGCTCT
*
52585944 GCTTC-AACTCAAGAAACTCTTTAC
1 GCTTCTAA-TCAACAAA-TCTTTAC
52585968 GCTTCTAATCAACAAATCTTT
1 GCTTCTAATCAACAAATCTTT
52585989 CACTGATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (23 bp):
GCTTCTAATCAACAAATCTTTAC
Found at i:52588077 original size:93 final size:93
Alignment explanation
Indices: 52587970--52588142 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
52587960 CGCCCATAAG
* ** *
52587970 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACAAGCTC-GGACATTAACATCCATAAGTGAACTCAGACTCAACTC
*
52588034 AACAAGCTTGGATGCCTAGTTACATTTCA
65 AACAAGCTCGGATGCCTAGTTACATTTCA
*
52588063 CGAACTCGGACTCAACTCAATAAGCTCGGACATTAACATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACAAGCTCGGACATTAACATCCATAAGTGAACTCAGACTCAACTCA
*
52588128 ACGAGCTCGGATGCC
66 ACAAGCTCGGATGCC
52588143 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACAAGCTCGGACATTAACATCCATAAGTGAACTCAGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACATTTCA
Found at i:52588138 original size:46 final size:45
Alignment explanation
Indices: 52587963--52588138 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 45
52587953 TGTAACCCGC
* *
52587963 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGCTC-GGACATT-ACAT
* *
52588009 CCATAAGTGAACTCGGACTCAACTCAACAAGCTTGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGA---C-A-TTACAT
* * *
52588059 --TTCA-CGAACTCGGACTCAACTCAATAAGCTCGGACATTAACAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGACATT-ACAT
* * *
52588102 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGA
52588139 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 4 0.04
46 57 0.54
47 27 0.26
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGACATTACAT
Found at i:52589836 original size:20 final size:20
Alignment explanation
Indices: 52589813--52589860 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
52589803 AGCTCCGTCC
52589813 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
**** *
52589833 AGCTTGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
52589853 AGCTCAAC
1 AGCTCAAC
52589861 CGAGCTTACT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:52596630 original size:10 final size:10
Alignment explanation
Indices: 52596615--52596641 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
52596605 TAAGTTGAAG
52596615 TTGAGCTGAT
1 TTGAGCTGAT
52596625 TTGAGCTGAT
1 TTGAGCTGAT
52596635 TTGAGCT
1 TTGAGCT
52596642 TGAATTAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:52602512 original size:15 final size:15
Alignment explanation
Indices: 52602492--52602539 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
52602482 TCAAAGATGG
52602492 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
52602507 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
52602521 GTTTATGGATATAAA
1 GTTTATGGATATGAA
52602536 GTTT
1 GTTT
52602540 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:52602526 original size:14 final size:14
Alignment explanation
Indices: 52602486--52602529 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
52602476 AAGGATTCAA
52602486 AGATGGGTTTATGG
1 AGATGGGTTTATGG
* * *
52602500 ATATGAAGTTTATGT
1 AGATG-GGTTTATGG
52602515 AGATGGGTTTATGG
1 AGATGGGTTTATGG
52602529 A
1 A
52602530 TATAAAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (14 bp):
AGATGGGTTTATGG
Found at i:52602555 original size:29 final size:29
Alignment explanation
Indices: 52602486--52602545 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
52602476 AAGGATTCAA
*
52602486 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
*
52602515 AGATGGGTTTATGGATATAAAGTTTTTGT
1 AGATGGGTTTATGGATATAAAGTTTATGT
52602544 AG
1 AG
52602546 GTTTGGTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (29 bp):
AGATGGGTTTATGGATATAAAGTTTATGT
Found at i:52603564 original size:14 final size:14
Alignment explanation
Indices: 52603522--52603566 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
52603512 TTAAAGAAGC
52603522 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
52603536 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
52603549 AACTCATTTAATTA
1 AACTCATTAAATTA
52603563 AACT
1 AACT
52603567 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:52604335 original size:30 final size:30
Alignment explanation
Indices: 52604301--52604397 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
52604291 TAAACTAAAA
* *
52604301 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCCTAAGCTAAAGT
* * * *
52604331 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCCTAAGCTAAAGT
* * *
52604361 TGAGCTAAGGTTTAGCTCATAAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCCTAAGCT-AAAGT
52604391 TGAGCTA
1 TGAGCTA
52604398 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 2 0.04
30 43 0.84
31 6 0.12
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCCTAAGCTAAAGT
Found at i:52606533 original size:28 final size:28
Alignment explanation
Indices: 52606487--52606555 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
52606477 TTTAAAACCC
*
52606487 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
52606514 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
52606542 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
52606556 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:52608204 original size:20 final size:20
Alignment explanation
Indices: 52608181--52608218 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52608171 CACATCCAAA
*
52608181 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
52608201 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
52608219 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:52614539 original size:28 final size:28
Alignment explanation
Indices: 52614493--52614561 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
52614483 TTTAAAACCC
*
52614493 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
52614520 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
52614548 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
52614562 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:52616212 original size:20 final size:20
Alignment explanation
Indices: 52616189--52616226 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52616179 CACATCCAAA
*
52616189 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
52616209 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
52616227 GGAATAAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:52617684 original size:51 final size:51
Alignment explanation
Indices: 52617558--52617717 Score: 211
Period size: 51 Copynumber: 3.2 Consensus size: 51
52617548 TTTTTCTCGA
* * *
52617558 TTTTCTTTTCTTTTTCTTA-TTTTTCTT-TGTTGATTTTCTTTTCACTC-T-C
1 TTTTCTTTTCTTTTTCTTATTTTTTCTTCTTTTG-TTTT-TTTACAATCTTCC
*
52617607 TTTTGTTTTCTTTTTCTTATTTTTTTCTTCTTTTGTTTTTTTACAATCTTCC
1 TTTTCTTTTCTTTTTCTTA-TTTTTTCTTCTTTTGTTTTTTTACAATCTTCC
*
52617659 TTTTCTTTTCTTTTTCTTATTTTTTCTTCTTTTGTTTTTTTACAATCTTCA
1 TTTTCTTTTCTTTTTCTTATTTTTTCTTCTTTTGTTTTTTTACAATCTTCC
*
52617710 TGTTCTTT
1 TTTTCTTT
52617718 CATTCTCATT
Statistics
Matches: 99, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
49 18 0.18
50 7 0.07
51 51 0.52
52 23 0.23
ACGTcount: A:0.07, C:0.16, G:0.04, T:0.72
Consensus pattern (51 bp):
TTTTCTTTTCTTTTTCTTATTTTTTCTTCTTTTGTTTTTTTACAATCTTCC
Found at i:52617715 original size:27 final size:27
Alignment explanation
Indices: 52617632--52617717 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
52617622 CTTATTTTTT
*
52617632 TCTTCTTTTGTTTTTTTACAATCTTCC
1 TCTTCTTTTGTTTTTTTACAATCTTCA
* * **
52617659 TTTTCTTTTCTTTTTCTT---AT-TTTT
1 TCTTCTTTTGTTTTT-TTACAATCTTCA
52617683 TCTTCTTTTGTTTTTTTACAATCTTCA
1 TCTTCTTTTGTTTTTTTACAATCTTCA
*
52617710 TGTTCTTT
1 TCTTCTTT
52617718 CATTCTCATT
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
23 2 0.04
24 15 0.33
25 2 0.04
26 2 0.04
27 22 0.49
28 2 0.04
ACGTcount: A:0.09, C:0.17, G:0.03, T:0.70
Consensus pattern (27 bp):
TCTTCTTTTGTTTTTTTACAATCTTCA
Found at i:52620203 original size:14 final size:14
Alignment explanation
Indices: 52620184--52620214 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
52620174 TGGATAGTTG
52620184 AAGAAAGGTTAAGA
1 AAGAAAGGTTAAGA
*
52620198 AAGAAAGGTTGAGA
1 AAGAAAGGTTAAGA
52620212 AAG
1 AAG
52620215 GTTCAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.32, T:0.13
Consensus pattern (14 bp):
AAGAAAGGTTAAGA
Found at i:52620543 original size:19 final size:19
Alignment explanation
Indices: 52620513--52620558 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
52620503 CAAGTTAGCT
52620513 CTCATGTAGCTCCACACCAG
1 CTCAT-TAGCTCCACACCAG
***
52620533 CTCATTAGCTCGGGACCAG
1 CTCATTAGCTCCACACCAG
52620552 CTCATTA
1 CTCATTA
52620559 TCAGCTCACG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (19 bp):
CTCATTAGCTCCACACCAG
Found at i:52623971 original size:66 final size:68
Alignment explanation
Indices: 52623895--52624081 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
52623885 TAGTACCACT
*
52623895 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
52623957 CACG
65 CACG
52623961 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
52624026 ATCACG
63 ATCACG
52624032 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
52624082 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:52624006 original size:71 final size:71
Alignment explanation
Indices: 52623918--52624081 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
52623908 CGATTTGTCT
52623918 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52623983 CTTTCA
66 CTTTCA
52623989 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
52624054 CTTTCA
66 CTTTCA
52624060 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
52624082 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:52624119 original size:71 final size:70
Alignment explanation
Indices: 52623918--52624115 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
52623908 CGATTTGTCT
* * *
52623918 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
52623983 CTTTCA
65 CTTTCA
* * *
52623989 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
52624054 CTTTCA
65 CTTTCA
* *
52624060 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
52624116 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:52625678 original size:11 final size:13
Alignment explanation
Indices: 52625653--52625684 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
52625643 ACAAGTTTGA
52625653 AAAAAAAATTCCG
1 AAAAAAAATTCCG
52625666 AAAAAAAA-T-CG
1 AAAAAAAATTCCG
52625677 AAAAAAAA
1 AAAAAAAA
52625685 AGTGATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.53
12 1 0.05
13 8 0.42
ACGTcount: A:0.75, C:0.09, G:0.06, T:0.09
Consensus pattern (13 bp):
AAAAAAAATTCCG
Found at i:52632990 original size:14 final size:14
Alignment explanation
Indices: 52632968--52633015 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
52632958 ACCTAAACCG
* *
52632968 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
52632982 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
52632996 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
52633010 ACCATT
1 ACCATT
52633016 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:52633382 original size:11 final size:11
Alignment explanation
Indices: 52633366--52633407 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
52633356 TATACAAGTT
52633366 AAAAAAAATCA
1 AAAAAAAATCA
**
52633377 AAAAAAAATTG
1 AAAAAAAATCA
52633388 AAAAAAAATCGA
1 AAAAAAAATC-A
52633400 AAAAAAAA
1 AAAAAAAA
52633408 GAGTGATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.81, C:0.05, G:0.05, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCA
Found at i:52638621 original size:19 final size:18
Alignment explanation
Indices: 52638597--52638635 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
52638587 AGCTCCCATG
52638597 TAGCTCCACACCAGCTCAT
1 TAGCT-CACACCAGCTCAT
**
52638616 TAGCTCGGACCAGCTCAT
1 TAGCTCACACCAGCTCAT
52638634 TA
1 TA
52638636 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (18 bp):
TAGCTCACACCAGCTCAT
Found at i:52639875 original size:14 final size:14
Alignment explanation
Indices: 52639853--52639900 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
52639843 ACCTAAACCG
* *
52639853 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
52639867 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
52639881 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
52639895 ACCATT
1 ACCATT
52639901 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:52643153 original size:38 final size:38
Alignment explanation
Indices: 52643088--52643181 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 38
52643078 TCAATCATGC
* *
52643088 ACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
52643127 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
52643165 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
52643182 ACTGTAAACA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 41 0.79
39 11 0.21
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Done.