Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 25 of 91
Found at i:5076334 original size:36 final size:36
Alignment explanation
Indices: 5076287--5076385 Score: 155
Period size: 36 Copynumber: 2.8 Consensus size: 36
5076277 TGTTTCTATC
*
5076287 CATGATATACATGTGTTGGTTACTTATTATTATAAG
1 CATGATATACATGTGTTGGTTACTGATTATTATAAG
* *
5076323 CATGATATACATGTGCTT-GCTACTGATTATTATGAG
1 CATGATATACATGTG-TTGGTTACTGATTATTATAAG
5076359 CATGATATACATGTGTTGGTTACTGAT
1 CATGATATACATGTGTTGGTTACTGAT
5076386 GATTTATTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
35 2 0.04
36 53 0.93
37 2 0.04
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.41
Consensus pattern (36 bp):
CATGATATACATGTGTTGGTTACTGATTATTATAAG
Found at i:5077777 original size:21 final size:22
Alignment explanation
Indices: 5077751--5077793 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
5077741 TTATTCACAT
5077751 CAACTCATCAAA-ACCAACCAC
1 CAACTCATCAAAGACCAACCAC
*
5077772 CAACTCGTCAAAGTACCAACCA
1 CAACTCATCAAAG-ACCAACCA
5077794 TGTTGAACTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.44, C:0.40, G:0.05, T:0.12
Consensus pattern (22 bp):
CAACTCATCAAAGACCAACCAC
Found at i:5088473 original size:6 final size:6
Alignment explanation
Indices: 5088435--5088482 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
5088425 TGCTCGATCG
* * * *
5088435 AAATGA AAATAA AAGTGA AAATAA AGATAA AAAGTAA AAATAA AAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA-TAA AAATAA AAATA
5088483 TAACGGAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:5103518 original size:23 final size:23
Alignment explanation
Indices: 5103492--5103541 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
5103482 GGAGTAATGC
* *
5103492 TGTCCCAGCTGCTTAACCTTGCT
1 TGTCCAAGATGCTTAACCTTGCT
*
5103515 TGTCTAAGATGCTTAACCTTGCT
1 TGTCCAAGATGCTTAACCTTGCT
5103538 TGTC
1 TGTC
5103542 TACTTTCTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.16, C:0.28, G:0.18, T:0.38
Consensus pattern (23 bp):
TGTCCAAGATGCTTAACCTTGCT
Found at i:5103853 original size:23 final size:23
Alignment explanation
Indices: 5103827--5103895 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
5103817 CACCACAACT
* *
5103827 CATATAAATGCGCCGAAGTGCCA
1 CATAGAAATGCACCGAAGTGCCA
** *
5103850 CATAGATTTGCACCGAAGTGCCG
1 CATAGAAATGCACCGAAGTGCCA
*
5103873 CGTAGAAATGCACC-AGAGTGCCA
1 CATAGAAATGCACCGA-AGTGCCA
5103896 TATAAGATGT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
22 1 0.03
23 35 0.97
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (23 bp):
CATAGAAATGCACCGAAGTGCCA
Found at i:5113361 original size:2 final size:2
Alignment explanation
Indices: 5113356--5113389 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5113346 ATTAAATTTA
5113356 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5113390 TTAGGGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5113814 original size:2 final size:2
Alignment explanation
Indices: 5113807--5113862 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
5113797 ATTTAAACAA
5113807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5113849 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
5113863 GACTAAGATG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5113887 original size:12 final size:12
Alignment explanation
Indices: 5113870--5113944 Score: 57
Period size: 12 Copynumber: 6.3 Consensus size: 12
5113860 TATGACTAAG
5113870 ATGAAAATAATA
1 ATGAAAATAATA
*
5113882 ATGAAAGTAATA
1 ATGAAAATAATA
**
5113894 ATTTAAAT-AT-
1 ATGAAAATAATA
*
5113904 ATCAAAAGTAATA
1 ATGAAAA-TAATA
5113917 AT-AAAATAATA
1 ATGAAAATAATA
* *
5113928 TTGCAAATAAATA
1 ATGAAAAT-AATA
5113941 ATGA
1 ATGA
5113945 TCAAAATAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
10 5 0.10
11 9 0.19
12 26 0.54
13 8 0.17
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (12 bp):
ATGAAAATAATA
Found at i:5115131 original size:3 final size:3
Alignment explanation
Indices: 5115123--5115184 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
5115113 ATTATTCATT
* * * * * * *
5115123 TAA TAA TAA TAA TAA TAA TAA TTA TTA TTA TTA TTA TTA TATT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
5115169 TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA T
5115185 TTTAAAAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 52 0.96
4 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (3 bp):
TAA
Found at i:5115652 original size:116 final size:116
Alignment explanation
Indices: 5115445--5115829 Score: 610
Period size: 116 Copynumber: 3.3 Consensus size: 116
5115435 TAAAATCTCA
*
5115445 TTTGAAAACATCCTGCACTGGAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAG
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAG
* *
5115510 GTCTTACAGATGACCCAGAGGCTTTGAATATCAAAAAGCTCCCGAAGGCTT
66 GTCTTACAGATGACCCGGAGGATTTGAATATCAAAAAGCTCCCGAAGGCTT
*
5115561 TTTGAAAACAACCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAG
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAG
*
5115626 GTCTCACAGATGACCCGGAGGATTTGAATATCAAAAAGCTCCCGAAGGCTT
66 GTCTTACAGATGACCCGGAGGATTTGAATATCAAAAAGCTCCCGAAGGCTT
* * * * **
5115677 TTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCC-GAAGGTTTTGAAAACATCAAGCACT
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTG-AGGTCTT---ATCATCTTGCACT
* *
5115741 GTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTT
62 GTAGGTCTTACAGATGACCCGGAGGATTTGAATATCAAAAAGCTCCCGAAGGCTT
5115796 TTTGAAAACATCCTGCACTGTAGGTCTTATGGAT
1 TTTGAAAACATCCTGCACTGTAGGTCTTATGGAT
5115830 AACCCGAAGG
Statistics
Matches: 249, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
115 1 0.00
116 153 0.61
119 95 0.38
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (116 bp):
TTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAG
GTCTTACAGATGACCCGGAGGATTTGAATATCAAAAAGCTCCCGAAGGCTT
Found at i:5115732 original size:45 final size:45
Alignment explanation
Indices: 5115666--5115769 Score: 136
Period size: 45 Copynumber: 2.3 Consensus size: 45
5115656 TCAAAAAGCT
** **
5115666 CCCGAAGGCTTTTTGAAAACATCCTGCACTATAGGTCTTATGGATGA
1 CCCGAAGG--TTTTGAAAACATCAAGCACTATAGGTCTTACAGATGA
*
5115713 CCCGAAGGTTTTGAAAACATCAAGCACTGTAGGTCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCAAGCACTATAGGTCTTACAGATGA
*
5115758 CCCGGAGGTTTT
1 CCCGAAGGTTTT
5115770 AAATATCAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
45 43 0.84
47 8 0.16
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCAAGCACTATAGGTCTTACAGATGA
Found at i:5115866 original size:193 final size:193
Alignment explanation
Indices: 5115611--5116039 Score: 696
Period size: 193 Copynumber: 2.2 Consensus size: 193
5115601 GAGGTCTTAT
* * ** * * *
5115611 CATCTTGCACTGTAGGTCTCACAGATGACCCGGAGGATTTGAATATCAAAAAGCTCCCGAAGGCT
1 CATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAATATAAAAAAGCTCCCGAAGGCT
*
5115676 TTTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCAAGCACT
66 TCTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCAAGCACT
* *
5115741 GTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAA
131 GTAGGTCATACAGATGACCCGAAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAA
* *
5115804 CATCCTGCACTGTAGGTCTTATGGATAACCCGAAGGTTTTGAATATAAAAAAGCTTCCGAAGGCT
1 CATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAATATAAAAAAGCTCCCGAAGGCT
* * * *
5115869 TCTTGAAAACATCTTGCACTGTAGGTCTTATGGATGACTCGATGGTTTTGAAAACATCAAGCACT
66 TCTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCAAGCACT
*
5115934 GTAGGTCATACAGATGACCCGAAGGTTTTAAATATCAAAAAGCTCCTGAAGGCTTTTTGAAAA
131 GTAGGTCATACAGATGACCCGAAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAA
*
5115997 CATCCTGCACTGTAGGTCGTATGGATGACCCGAAGGTTTTGAA
1 CATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAA
5116040 AACATCAAAC
Statistics
Matches: 217, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
193 217 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (193 bp):
CATCCTGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAATATAAAAAAGCTCCCGAAGGCT
TCTTGAAAACATCCTGCACTATAGGTCTTATGGATGACCCGAAGGTTTTGAAAACATCAAGCACT
GTAGGTCATACAGATGACCCGAAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAA
Found at i:5115899 original size:74 final size:73
Alignment explanation
Indices: 5115713--5115920 Score: 283
Period size: 74 Copynumber: 2.8 Consensus size: 73
5115703 TTATGGATGA
* ** * * *
5115713 CCCGAAGG-TTTTGAAAACATCAAGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATC
1 CCCGAAGGCTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAATATA
5115777 AAAAAGCT
66 AAAAAGCT
* *
5115785 CCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATAACCCGAAGGTTTTGAATAT
1 CCCGAAGGC-TTTTGAAAACATCATGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAATAT
5115850 AAAAAAGCT
65 AAAAAAGCT
* * * *
5115859 TCCGAAGGCTTCTTGAAAACATCTTGCACTGTAGGTCTTATGGATGACTCGATGGTTTTGAA
1 CCCGAAGGCTT-TTGAAAACATCATGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAA
5115921 AACATCAAGC
Statistics
Matches: 120, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
72 8 0.07
73 2 0.02
74 110 0.92
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (73 bp):
CCCGAAGGCTTTTGAAAACATCATGCACTGTAGGTCTTATGGATGACCCGAAGGTTTTGAATATA
AAAAAGCT
Found at i:5115950 original size:45 final size:45
Alignment explanation
Indices: 5115860--5115962 Score: 125
Period size: 45 Copynumber: 2.2 Consensus size: 45
5115850 AAAAAAGCTT
** * **
5115860 CCGAAGGCTTCTTGAAAACATCTTGCACTGTAGGTCTTATGGATGAC
1 CCGAAGG-TT-TTGAAAACATCAAGCACTGTAGGTCATACAGATGAC
* *
5115907 TCGATGGTTTTGAAAACATCAAGCACTGTAGGTCATACAGATGAC
1 CCGAAGGTTTTGAAAACATCAAGCACTGTAGGTCATACAGATGAC
5115952 CCGAAGGTTTT
1 CCGAAGGTTTT
5115963 AAATATCAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 40 0.85
46 2 0.04
47 5 0.11
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (45 bp):
CCGAAGGTTTTGAAAACATCAAGCACTGTAGGTCATACAGATGAC
Found at i:5116058 original size:45 final size:45
Alignment explanation
Indices: 5115988--5116081 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
5115978 CCTGAAGGCT
*** * **
5115988 TTTTGAAAACATCCTGCACTGTAGGTCGTATGGATGACCCGAAGG
1 TTTTGAAAACATCAAACACTATAGGTCGTACAGATGACCCGAAGG
* *
5116033 TTTTGAAAACATCAAACACTATAGGTCTTACAGATGACCCGGAGG
1 TTTTGAAAACATCAAACACTATAGGTCGTACAGATGACCCGAAGG
5116078 TTTT
1 TTTT
5116082 AAATATCAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (45 bp):
TTTTGAAAACATCAAACACTATAGGTCGTACAGATGACCCGAAGG
Found at i:5116226 original size:116 final size:116
Alignment explanation
Indices: 5115804--5116900 Score: 1397
Period size: 116 Copynumber: 9.3 Consensus size: 116
5115794 TTTTTGAAAA
* ** * * * * *
5115804 CATCCTGCACTGTAGGTCTTATGGATAACCCGAAGGTTTTGAATATAAAAAAGCTTCCGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCT
* * * * * * *
5115869 TCTTGAAAACATCTTGCACTGTAGGTCTTATGGATGACTCGATGGTTTTGAAAA
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTAAGGTCTT---AT
** * * *
5115923 CATCAAGCACTGTAGGTCATACAGATGACCCGAAGGTTTTAAATATCAAAAAGCTCCTGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCT
* * * *
5115988 TTTTGAAAACATCCTGCACTGTAGGTCGTATGGATGACCCGAAGGTTTTGAAAA
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTAAGGTCTT---AT
*** *
5116042 CATCAAACACTATAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCT
* *
5116107 TTTTGAAAACATCCTGAACTGTAGGTCTTATGGATGGCCCTAAGGTCTTAT
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTAAGGTCTTAT
* * * * * *
5116158 CATCTTGCACTGTAGGTCTTACAGATGACTCGGAGGCTTTAAATATGAAAAAACTCTCGAAGGAT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCT
*
5116223 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTAAGGTCTTAT
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTAAGGTCTTAT
* * *
5116274 CATCTTGCACTATAGGTCTTACAGGTGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCT
* * * * *
5116339 TATTGAAAACATCCTGCACTGTAGGTCTTATAGATGACCCGAAGGTTTTGAAAA
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTAAGGTCTT---AT
** * * *
5116393 CATCAAGC-CTTGTAGGTCTTACAGATGACCTGGAGGTTTTAAATTTCAAAAAGCTTCCGAAGGC
1 CATCTTGCAC-TGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGC
* *
5116457 TTTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGCCCCTGAGGTCTTAT
65 -TTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTAAGGTCTTAT
* * * *
5116510 CATCTTGCACTGTAGGTCTTACAGATGACCCAGAGGATTTAAATATCAAAAGGCTCCCGGAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCT
* * *
5116575 TTTTGAAAACATCCTGCACTGTAGGTCTTATTGATGTCCCTGAGGTCTTAT
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTAAGGTCTTAT
* * *
5116626 CATCTTGCACTGTAGGTCTTACAGATGACCTGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCT
* * * * *
5116691 TTTTGAAAACATCCTGCACTGTACGTCTTATCGATGACCCAAAGGTTTTGAAAA
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTAAGGTCTT---AT
** *
5116745 CATCAAGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTTCCGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCT
* *
5116810 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGAT-AGCCTTAGGTCTTAT
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTAAGGTCTTAT
5116860 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGG-TTTT
5116901 TGAAAACATC
Statistics
Matches: 864, Mismatches: 104, Indels: 23
0.87 0.10 0.02
Matches are distributed among these distances:
115 35 0.04
116 364 0.42
117 54 0.06
118 11 0.01
119 356 0.41
120 44 0.05
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (116 bp):
CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCT
TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTAAGGTCTTAT
Found at i:5116395 original size:45 final size:45
Alignment explanation
Indices: 5116329--5116432 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
5116319 TCAAAAAGCT
** *
5116329 CCCGAAGGCTTATTGAAAACATCCTGCAC-TGTAGGTCTTATAGATGA
1 CCCGAAGG-TT-TTGAAAACATCAAGC-CTTGTAGGTCTTACAGATGA
5116376 CCCGAAGGTTTTGAAAACATCAAGCCTTGTAGGTCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCAAGCCTTGTAGGTCTTACAGATGA
* *
5116421 CCTGGAGGTTTT
1 CCCGAAGGTTTT
5116433 AAATTTCAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 1 0.02
45 40 0.78
46 2 0.04
47 8 0.16
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCAAGCCTTGTAGGTCTTACAGATGA
Found at i:5116644 original size:352 final size:350
Alignment explanation
Indices: 5115804--5116895 Score: 1634
Period size: 352 Copynumber: 3.1 Consensus size: 350
5115794 TTTTTGAAAA
* ** * * * * *
5115804 CATCCTGCACTGTAGGTCTTATGGATAACCCGAAGGTTTTGAATATAAAAAAGCTTCCGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGATTTAAATATAAAAAAGCTCCCGAAGGCT
* * * * * **
5115869 TCTTGAAAACATCTTGCACTGTAGGTCTTATGGATGACTC-GATGGTTTTGAAAACATCAAGCAC
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTGA-GGTCTT---ATCATCTTGCAC
* * *
5115933 TGTAGGTCATACAGATGACCCGAAGGTTTTAAATATCAAAAAGCTCCTGAAGGCTTTTTGAAAAC
127 TGTAGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAAC
* * * *
5115998 ATCCTGCACTGTAGGTCGTATGGATGACCCGAAGGTTTTGAAAACATCAAACACTATAGGTCTTA
192 ATCCTGCACTGTAGGTCTTATAGATGACCCGAAGGTTTTGAAAACATCAAGCACTGTAGGTCTTA
* *
5116063 CAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGAACTG
257 CAGATGACCCGGAGGTTTTAAATATCAAAAAGCTTCCGAAGGCTTTTTGAAAACATCCTGCACTG
5116128 TAGGTCTTATGGATGGCCCTAAGGTCTTAT
322 TAGGTCTTATGGAT-GCCCTAAGGTCTTAT
* * * *
5116158 CATCTTGCACTGTAGGTCTTACAGATGACTCGGAGGCTTTAAATATGAAAAAA-CTCTCGAAGGA
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGATTTAAATAT-AAAAAAGCTCCCGAAGGC
* * *
5116222 TTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTAAGGTCTTATCATCTTGCACTAT
65 TTTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTGAGGTCTTATCATCTTGCACTGT
* * *
5116287 AGGTCTTACAGGTGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTATTGAAAACATC
130 AGGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATC
5116352 CTGCACTGTAGGTCTTATAGATGACCCGAAGGTTTTGAAAACATCAAGC-CTTGTAGGTCTTACA
195 CTGCACTGTAGGTCTTATAGATGACCCGAAGGTTTTGAAAACATCAAGCAC-TGTAGGTCTTACA
* *
5116416 GATGACCTGGAGGTTTTAAATTTCAAAAAGCTTCCGAAGGCTTTTTTGAAAACATCCTGCACTGT
259 GATGACCCGGAGGTTTTAAATATCAAAAAGCTTCCGAAGGC-TTTTTGAAAACATCCTGCACTGT
*
5116481 AGGTCTTATGGATGCCCCTGAGGTCTTAT
323 AGGTCTTATGGATG-CCCTAAGGTCTTAT
* * * *
5116510 CATCTTGCACTGTAGGTCTTACAGATGACCCAGAGGATTTAAATATCAAAAGGCTCCCGGAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGATTTAAATATAAAAAAGCTCCCGAAGGCT
* *
5116575 TTTTGAAAACATCCTGCACTGTAGGTCTTATTGATGTCCCTGAGGTCTTATCATCTTGCACTGTA
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTGAGGTCTTATCATCTTGCACTGTA
*
5116640 GGTCTTACAGATGACCTGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCC
131 GGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCC
* * *
5116705 TGCACTGTACGTCTTATCGATGACCCAAAGGTTTTGAAAACATCAAGCACTGTAGGTCTTACAGA
196 TGCACTGTAGGTCTTATAGATGACCCGAAGGTTTTGAAAACATCAAGCACTGTAGGTCTTACAGA
5116770 TGACCCGGAGGTTTTAAATATCAAAAAGCTTCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGG
261 TGACCCGGAGGTTTTAAATATCAAAAAGCTTCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGG
*
5116835 TCTTATGGATAG-CCTTAGGTCTTAT
326 TCTTATGGAT-GCCCTAAGGTCTTAT
5116860 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGG
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGG
5116896 CTTTTTGAAA
Statistics
Matches: 671, Mismatches: 59, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
350 48 0.07
351 207 0.31
352 320 0.48
353 1 0.00
354 88 0.13
355 7 0.01
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (350 bp):
CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGATTTAAATATAAAAAAGCTCCCGAAGGCT
TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGACCCTGAGGTCTTATCATCTTGCACTGTA
GGTCTTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCC
TGCACTGTAGGTCTTATAGATGACCCGAAGGTTTTGAAAACATCAAGCACTGTAGGTCTTACAGA
TGACCCGGAGGTTTTAAATATCAAAAAGCTTCCGAAGGCTTTTTGAAAACATCCTGCACTGTAGG
TCTTATGGATGCCCTAAGGTCTTAT
Found at i:5116645 original size:22 final size:22
Alignment explanation
Indices: 5116584--5116646 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 22
5116574 TTTTTGAAAA
*
5116584 CATCCTGCACTGTAGGTCTTAT
1 CATCATGCACTGTAGGTCTTAT
* *
5116606 --TGATGTCCCTG-AGGTCTTAT
1 CATCATG-CACTGTAGGTCTTAT
*
5116626 CATCTTGCACTGTAGGTCTTA
1 CATCATGCACTGTAGGTCTTA
5116647 CAGATGACCT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
20 12 0.39
21 8 0.26
22 11 0.35
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (22 bp):
CATCATGCACTGTAGGTCTTAT
Found at i:5116755 original size:45 final size:45
Alignment explanation
Indices: 5116691--5116784 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
5116681 CCCGAAGGCT
**
5116691 TTTTGAAAACATCCTGCACTGTACGTCTTATC-GATGACCCAAAGG
1 TTTTGAAAACATCAAGCACTGTACGTCTTA-CAGATGACCCAAAGG
* **
5116736 TTTTGAAAACATCAAGCACTGTAGGTCTTACAGATGACCCGGAGG
1 TTTTGAAAACATCAAGCACTGTACGTCTTACAGATGACCCAAAGG
5116781 TTTT
1 TTTT
5116785 AAATATCAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.02
45 42 0.98
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (45 bp):
TTTTGAAAACATCAAGCACTGTACGTCTTACAGATGACCCAAAGG
Found at i:5117647 original size:22 final size:22
Alignment explanation
Indices: 5117591--5117673 Score: 107
Period size: 22 Copynumber: 3.9 Consensus size: 22
5117581 AAATCTAATA
* * * *
5117591 AATCTTTCATCTCTGAAAAGAG
1 AATCTATCATCTTTGAAGAGTG
5117613 AATCTATCATCTTTGAAGAGTG
1 AATCTATCATCTTTGAAGAGTG
*
5117635 AATCTATCATCTTTGGAGAGTG
1 AATCTATCATCTTTGAAGAGTG
5117657 --TCTATCATCTTTGAAGA
1 AATCTATCATCTTTGAAGA
5117674 ATGTAGATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.29
22 39 0.71
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (22 bp):
AATCTATCATCTTTGAAGAGTG
Found at i:5118140 original size:55 final size:55
Alignment explanation
Indices: 5118044--5118147 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 55
5118034 TACTGGTTCA
* * *
5118044 TAAAACATTGGAAAATACATTAATCATTTACTGTGGTTTCTGCACAGATGTTTCG
1 TAAAACATTGGAAAACACATTAATCATTTACTGTAGCTTCTGCACAGATGTTTCG
* * * *
5118099 TAAAACATTTGACAACACATTCATCATTT-CTTGTAGCTTCTGCCCAGAT
1 TAAAACATTGGAAAACACATTAATCATTTAC-TGTAGCTTCTGCACAGAT
5118148 TTCTCATCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 1 0.02
55 40 0.98
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (55 bp):
TAAAACATTGGAAAACACATTAATCATTTACTGTAGCTTCTGCACAGATGTTTCG
Found at i:5119153 original size:75 final size:75
Alignment explanation
Indices: 5119025--5119197 Score: 240
Period size: 75 Copynumber: 2.3 Consensus size: 75
5119015 GATACGGGTC
** * *
5119025 TTCAGCATGCCCCAACATTTGCTGACACAGACGTTCAAAATGCACCAATATTCCTGATTCTAATT
1 TTCAGCATGCCCCAGTATTTGCTGACACAAACGTTCAAAATGCACCAACATTCCTGATTCTAATT
5119090 GAAA-AGGGCT
66 GAAATA-GGCT
* * * * * *
5119100 TTCAGCATGCCCCAGTATTTGTTGATACAAATGTTTAAAATGCATCAACATTCCTGATTCTTATT
1 TTCAGCATGCCCCAGTATTTGCTGACACAAACGTTCAAAATGCACCAACATTCCTGATTCTAATT
5119165 GAAATAGGCT
66 GAAATAGGCT
5119175 TTCAGCATGCCCCAGTATTTGCT
1 TTCAGCATGCCCCAGTATTTGCT
5119198 TCTTGCTGAA
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
75 85 0.99
76 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (75 bp):
TTCAGCATGCCCCAGTATTTGCTGACACAAACGTTCAAAATGCACCAACATTCCTGATTCTAATT
GAAATAGGCT
Found at i:5119856 original size:46 final size:46
Alignment explanation
Indices: 5119795--5119884 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
5119785 GCAGAGATTA
*
5119795 CCTTTTACCAGCTCAGCATACATTTGAAAGCAGATGTGCAAGAACG
1 CCTTTTACCAGCTCAGCATACATTTGAAAGCAAATGTGCAAGAACG
*
5119841 CCTTTTACC-GTCTCAGCATACATTTGAAAGCAAATGTGTAAGAA
1 CCTTTTACCAG-CTCAGCATACATTTGAAAGCAAATGTGCAAGAA
5119885 ATGAATGATG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 1 0.02
46 40 0.98
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (46 bp):
CCTTTTACCAGCTCAGCATACATTTGAAAGCAAATGTGCAAGAACG
Found at i:5121623 original size:9 final size:9
Alignment explanation
Indices: 5121611--5121640 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
5121601 TTTTCTTATT
5121611 TTTCATCTC
1 TTTCATCTC
*
5121620 TTTCATCTT
1 TTTCATCTC
5121629 TTTCATCTC
1 TTTCATCTC
5121638 TTT
1 TTT
5121641 TTTTCTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.10, C:0.27, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTCATCTC
Found at i:5121623 original size:18 final size:18
Alignment explanation
Indices: 5121602--5121640 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
5121592 CTTTTTTCTT
*
5121602 TTTCTTATTTTTCATCTC
1 TTTCATATTTTTCATCTC
*
5121620 TTTCATCTTTTTCATCTC
1 TTTCATATTTTTCATCTC
5121638 TTT
1 TTT
5121641 TTTTCTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCATATTTTTCATCTC
Found at i:5124143 original size:8 final size:8
Alignment explanation
Indices: 5124130--5124159 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
5124120 TGTAAATGAA
5124130 AAAAATGC
1 AAAAATGC
5124138 AAAAATGC
1 AAAAATGC
5124146 AAAAATGC
1 AAAAATGC
5124154 AAAAAT
1 AAAAAT
5124160 AAGAATGCAA
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:0.67, C:0.10, G:0.10, T:0.13
Consensus pattern (8 bp):
AAAAATGC
Found at i:5124168 original size:14 final size:15
Alignment explanation
Indices: 5124130--5124170 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
5124120 TGTAAATGAA
5124130 AAAAATGCAAAAATGC
1 AAAAATGCAAAAAT-C
5124146 AAAAATGCAAAAAT-
1 AAAAATGCAAAAATC
*
5124160 AAGAATGCAAA
1 AAAAATGCAAA
5124171 TTGTGCAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
16 14 0.58
ACGTcount: A:0.66, C:0.10, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAATGCAAAAATC
Found at i:5124227 original size:20 final size:21
Alignment explanation
Indices: 5124202--5124254 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
5124192 ATATAAAATG
5124202 AAAATGAAAATG-AAA-ATATA
1 AAAATGAAAATGCAAACATA-A
* *
5124222 AAAATGTAGATGCAAACATAA
1 AAAATGAAAATGCAAACATAA
*
5124243 AAAATGCAAATG
1 AAAATGAAAATG
5124255 TAATGAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 10 0.37
21 14 0.52
22 3 0.11
ACGTcount: A:0.62, C:0.06, G:0.13, T:0.19
Consensus pattern (21 bp):
AAAATGAAAATGCAAACATAA
Found at i:5126634 original size:21 final size:20
Alignment explanation
Indices: 5126610--5126652 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
5126600 ATATAAACAT
5126610 TAATATATAAGGATAAAAAAA
1 TAATATA-AAGGATAAAAAAA
5126631 T-A-ATAAAGGATAAAAAAA
1 TAATATAAAGGATAAAAAAA
5126649 TAAT
1 TAAT
5126653 TGAATGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
18 14 0.70
19 4 0.20
20 1 0.05
21 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.23
Consensus pattern (20 bp):
TAATATAAAGGATAAAAAAA
Found at i:5126639 original size:18 final size:18
Alignment explanation
Indices: 5126618--5126652 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
5126608 ATTAATATAT
5126618 AAGGATAAAAAAATAATA
1 AAGGATAAAAAAATAATA
5126636 AAGGATAAAAAAATAAT
1 AAGGATAAAAAAATAAT
5126653 TGAATGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (18 bp):
AAGGATAAAAAAATAATA
Found at i:5127491 original size:5 final size:5
Alignment explanation
Indices: 5127481--5127505 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
5127471 AAAATAATTT
5127481 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
5127506 TATATAATTT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:5127676 original size:23 final size:23
Alignment explanation
Indices: 5127649--5127717 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
5127639 TATGAATAAG
5127649 ATGAAAATAATAATAAAATAATA
1 ATGAAAATAATAATAAAATAATA
* *
5127672 ATGAAAGTAATAATTTAAAT-AT-
1 ATGAAAATAATAA-TAAAATAATA
*
5127694 ATCAAAACTAATAATAAAATAATA
1 ATGAAAA-TAATAATAAAATAATA
5127718 TTACAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 10 0.27
23 22 0.59
24 5 0.14
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (23 bp):
ATGAAAATAATAATAAAATAATA
Found at i:5127718 original size:23 final size:21
Alignment explanation
Indices: 5127643--5127732 Score: 65
Period size: 23 Copynumber: 3.9 Consensus size: 21
5127633 TATATATATG
*
5127643 AATAAGATGAAAATAATAATAA
1 AATAATAT-AAAATAATAATAA
* *
5127665 AATAATAATGAAAGTAATAATTTA
1 AATAAT-AT-AAAATAATAA-TAA
5127689 AAT-ATATCAAAACTAATAATAA
1 AATAATAT-AAAA-TAATAATAA
5127711 AATAATATTACAAATAAATAAT
1 AATAATA-TA-AAAT-AATAAT
5127733 GATCAAAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
22 15 0.27
23 25 0.45
24 15 0.27
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.29
Consensus pattern (21 bp):
AATAATATAAAATAATAATAA
Found at i:5127791 original size:22 final size:21
Alignment explanation
Indices: 5127752--5127793 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
5127742 AAAAGAAATT
*
5127752 AAAATTATAAAATTAAAATGC
1 AAAATTATAAAATAAAAATGC
*
5127773 AAAATATATTAAATAAAAATG
1 AAAAT-TATAAAATAAAAATG
5127794 ATCAAACTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (21 bp):
AAAATTATAAAATAAAAATGC
Found at i:5128927 original size:3 final size:3
Alignment explanation
Indices: 5128919--5128971 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
5128909 TTTATTTATT
* * * *
5128919 TAA TAA TAA TAG TTA TTA TAA TAA TAA TATT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
5128965 TAA TAA T
1 TAA TAA T
5128972 TTTAAAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 41 0.95
4 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:5128934 original size:21 final size:18
Alignment explanation
Indices: 5128914--5128966 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
5128904 TTGTATTTAT
5128914 TTATT-TAATAATAATAG
1 TTATTATAATAATAATAG
*
5128931 TTATTATAATAATAATAT
1 TTATTATAATAATAATAG
*
5128949 TTAATAATAATAATAATA
1 TT-ATTATAATAATAATA
5128967 ATAATTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.16
18 13 0.41
19 14 0.44
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TTATTATAATAATAATAG
Found at i:5129846 original size:28 final size:28
Alignment explanation
Indices: 5129806--5129871 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
5129796 ACCTATTTAA
* * *
5129806 AACATGT-ATTCTTGTACTTAACCTTTGT
1 AACATGTCA-TCTTATACTCAACATTTGT
5129834 AACATGTCATCTTATACTCAACATTTGT
1 AACATGTCATCTTATACTCAACATTTGT
*
5129862 AACATATCAT
1 AACATGTCAT
5129872 ATAATACATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 32 0.97
29 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.41
Consensus pattern (28 bp):
AACATGTCATCTTATACTCAACATTTGT
Found at i:5129878 original size:28 final size:28
Alignment explanation
Indices: 5129820--5129878 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
5129810 TGTATTCTTG
* * * * *
5129820 TACTTAACCTTTGTAACATGTCATCTTA
1 TACTCAACATTTGTAACATATCATATAA
5129848 TACTCAACATTTGTAACATATCATATAA
1 TACTCAACATTTGTAACATATCATATAA
5129876 TAC
1 TAC
5129879 ATTTCACCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (28 bp):
TACTCAACATTTGTAACATATCATATAA
Found at i:5130181 original size:36 final size:36
Alignment explanation
Indices: 5130134--5130236 Score: 152
Period size: 36 Copynumber: 2.9 Consensus size: 36
5130124 ACGGTGCTGG
* * *
5130134 ACATTGATACACAAATGTGCCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATAATA
*
5130170 ACATTGATACACGAATGTACCAAAGCTAATATAATA
1 ACATTGATACACGAATGTACCAAAGCTGATATAATA
* *
5130206 ACATTAATACATGAATGTACCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
5130237 ATACTCAACT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 60 1.00
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.25
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATAATA
Found at i:5132719 original size:25 final size:24
Alignment explanation
Indices: 5132683--5132742 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
5132673 TGAATAAGAA
*
5132683 TTTATG-TCCTTGT-GACACGTTTTT
1 TTTATGCT-CTTGTAGA-ACGTGTTT
5132707 TTATATGCTCTTGTAGAACGTGTTT
1 TT-TATGCTCTTGTAGAACGTGTTT
*
5132732 TTTCTGCTCTT
1 TTTATGCTCTT
5132743 ATGGCACGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
24 10 0.32
25 18 0.58
26 3 0.10
ACGTcount: A:0.13, C:0.17, G:0.17, T:0.53
Consensus pattern (24 bp):
TTTATGCTCTTGTAGAACGTGTTT
Found at i:5137254 original size:25 final size:25
Alignment explanation
Indices: 5137226--5137292 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 25
5137216 TTTTTAAATA
* *
5137226 ATGAAAGGGTTTTGAAAAATGTTTG
1 ATGAAAGGATTTTGAAAAATGATTG
* * *
5137251 ATGAATGAATTTTGATAAATGATTG
1 ATGAAAGGATTTTGAAAAATGATTG
*
5137276 ATG-AA-GTTTTTGAAAAA
1 ATGAAAGGATTTTGAAAAA
5137293 AAAATGACCC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
23 9 0.27
24 1 0.03
25 23 0.70
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.37
Consensus pattern (25 bp):
ATGAAAGGATTTTGAAAAATGATTG
Found at i:5153141 original size:24 final size:24
Alignment explanation
Indices: 5153113--5153165 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
5153103 GACTCGATAG
5153113 CATAATGTAAATGGAGAGTCGATC
1 CATAATGTAAATGGAGAGTCGATC
5153137 CATAATGTAAATGGAGAGTCGATC
1 CATAATGTAAATGGAGAGTCGATC
5153161 CATAA
1 CATAA
5153166 AATACAACTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.25
Consensus pattern (24 bp):
CATAATGTAAATGGAGAGTCGATC
Found at i:5154034 original size:14 final size:14
Alignment explanation
Indices: 5154003--5154061 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
5153993 ATTTATTTTT
*
5154003 AATATTAAATGTTA
1 AATATTAAATCTTA
5154017 AA-ATTTAAAATCTTA
1 AATA-TT-AAATCTTA
5154032 AATATTAAATCTTA
1 AATATTAAATCTTA
*
5154046 AATATTTAAATTTTA
1 AATA-TTAAATCTTA
5154061 A
1 A
5154062 TTTTTAAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.03
14 16 0.41
15 21 0.54
16 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (14 bp):
AATATTAAATCTTA
Found at i:5154060 original size:7 final size:7
Alignment explanation
Indices: 5153997--5154070 Score: 58
Period size: 7 Copynumber: 10.3 Consensus size: 7
5153987 TAAATGATTT
*
5153997 ATTTTTA
1 ATTTTAA
*
5154004 ATATTAA
1 ATTTTAA
*
5154011 ATGTTAAA
1 AT-TTTAA
*
5154019 ATTTAAA
1 ATTTTAA
*
5154026 ATCTTAA
1 ATTTTAA
*
5154033 ATATTAA
1 ATTTTAA
*
5154040 ATCTTAA
1 ATTTTAA
5154047 ATATTTAA
1 AT-TTTAA
5154055 ATTTTAA
1 ATTTTAA
*
5154062 TTTTTAA
1 ATTTTAA
5154069 AT
1 AT
5154071 GTAATTGAAC
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
7 43 0.80
8 11 0.20
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (7 bp):
ATTTTAA
Found at i:5154067 original size:14 final size:15
Alignment explanation
Indices: 5154003--5154070 Score: 72
Period size: 14 Copynumber: 4.7 Consensus size: 15
5153993 ATTTATTTTT
*
5154003 AATA-TTAAATGTTA
1 AATATTTAAATCTTA
5154017 AA-ATTTAAAATCTTA
1 AATATTT-AAATCTTA
5154032 AATA-TTAAATCTTA
1 AATATTTAAATCTTA
*
5154046 AATATTTAAAT-TTT
1 AATATTTAAATCTTA
*
5154060 AATTTTTAAAT
1 AATATTTAAAT
5154071 GTAATTGAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
13 1 0.02
14 28 0.60
15 17 0.36
16 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (15 bp):
AATATTTAAATCTTA
Found at i:5154068 original size:22 final size:22
Alignment explanation
Indices: 5153997--5154070 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
5153987 TAAATGATTT
* *
5153997 ATTTTTAATA-TTAAATGTTAA
1 ATTTTAAATATTTAAATATTAA
*
5154018 AATTTAAA-ATCTTAAATATTAA
1 ATTTTAAATAT-TTAAATATTAA
* *
5154040 ATCTTAAATATTTAAATTTTAA
1 ATTTTAAATATTTAAATATTAA
*
5154062 TTTTTAAAT
1 ATTTTAAAT
5154071 GTAATTGAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.02
21 6 0.14
22 33 0.79
23 2 0.05
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (22 bp):
ATTTTAAATATTTAAATATTAA
Found at i:5155204 original size:10 final size:10
Alignment explanation
Indices: 5155189--5155216 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
5155179 GTAATTTATC
5155189 ATTAAAATGA
1 ATTAAAATGA
5155199 ATTAAAATGA
1 ATTAAAATGA
5155209 ATTAAAAT
1 ATTAAAAT
5155217 TCATTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (10 bp):
ATTAAAATGA
Found at i:5156806 original size:14 final size:14
Alignment explanation
Indices: 5156789--5156823 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
5156779 GACTCGTTCT
**
5156789 AGTCAACTTGTCTG
1 AGTCAACTCATCTG
5156803 AGTCAACTCATCTG
1 AGTCAACTCATCTG
5156817 AGTCAAC
1 AGTCAAC
5156824 CTGTTGACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (14 bp):
AGTCAACTCATCTG
Found at i:5166646 original size:47 final size:48
Alignment explanation
Indices: 5166595--5166707 Score: 187
Period size: 47 Copynumber: 2.4 Consensus size: 48
5166585 ATTAATCGAG
* *
5166595 TAGAGCCAGTTTTGA-GCACCTTTAGTAATTCTTGAATGTGTAATAAC
1 TAGAGCCAGTTTTCAGGCACCTTTAGTAATTCTTGAATGTGTAAAAAC
5166642 TAGAGCCA-TTTTCAGGCACCTTTAGTAATTCTTGAATGTGTAAAAAC
1 TAGAGCCAGTTTTCAGGCACCTTTAGTAATTCTTGAATGTGTAAAAAC
5166689 TAGAGCCAG-TTTCAGGCAC
1 TAGAGCCAGTTTTCAGGCAC
5166708 TACTCGTAAG
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
46 5 0.08
47 57 0.92
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (48 bp):
TAGAGCCAGTTTTCAGGCACCTTTAGTAATTCTTGAATGTGTAAAAAC
Found at i:5168878 original size:26 final size:24
Alignment explanation
Indices: 5168848--5168908 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 24
5168838 AACTTAAAAA
5168848 GAATAAAATAATAAA-AACAAAAATTC
1 GAAT-AAATAA-AAAGAA-AAAAATTC
5168874 GAATAAATAAAAAGAAAAAAA-TC
1 GAATAAATAAAAAGAAAAAAATTC
*
5168897 -CATAAATAAAAA
1 GAATAAATAAAAA
5168909 TATCAAAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 11 0.33
23 2 0.06
24 8 0.24
25 8 0.24
26 4 0.12
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.16
Consensus pattern (24 bp):
GAATAAATAAAAAGAAAAAAATTC
Found at i:5176111 original size:46 final size:46
Alignment explanation
Indices: 5176044--5176154 Score: 177
Period size: 46 Copynumber: 2.4 Consensus size: 46
5176034 TTTGTATGTA
** * *
5176044 GTAATGTGATTTTGGTACTGTTGTGCACTGTTGCATTGAGTACATG
1 GTAATGTGATTTTGGTACTGTTGTGCACAATTGCATTCAGTACACG
*
5176090 GTAATGTGATTTTGGTACTGTTGTGCGCAATTGCATTCAGTACACG
1 GTAATGTGATTTTGGTACTGTTGTGCACAATTGCATTCAGTACACG
5176136 GTAATGTGATTTTGGTACT
1 GTAATGTGATTTTGGTACT
5176155 ATATTACTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.41
Consensus pattern (46 bp):
GTAATGTGATTTTGGTACTGTTGTGCACAATTGCATTCAGTACACG
Found at i:5181264 original size:22 final size:22
Alignment explanation
Indices: 5181238--5181293 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
5181228 AAACCATTCA
5181238 GGGGGAATCGGTACCCCCTTGG
1 GGGGGAATCGGTACCCCCTTGG
*
5181260 GGGGGAAACGGTACCCCCTTGG
1 GGGGGAATCGGTACCCCCTTGG
5181282 GGGGGAATCGGT
1 GGGGGAATCGGT
5181294 TCCCTCTGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.16, C:0.23, G:0.45, T:0.16
Consensus pattern (22 bp):
GGGGGAATCGGTACCCCCTTGG
Found at i:5183465 original size:24 final size:23
Alignment explanation
Indices: 5183438--5183501 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
5183428 CGATTTCCTC
*
5183438 AAGGAGGGAATTGGTTCCCATTCA
1 AAGG-GGGAATCGGTTCCCATTCA
*
5183462 AAGGGGGAATCGGTTCCCCTTC-
1 AAGGGGGAATCGGTTCCCATTCA
* *
5183484 AAGGGGGTATCGATTCCC
1 AAGGGGGAATCGGTTCCC
5183502 TCTACACTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 16 0.44
23 16 0.44
24 4 0.11
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (23 bp):
AAGGGGGAATCGGTTCCCATTCA
Found at i:5183490 original size:22 final size:22
Alignment explanation
Indices: 5183436--5183501 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
5183426 ATCGATTTCC
*
5183436 TCAAGGAGGGAATTGGTTCCCAT
1 TCAAGG-GGGAATCGGTTCCCAT
*
5183459 TCAAAGGGGGAATCGGTTCCCCT
1 TC-AAGGGGGAATCGGTTCCCAT
* *
5183482 TCAAGGGGGTATCGATTCCC
1 TCAAGGGGGAATCGGTTCCC
5183502 TCTACACTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 16 0.42
23 18 0.47
24 4 0.11
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (22 bp):
TCAAGGGGGAATCGGTTCCCAT
Found at i:5192329 original size:28 final size:26
Alignment explanation
Indices: 5192284--5192337 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
5192274 TAGTATAATT
*
5192284 TTATATGAATAGTATTACTACATTAA
1 TTATATGAATAGTATTACTAAATTAA
5192310 TTATATGAATAGTATTTTACTAAATTAA
1 TTATATGAATAGTA--TTACTAAATTAA
5192338 GATTTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.56
28 11 0.44
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (26 bp):
TTATATGAATAGTATTACTAAATTAA
Found at i:5203340 original size:18 final size:17
Alignment explanation
Indices: 5203286--5203334 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
5203276 TTGGACTCCT
* *
5203286 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TGA
5203304 GAGTGCATCGATGCATGA
1 -AGTGCATCGATGCATGA
5203322 AGTGCATTCGATG
1 AGTGCA-TCGATG
5203335 TTTGAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATGA
Found at i:5203424 original size:64 final size:65
Alignment explanation
Indices: 5203303--5203470 Score: 189
Period size: 64 Copynumber: 2.6 Consensus size: 65
5203293 CGGTGCACTA
* * * * * *
5203303 AGAGTGCATCGATGCATGAAGTGCATTCGATGTTTGAA--AAATAGCCTGGTGCTTCGATGCATG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAATA-CATAGTACATCGATGCATG
5203366 G
65 G
** * * *
5203367 ATTGTGCATCGATGCATCAAATGCATTCGATGTTTTAATTAAAT-CATAGTACATCGATTCATGG
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAATACATAGTACATCGATGCATGG
* *
5203431 AGAGTGCATCGGTGCATGGAATGCATTCGATGTTTCAATT
1 AGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATT
5203471 TATTCATTGA
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
64 82 0.95
66 4 0.05
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (65 bp):
AGAGTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAAATACATAGTACATCGATGCATGG
Found at i:5206088 original size:24 final size:23
Alignment explanation
Indices: 5206017--5206096 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 23
5206007 CATGATCTTG
* *
5206017 TGCATCGATGTACATTCAAGGAA
1 TGCATCGATGCACATTCAAGGGA
* *
5206040 TGCATCGGTG--CA-TCATGCGGA
1 TGCATCGATGCACATTCAAG-GGA
5206061 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
5206085 TGCATCGATGCA
1 TGCATCGATGCA
5206097 TTGTTAAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.09
21 13 0.28
23 11 0.23
24 17 0.36
25 2 0.04
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:5206109 original size:44 final size:44
Alignment explanation
Indices: 5206016--5206116 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 44
5206006 GCATGATCTT
* * *
5206016 GTGCATCGATGTACATTCAAGGAATGCATCGGTGCATCATGCGGA
1 GTGCATCGATGCACATTCAAGGAATGCATCGATGCAT-ATGCGAA
* **
5206061 -TGCATCGATGCACATTCAAAGGGATGCATCGATGCAT-TGTTAA
1 GTGCATCGATGCACATTC-AAGGAATGCATCGATGCATATGCGAA
*
5206104 GTGCATCGGTGCA
1 GTGCATCGATGCA
5206117 TTAAGCACAA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
43 3 0.06
44 27 0.57
45 17 0.36
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (44 bp):
GTGCATCGATGCACATTCAAGGAATGCATCGATGCATATGCGAA
Found at i:5212092 original size:21 final size:21
Alignment explanation
Indices: 5212068--5212107 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5212058 CAATTTATTC
5212068 ATTGATGCATCGATGCATGGT
1 ATTGATGCATCGATGCATGGT
*
5212089 ATTGATGCATCGGTGCATG
1 ATTGATGCATCGATGCATG
5212108 CCTTTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGATGCATCGATGCATGGT
Found at i:5212563 original size:21 final size:19
Alignment explanation
Indices: 5212535--5212580 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
5212525 TCATTGAATC
5212535 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
5212555 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
5212574 ACTTAGT
1 A-TTAGT
5212581 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:5213994 original size:21 final size:21
Alignment explanation
Indices: 5213945--5213984 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5213935 CCCAAAATTT
*
5213945 TTGACAAAAGATTTCATGGTC
1 TTGATAAAAGATTTCATGGTC
5213966 TTGATAAAAGATTTCATGG
1 TTGATAAAAGATTTCATGG
5213985 CGTCTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (21 bp):
TTGATAAAAGATTTCATGGTC
Found at i:5222221 original size:25 final size:25
Alignment explanation
Indices: 5222154--5222223 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 25
5222144 TTGCCTGAAC
5222154 AATATTTTTATGTTTATGAATGATGA
1 AATATTTTT-TGTTTATGAATGATGA
5222180 AATATTTTTTGGTTTATGAATGATGA
1 AATATTTTTT-GTTTATGAATGATGA
*
5222206 AATATTTTTTGCTTATGA
1 AATATTTTTTGTTTATGA
5222224 CTATTTTGCT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
25 8 0.19
26 34 0.81
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.51
Consensus pattern (25 bp):
AATATTTTTTGTTTATGAATGATGA
Found at i:5222792 original size:21 final size:19
Alignment explanation
Indices: 5222764--5222809 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
5222754 TCATTGAATC
5222764 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
5222784 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
5222803 ACTTAGT
1 A-TTAGT
5222810 AGCATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:5223712 original size:14 final size:14
Alignment explanation
Indices: 5223672--5223715 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
5223662 ATTCATCCAA
5223672 ATATAATATTATTT
1 ATATAATATTATTT
*
5223686 A-ACT-ATTTTATTT
1 ATA-TAATATTATTT
5223699 ATATAATATTATTT
1 ATATAATATTATTT
5223713 ATA
1 ATA
5223716 AATCATATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATAATATTATTT
Found at i:5243541 original size:14 final size:13
Alignment explanation
Indices: 5243503--5243541 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
5243493 AATGAGTAAC
*
5243503 TTTT-AAAACTAT
1 TTTTGAAAACAAT
5243515 TTTTGAAAACAAT
1 TTTTGAAAACAAT
5243528 TTTTGAAAATCAAT
1 TTTTGAAAA-CAAT
5243542 ATTTAGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 4 0.17
13 16 0.67
14 4 0.17
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (13 bp):
TTTTGAAAACAAT
Found at i:5244078 original size:44 final size:44
Alignment explanation
Indices: 5244014--5244110 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 44
5244004 GTACACTCCT
* *
5244014 TAGTGTATCGATACACATTCAAGGAATGCATCGGTGCACTTTCA
1 TAGTGTATCGATACACATTCAAGGAATGCATCAGTACACTTTCA
* * * *
5244058 TAGTGTATCGATGCATATTCAAGGGATGCATCAGTACATTTTCA
1 TAGTGTATCGATACACATTCAAGGAATGCATCAGTACACTTTCA
5244102 TAGTGTATC
1 TAGTGTATC
5244111 AATCCACTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.33
Consensus pattern (44 bp):
TAGTGTATCGATACACATTCAAGGAATGCATCAGTACACTTTCA
Found at i:5251332 original size:20 final size:20
Alignment explanation
Indices: 5251269--5251335 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
5251259 ATAAAGTATT
5251269 GATATTATTCTTCCTACATCATC
1 GATATTATTCTTCC-A-A-CATC
* * *
5251292 GATATTGTTCATCCAATATC
1 GATATTATTCTTCCAACATC
*
5251312 GATATTATTCTTGCAACATC
1 GATATTATTCTTCCAACATC
5251332 GATA
1 GATA
5251336 GGGTAATGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 23 0.62
21 1 0.03
22 1 0.03
23 12 0.32
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (20 bp):
GATATTATTCTTCCAACATC
Found at i:5251964 original size:2 final size:2
Alignment explanation
Indices: 5251859--5251953 Score: 63
Period size: 2 Copynumber: 48.5 Consensus size: 2
5251849 AGTACAGTGT
* * *
5251859 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGC CA TA TA CA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA
* * * * * *
5251901 TT TA T- TA CA TA CTA TC T- TC TT TA -A CA 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
5251941 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
5251954 CGTACATATA
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
1 4 0.05
2 67 0.92
3 2 0.03
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.48
Consensus pattern (2 bp):
TA
Found at i:5253511 original size:39 final size:39
Alignment explanation
Indices: 5253468--5253549 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
5253458 ATGCACTTGA
** *
5253468 TATTTTGATTAT-TTATGGTTTGAGTTTTTAAGACATATT
1 TATTTTGATTATGGCATGGTTTAAGTTTTTAAGA-ATATT
* *
5253507 TA-TTTGATTATGGCATTGTTTAAGTTTTTGAGAATATT
1 TATTTTGATTATGGCATGGTTTAAGTTTTTAAGAATATT
5253545 TATTT
1 TATTT
5253550 ATATTGACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
38 16 0.44
39 20 0.56
ACGTcount: A:0.26, C:0.02, G:0.16, T:0.56
Consensus pattern (39 bp):
TATTTTGATTATGGCATGGTTTAAGTTTTTAAGAATATT
Found at i:5253905 original size:11 final size:11
Alignment explanation
Indices: 5253889--5253913 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5253879 CGTATACTGG
5253889 AAATAATTTTA
1 AAATAATTTTA
5253900 AAATAATTTTA
1 AAATAATTTTA
5253911 AAA
1 AAA
5253914 AGGGTTTCGG
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATAATTTTA
Found at i:5256536 original size:20 final size:20
Alignment explanation
Indices: 5256490--5256536 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
5256480 AAAATTGTAG
5256490 AAATTTTTATTGTCTCATAT
1 AAATTTTTATTGTCTCATAT
** *
5256510 ATTTTTTTATTGTCTTATAT
1 AAATTTTTATTGTCTCATAT
5256530 AAATTTT
1 AAATTTT
5256537 GGTTTTACTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (20 bp):
AAATTTTTATTGTCTCATAT
Found at i:5257652 original size:2 final size:2
Alignment explanation
Indices: 5257645--5257679 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5257635 TATTTAATTT
5257645 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 T
5257680 CAGTTATTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5257880 original size:25 final size:23
Alignment explanation
Indices: 5257853--5257897 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
5257843 TGATTATGAT
5257853 ATATATGTTACT-GTGTCGTTATA
1 ATATATGTTACTCGT-TCGTTATA
5257876 ATATATGTTACTCGTTCGTTAT
1 ATATATGTTACTCGTTCGTTAT
5257898 TTTTCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.49
Consensus pattern (23 bp):
ATATATGTTACTCGTTCGTTATA
Found at i:5258912 original size:112 final size:112
Alignment explanation
Indices: 5258712--5259285 Score: 909
Period size: 112 Copynumber: 5.1 Consensus size: 112
5258702 TTGGCGGTTT
* * * * *
5258712 GTGTCGATAATTTATAAAAATATAT-TAATACATAACAATATAAAAAGTAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCT-ATCCATAACAATATAACAGGTAAAAAAATGACAAAAC
* * **
5258776 TGGTCTATAAATGACAAAATAGGTAAAGCGCTACCATATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
5258824 GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
5258889 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
5258936 GTGTCGATACTTTATAAAAATGTATCTATTCATAACAATATAACAGGTAACAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
5259001 GGTCTATAAATGACAAAACAGGTAAAACACTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
5259048 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACTGGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
5259112 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
5259159 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * *
5259224 GGTCTATAAATGACAAAACAGGTAAAGTGCTACCGGATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
5259271 GTGTTGATACTTTAT
1 GTGTCGATACTTTAT
5259286 TATAAGTATC
Statistics
Matches: 434, Mismatches: 26, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
111 103 0.24
112 330 0.76
113 1 0.00
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:5259217 original size:223 final size:224
Alignment explanation
Indices: 5258712--5259285 Score: 909
Period size: 223 Copynumber: 2.6 Consensus size: 224
5258702 TTGGCGGTTT
* * *
5258712 GTGTCGATAATTTATAAAAATATATTAATACATAACAATATAAA-AAGTAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCAATACATAACAATA-AAACAAGTAAAAAAATGACAAAAC
* * **
5258776 TGGTCTATAAATGACAAAATAGGTAAAGCGCTACCATATATATTGAAAGTGTCGATACTTTATAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAA
*
5258841 AAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAA
130 AAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAA
5258906 ACAGGTAAAGCGCTACCGGATATATTGAAA
195 ACAGGTAAAGCGCTACCGGATATATTGAAA
* * * * *
5258936 GTGTCGATACTTTATAAAAATGTATCTATTCATAACAATATAACAGGTAACAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCAATACATAACAATAAAACAAGTAAAAAAATGACAAAACC
* *
5259001 GGTCTATAAATGACAAAACAGGTAAAACACTACCGGATATATTGAAAGTGTCGATACTTTATAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
*
5259066 AATGTATCGATCCATAACAATATAACTGGT-AAAAAATGACAAAACCGGTCTATAAATGACAAAA
131 AATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAA
* *
5259130 CAGGTAAAGCGCTACCGGATATGTTGATA
196 CAGGTAAAGCGCTACCGGATATATTGAAA
* *
5259159 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCAATACATAACAATAAAACAAGTAAAAAAATGACAAAACC
* * * *
5259224 GGTCTATAAATGACAAAACAGGTAAAGTGCTACCGGATATGTTGATAGTGTTGATACTTTAT
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAT
5259286 TATAAGTATC
Statistics
Matches: 320, Mismatches: 29, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
223 179 0.56
224 141 0.44
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.26
Consensus pattern (224 bp):
GTGTCGATACTTTATAAAAATGTATCAATACATAACAATAAAACAAGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
AATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAA
CAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:5259465 original size:182 final size:182
Alignment explanation
Indices: 5259158--5259975 Score: 1339
Period size: 182 Copynumber: 4.5 Consensus size: 182
5259148 ATATGTTGAT
* * *
5259158 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
** * * * *
5259223 CGGTCTATAAATGACAAAACAGGTAAAGTGCTACCGGATATGTTGATAGTGTTGATACTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTATTA
* *
5259288 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
*
5259340 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
*
5259405 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACTGAATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTATTA
*
5259470 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGTGCCAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
* * *
5259522 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
** * * * *
5259587 CGGTCTATAAATGACAAAACAGGTAAAGTGCTACCGGATATGTTGATAGTGTTGATACTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTATTA
* *
5259652 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
*
5259704 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
*
5259769 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACTGAATATGTTGATAGTGTCGATACTTTATTA
66 CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTATTA
* *
5259834 TAAGTATCGACACATTTGGAATTTAAAAGAAAAGAAGTTATAGTGCCAATAA
131 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
* *
5259886 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAAAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
* *
5259951 TGATCTCGAAATGACAAAACCGGTA
66 CGGTCTCGAAATGACAAAACCGGTA
5259976 GTAAAAAAGT
Statistics
Matches: 589, Mismatches: 47, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
182 589 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (182 bp):
AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAC
CGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGAATATGTTGATAGTGTCGATACTTTATTA
TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
Found at i:5259970 original size:364 final size:364
Alignment explanation
Indices: 5259158--5259949 Score: 1539
Period size: 364 Copynumber: 2.2 Consensus size: 364
5259148 ATATGTTGAT
5259158 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAAC
5259223 CGGTCTATAAATGACAAAACAGGTAAAGTGCTACCGGATATGTTGATAGTGTTGATACTTTATTA
66 CGGTCTATAAATGACAAAACAGGTAAAGTGCTACCGGATATGTTGATAGTGTTGATACTTTATTA
5259288 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATACTT
131 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATACTT
5259353 TATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAATG
196 TATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAATG
5259418 ACAAAACCGGTAAAGAGCTACTGAATATGTTGATAGTGTCGATACTTTATTATAAGTATCGACAC
261 ACAAAACCGGTAAAGAGCTACTGAATATGTTGATAGTGTCGATACTTTATTATAAGTATCGACAC
*
5259483 TTTTGGAATTTAAAAGAAAAGAAGTTATAGTGCCAATAA
326 ATTTGGAATTTAAAAGAAAAGAAGTTATAGTGCCAATAA
5259522 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAAC
5259587 CGGTCTATAAATGACAAAACAGGTAAAGTGCTACCGGATATGTTGATAGTGTTGATACTTTATTA
66 CGGTCTATAAATGACAAAACAGGTAAAGTGCTACCGGATATGTTGATAGTGTTGATACTTTATTA
5259652 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATACTT
131 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATACTT
5259717 TATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAATG
196 TATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAATG
5259782 ACAAAACCGGTAAAGAGCTACTGAATATGTTGATAGTGTCGATACTTTATTATAAGTATCGACAC
261 ACAAAACCGGTAAAGAGCTACTGAATATGTTGATAGTGTCGATACTTTATTATAAGTATCGACAC
5259847 ATTTGGAATTTAAAAGAAAAGAAGTTATAGTGCCAATAA
326 ATTTGGAATTTAAAAGAAAAGAAGTTATAGTGCCAATAA
* * * *
5259886 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAAAAAA
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAA
5259950 TTGATCTCGA
Statistics
Matches: 423, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
364 423 1.00
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (364 bp):
AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAAGTAAAAAAATGACAAAAC
CGGTCTATAAATGACAAAACAGGTAAAGTGCTACCGGATATGTTGATAGTGTTGATACTTTATTA
TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAGTGTCGATACTT
TATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAATG
ACAAAACCGGTAAAGAGCTACTGAATATGTTGATAGTGTCGATACTTTATTATAAGTATCGACAC
ATTTGGAATTTAAAAGAAAAGAAGTTATAGTGCCAATAA
Found at i:5260622 original size:23 final size:23
Alignment explanation
Indices: 5260593--5260640 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
5260583 AAATAGGTCA
* *
5260593 ATATAAGCGCTACCTATTACATT
1 ATATAAGCACTACCTAATACATT
*
5260616 ATATAAGCACTACCTAATATATT
1 ATATAAGCACTACCTAATACATT
5260639 AT
1 AT
5260641 TGTACTTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAGCACTACCTAATACATT
Found at i:5261770 original size:15 final size:15
Alignment explanation
Indices: 5261750--5261804 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
5261740 ATTTTATTTA
5261750 ACTATTTAATTTTTT
1 ACTATTTAATTTTTT
* *
5261765 ACTATTT--TATTTA
1 ACTATTTAATTTTTT
5261778 ACTATTTAATTTTTT
1 ACTATTTAATTTTTT
*
5261793 ACTATTTTATTT
1 ACTATTTAATTT
5261805 AATTAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
13 11 0.33
15 22 0.67
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
ACTATTTAATTTTTT
Found at i:5261818 original size:28 final size:28
Alignment explanation
Indices: 5261721--5261806 Score: 136
Period size: 28 Copynumber: 3.0 Consensus size: 28
5261711 TATTTTATTA
*
5261721 TATTTAATTTTTTGTTAGTATTTTATTTAAC
1 TATTTAA--TTTT-TTACTATTTTATTTAAC
5261752 TATTTAATTTTTTACTATTTTATTTAAC
1 TATTTAATTTTTTACTATTTTATTTAAC
5261780 TATTTAATTTTTTACTATTTTATTTAA
1 TATTTAATTTTTTACTATTTTATTTAA
5261807 TTAATTTTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
28 43 0.80
29 4 0.07
31 7 0.13
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (28 bp):
TATTTAATTTTTTACTATTTTATTTAAC
Found at i:5266543 original size:21 final size:21
Alignment explanation
Indices: 5266519--5266564 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
5266509 TCACGAAGCG
5266519 GTTCTTCTGGTGGAGATTATA
1 GTTCTTCTGGTGGAGATTATA
5266540 GTTCTTCTGGTGGAGATTATA
1 GTTCTTCTGGTGGAGATTATA
5266561 GTTC
1 GTTC
5266565 CTCCATGCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.11, G:0.28, T:0.43
Consensus pattern (21 bp):
GTTCTTCTGGTGGAGATTATA
Found at i:5266774 original size:251 final size:251
Alignment explanation
Indices: 5266331--5266794 Score: 831
Period size: 251 Copynumber: 1.8 Consensus size: 251
5266321 CGAGATGAGG
* * *
5266331 TATATCCAGAAATTTTGACCCATACATTGCACCAAAGTCAGCTTTATACATGTGTGTTAGAGGTT
1 TATATCCAGAAATTTTGACCCATACATTGCACCAAAATCAGCTTCATACATGTGTGCTAGAGGTT
5266396 CAGTTTGTGCCACATTCGAGGGAACTTCATCTACATCATCATCATCATCGGAGTTGAATTGCGGT
66 CAGTTTGTGCCACATTCGAGGGAACTTCATCTACATCATCATCATCATCGGAGTTGAATTGCGGT
* *
5266461 GATTCTGGGTGAATGAATAGTCCAGTCTCAGTACCATCTGCACCTGGCTCACGAAGCGGTTCTTC
131 GATTCTGGGTGAATGAATAGTCCAGTCTCAGCACCATCTGCACCTGGCTCACAAAGCGGTTCTTC
5266526 TGGTGGAGATTATAGTTCTTCTGGTGGAGATTATAGTTCCTCCATGCTCTCTACAT
196 TGGTGGAGATTATAGTTCTTCTGGTGGAGATTATAGTTCCTCCATGCTCTCTACAT
*
5266582 TATATCC-GAAAATTTTGACCCATACATTGCACCAAAATCAGCTTCATACATGTGTGCTGGAGGT
1 TATATCCAG-AAATTTTGACCCATACATTGCACCAAAATCAGCTTCATACATGTGTGCTAGAGGT
*
5266646 TCAGTTTGTGCCACATTTGAGGGAACTTCATCTACATCATCATCATCATCGGAGTTGAATTGCGG
65 TCAGTTTGTGCCACATTCGAGGGAACTTCATCTACATCATCATCATCATCGGAGTTGAATTGCGG
*
5266711 TGATTCTGGGTGAATGAATAGTCTAGTCTCAGCACCATCTGCACCTGGCTCACAAAGCGGTTCTT
130 TGATTCTGGGTGAATGAATAGTCCAGTCTCAGCACCATCTGCACCTGGCTCACAAAGCGGTTCTT
*
5266776 CTGGTGGAGATTATGGTTC
195 CTGGTGGAGATTATAGTTC
5266795 CTCCATGCTC
Statistics
Matches: 203, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
250 1 0.00
251 202 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (251 bp):
TATATCCAGAAATTTTGACCCATACATTGCACCAAAATCAGCTTCATACATGTGTGCTAGAGGTT
CAGTTTGTGCCACATTCGAGGGAACTTCATCTACATCATCATCATCATCGGAGTTGAATTGCGGT
GATTCTGGGTGAATGAATAGTCCAGTCTCAGCACCATCTGCACCTGGCTCACAAAGCGGTTCTTC
TGGTGGAGATTATAGTTCTTCTGGTGGAGATTATAGTTCCTCCATGCTCTCTACAT
Found at i:5267373 original size:15 final size:15
Alignment explanation
Indices: 5267355--5267391 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
5267345 TATAAGTTAA
5267355 TGGAAATAATGATGT
1 TGGAAATAATGATGT
5267370 TGGAAATAATGATGT
1 TGGAAATAATGATGT
5267385 TGGAAAT
1 TGGAAAT
5267392 CTGTACTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (15 bp):
TGGAAATAATGATGT
Found at i:5269305 original size:15 final size:15
Alignment explanation
Indices: 5269285--5269315 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5269275 GATTAAAATC
5269285 TTTGTAATGGAAGTT
1 TTTGTAATGGAAGTT
*
5269300 TTTGTAATTGAAGTT
1 TTTGTAATGGAAGTT
5269315 T
1 T
5269316 GTATGTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (15 bp):
TTTGTAATGGAAGTT
Found at i:5273627 original size:22 final size:22
Alignment explanation
Indices: 5273602--5273652 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
5273592 GGTTATCCGA
*
5273602 GACATATACACAGGTCCTTTGG
1 GACATATACACAGGTCCTTCGG
* *
5273624 GACATATGCATAGGTCCTTCGG
1 GACATATACACAGGTCCTTCGG
5273646 GACATAT
1 GACATAT
5273653 TTCACATGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (22 bp):
GACATATACACAGGTCCTTCGG
Found at i:5277207 original size:63 final size:63
Alignment explanation
Indices: 5277108--5277233 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
5277098 GTTTATAGCG
5277108 ACGCGTCCCATAATGGCTTGGGATATGTGTTGATGCAAGAGGGCAAGGTGGTGGCTTATGCAT
1 ACGCGTCCCATAATGGCTTGGGATATGTGTTGATGCAAGAGGGCAAGGTGGTGGCTTATGCAT
5277171 ACGCGTCCCATAATGGCTTGGGATATGTGTTGATGCAAGAGGGCAAGGTGGTGGCTTATGCAT
1 ACGCGTCCCATAATGGCTTGGGATATGTGTTGATGCAAGAGGGCAAGGTGGTGGCTTATGCAT
5277234 CAAGACAATT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.22, C:0.16, G:0.35, T:0.27
Consensus pattern (63 bp):
ACGCGTCCCATAATGGCTTGGGATATGTGTTGATGCAAGAGGGCAAGGTGGTGGCTTATGCAT
Found at i:5280526 original size:24 final size:21
Alignment explanation
Indices: 5280481--5280527 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
5280471 TGTACATGTG
*
5280481 ATATGTGATAGAAGAAAAGAC
1 ATATGTGATAAAAGAAAAGAC
5280502 ATATGTGATTAAAAGAGAAATGAC
1 ATATGTGA-TAAAAGA-AAA-GAC
5280526 AT
1 AT
5280528 GAGTACATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 6 0.27
23 3 0.14
24 5 0.23
ACGTcount: A:0.51, C:0.04, G:0.21, T:0.23
Consensus pattern (21 bp):
ATATGTGATAAAAGAAAAGAC
Found at i:5280676 original size:22 final size:22
Alignment explanation
Indices: 5280618--5280684 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
5280608 AGTCGAGGGT
* *
5280618 TACATAGGTCCTCCGAGACATA
1 TACATAGGTCCTTCGGGACATA
* *
5280640 TACACAGGTCTTTCGGGACATA
1 TACATAGGTCCTTCGGGACATA
* *
5280662 TGCATAGGTCCTTCGGGATATA
1 TACATAGGTCCTTCGGGACATA
5280684 T
1 T
5280685 TTCACATGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (22 bp):
TACATAGGTCCTTCGGGACATA
Found at i:5281676 original size:13 final size:13
Alignment explanation
Indices: 5281654--5281683 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5281644 TATCAATAAA
*
5281654 AACAACATATTTC
1 AACAAAATATTTC
5281667 AACAAAATATTTC
1 AACAAAATATTTC
5281680 AACA
1 AACA
5281684 TTCATAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (13 bp):
AACAAAATATTTC
Found at i:5281720 original size:18 final size:18
Alignment explanation
Indices: 5281678--5281720 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
5281668 ACAAAATATT
5281678 TCAACATTCATAATGGTC
1 TCAACATTCATAATGGTC
5281696 TGC-ACATCTCA-AATGGTC
1 T-CAACAT-TCATAATGGTC
5281714 TCAACAT
1 TCAACAT
5281721 ATTTCAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.05
18 17 0.77
19 4 0.18
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.30
Consensus pattern (18 bp):
TCAACATTCATAATGGTC
Found at i:5281754 original size:22 final size:20
Alignment explanation
Indices: 5281714--5281764 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
5281704 TCAAATGGTC
5281714 TCAACATATTTCAGCATATCT
1 TCAACATATTTCAGCATAT-T
5281735 T-AACATATTTCATAGCATATT
1 TCAACATATTTC--AGCATATT
5281756 TCAACATAT
1 TCAACATAT
5281765 CTCAACAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 10 0.37
21 3 0.11
22 14 0.52
ACGTcount: A:0.37, C:0.20, G:0.04, T:0.39
Consensus pattern (20 bp):
TCAACATATTTCAGCATATT
Found at i:5281769 original size:10 final size:10
Alignment explanation
Indices: 5281712--5281771 Score: 57
Period size: 10 Copynumber: 5.8 Consensus size: 10
5281702 TCTCAAATGG
5281712 TCTCAACATA
1 TCTCAACATA
* *
5281722 TTTCAGCATA
1 TCTCAACATA
*
5281732 TCTTAACATA
1 TCTCAACATA
*
5281742 TTTCATAGCATA
1 TCTCA-A-CATA
*
5281754 TTTCAACATA
1 TCTCAACATA
5281764 TCTCAACA
1 TCTCAACA
5281772 AAAATATAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
10 29 0.73
11 2 0.05
12 9 0.22
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (10 bp):
TCTCAACATA
Found at i:5283620 original size:30 final size:30
Alignment explanation
Indices: 5283579--5283639 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
5283569 TACCTATTTT
*
5283579 AGCAGTATCCATTTCTACACCACCACTTTC
1 AGCAGTATCCATTTCTACAACACCACTTTC
* *
5283609 AGCATTATCCATTTCTACAATACCACTTTC
1 AGCAGTATCCATTTCTACAACACCACTTTC
5283639 A
1 A
5283640 TAACTACCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.33, G:0.05, T:0.33
Consensus pattern (30 bp):
AGCAGTATCCATTTCTACAACACCACTTTC
Found at i:5283638 original size:15 final size:15
Alignment explanation
Indices: 5283590--5283653 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
5283580 GCAGTATCCA
*
5283590 TTTCTACACCACCAC
1 TTTCTACACTACCAC
*
5283605 TTTC-AGCATTATCCA-
1 TTTCTA-CACTA-CCAC
*
5283620 TTTCTACAATACCAC
1 TTTCTACACTACCAC
5283635 TTTCATA-ACTACCAC
1 TTTC-TACACTACCAC
5283650 TTTC
1 TTTC
5283654 AGTTATGCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
14 4 0.10
15 30 0.75
16 6 0.15
ACGTcount: A:0.28, C:0.34, G:0.02, T:0.36
Consensus pattern (15 bp):
TTTCTACACTACCAC
Found at i:5284991 original size:23 final size:23
Alignment explanation
Indices: 5284956--5284999 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
5284946 AATCACTAAC
5284956 TTTCTATGTTTTCCTCTATTTGT
1 TTTCTATGTTTTCCTCTATTTGT
*
5284979 TTTCTCATG-TTTCCTGTATTT
1 TTTCT-ATGTTTTCCTCTATTT
5285000 CTCTCAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.64
Consensus pattern (23 bp):
TTTCTATGTTTTCCTCTATTTGT
Found at i:5286909 original size:17 final size:17
Alignment explanation
Indices: 5286887--5286920 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5286877 GCCTTGCATT
5286887 GTATATTAAGTTTTCAA
1 GTATATTAAGTTTTCAA
5286904 GTATATTAAGTTTTCAA
1 GTATATTAAGTTTTCAA
5286921 ATGCTTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
GTATATTAAGTTTTCAA
Found at i:5289204 original size:22 final size:23
Alignment explanation
Indices: 5289176--5289231 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
5289166 AAAGAAAAAG
*
5289176 AAAATAAAA-ACT-AAAAACTAAA
1 AAAATAAAATAATGAAAAA-TAAA
5289198 AAAATAAAATAATGAAAAAT-AA
1 AAAATAAAATAATGAAAAATAAA
*
5289220 AAAATAAGATAA
1 AAAATAAAATAA
5289232 AAAACAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 22 0.73
23 3 0.10
24 5 0.17
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAATAAAATAATGAAAAATAAA
Found at i:5289206 original size:7 final size:7
Alignment explanation
Indices: 5289144--5289226 Score: 60
Period size: 7 Copynumber: 11.3 Consensus size: 7
5289134 GGCTAATGTC
*
5289144 AAAAAAG
1 AAAAAAT
5289151 AAAAAA-
1 AAAAAAT
*
5289157 AAAAGAT
1 AAAAAAT
*
5289164 AAAAAGAAA
1 -AAAA-AAT
5289173 AAGAAAAT
1 AA-AAAAT
*
5289181 AAAAACT
1 AAAAAAT
*
5289188 AAAAACT
1 AAAAAAT
5289195 AAAAAAAT
1 -AAAAAAT
5289203 AAAATAAT
1 AAAA-AAT
*
5289211 GAAAAAT
1 AAAAAAT
5289218 AAAAAAT
1 AAAAAAT
5289225 AA
1 AA
5289227 GATAAAAAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
6 5 0.08
7 32 0.52
8 22 0.35
9 3 0.05
ACGTcount: A:0.81, C:0.02, G:0.06, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:5289215 original size:17 final size:15
Alignment explanation
Indices: 5289144--5289235 Score: 57
Period size: 17 Copynumber: 6.0 Consensus size: 15
5289134 GGCTAATGTC
5289144 AAAA-AAGAAAAAAA
1 AAAATAAGAAAAAAA
*
5289158 AAAGATAAAAAGAAAAA
1 AAA-ATAAGAA-AAAAA
**
5289175 GAAAATAA-AAACTAA
1 -AAAATAAGAAAAAAA
* *
5289190 AAACT-A-AAAAAAT
1 AAAATAAGAAAAAAA
5289203 AAAATAATGAAAAATAA
1 AAAATAA-GAAAAA-AA
5289220 AAAATAAGATAAAAAA
1 AAAATAAGA-AAAAAA
5289236 CAGTATATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
13 9 0.15
14 8 0.13
15 4 0.07
16 15 0.25
17 21 0.35
18 3 0.05
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (15 bp):
AAAATAAGAAAAAAA
Found at i:5290576 original size:11 final size:10
Alignment explanation
Indices: 5290560--5290585 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
5290550 GACCTTAATC
5290560 AAAAAAAAAG
1 AAAAAAAAAG
5290570 AAAAAAAAAG
1 AAAAAAAAAG
5290580 AAAAAA
1 AAAAAA
5290586 TATTAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:5290796 original size:71 final size:70
Alignment explanation
Indices: 5290620--5290801 Score: 187
Period size: 65 Copynumber: 2.6 Consensus size: 70
5290610 AATATAATAT
* *** *
5290620 AAAAATCATTTTTAAAACTATATATTATATATGCTTT-AATTTTTTTTTTCAAAACCATATAATA
1 AAAAAT-ATTTTTAAAACTATATATTATATATGTTTTCAA---AAATTTCCAAAACCATATAATA
*
5290684 TATATTTTC
62 TACATTTTC
* * * *
5290693 AAAAA-ATATTT--AACTATATA--ATATATATTTTCAAAAATTTCCAAAACTATATTATATACA
1 AAAAATATTTTTAAAACTATATATTATATATGTTTTCAAAAATTTCCAAAACCATATAATATACA
5290753 TTTTC
66 TTTTC
5290758 AAAAATATTTTTTAAAACTATATATTATATATGTTTTCAAAAAT
1 AAAAATA-TTTTTAAAACTATATATTATATATGTTTTCAAAAAT
5290802 GTTTTCAAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
65 29 0.32
66 1 0.01
67 13 0.14
68 2 0.02
69 18 0.20
71 22 0.24
73 5 0.06
ACGTcount: A:0.45, C:0.09, G:0.01, T:0.46
Consensus pattern (70 bp):
AAAAATATTTTTAAAACTATATATTATATATGTTTTCAAAAATTTCCAAAACCATATAATATACA
TTTTC
Found at i:5290827 original size:35 final size:35
Alignment explanation
Indices: 5290665--5290967 Score: 257
Period size: 33 Copynumber: 8.6 Consensus size: 35
5290655 TTAATTTTTT
* *
5290665 TTTTCAAAACCATATAATATATATTTTCAAAAAAT-
1 TTTTCAAAACTATATAATATATGTTTTC-AAAAATG
* *
5290700 ATTT---AACTATATAATATATATTTTCAAAAA--
1 TTTTCAAAACTATATAATATATGTTTTCAAAAATG
* * ** *
5290730 TTTCCAAAACTATATTATATACATTTTCAAAAATAT
1 TTTTCAAAACTATATAATATATGTTTTCAAAAAT-G
*
5290766 TTTTTAAAACTATATATTATATATGTTTTCAAAAATG
1 TTTTCAAAACTATATA--ATATATGTTTTCAAAAATG
* * *
5290803 TTTTCAAAATTATATAATACATGTTTTC--AAATA
1 TTTTCAAAACTATATAATATATGTTTTCAAAAATG
* * *
5290836 TTTTCAAAACCATATAATACA--TTTTCAAAAAAATA
1 TTTTCAAAACTATATAATATATGTTTTC--AAAAATG
5290871 TTTTCAAAACTATATAATATATATATGTTTTCAAAAATG
1 TTTTCAAAAC--TAT-ATA-ATATATGTTTTCAAAAATG
* * **
5290910 TTTTCAAAACTATATAATATATATTCTCGAAAACCG
1 TTTTCAAAACTATATAATATATGTTTTC-AAAAATG
5290946 TTTTCAAAACTATATAATATAT
1 TTTTCAAAACTATATAATATAT
5290968 ATATTTTCAA
Statistics
Matches: 224, Mismatches: 25, Indels: 37
0.78 0.09 0.13
Matches are distributed among these distances:
30 2 0.01
31 10 0.04
32 20 0.09
33 47 0.21
35 39 0.17
36 43 0.19
37 19 0.08
38 19 0.08
39 20 0.09
41 5 0.02
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (35 bp):
TTTTCAAAACTATATAATATATGTTTTCAAAAATG
Found at i:5290924 original size:107 final size:106
Alignment explanation
Indices: 5290664--5290981 Score: 346
Period size: 107 Copynumber: 3.0 Consensus size: 106
5290654 TTTAATTTTT
* * * *
5290664 TTTTTCAAAACCATATA--ATATATATTTTCAAAAAAT-ATTT---AACTATATAATATATATTT
1 TTTTTCAAAACTATATATTATATATGTTTTC-AAAAATGTTTTCAAAACTATATAATACATATTT
* *
5290723 TCAAAAATTTCCAAAACTATATTATATACATTTTCAAAAATA
65 TCAAAAATTTCCAAAACCATATTATATACATTTTCAAAAAAA
* * *
5290765 TTTTTTAAAACTATATATTATATATGTTTTCAAAAATGTTTTCAAAATTATATAATACATGTTTT
1 TTTTTCAAAACTATATATTATATATGTTTTCAAAAATGTTTTCAAAACTATATAATACATATTTT
* *
5290830 CAAATATTTTCAAAACCATA-TA-ATACATTTTCAAAAAAA
66 CAAAAATTTCCAAAACCATATTATATACATTTTCAAAAAAA
*
5290869 TATTTTCAAAACTATATAATATATATATGTTTTCAAAAATGTTTTCAAAACTATATAATATATAT
1 T-TTTTCAAAACTATAT-AT-TATATATGTTTTCAAAAATGTTTTCAAAACTATATAATACATAT
* * * * *
5290934 TCTCGAAAACCGTTTTCAAAACTATATAATATATATATTTTCAAAAAA
63 TTTC-AAAA--ATTTCCAAAACCATAT--TATATACATTTTCAAAAAA
5290982 TATATATTAT
Statistics
Matches: 181, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
101 15 0.08
102 6 0.03
103 14 0.08
104 17 0.09
105 16 0.09
106 36 0.20
107 44 0.24
108 3 0.02
110 13 0.07
113 2 0.01
114 15 0.08
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (106 bp):
TTTTTCAAAACTATATATTATATATGTTTTCAAAAATGTTTTCAAAACTATATAATACATATTTT
CAAAAATTTCCAAAACCATATTATATACATTTTCAAAAAAA
Found at i:5290986 original size:26 final size:26
Alignment explanation
Indices: 5290946--5291008 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
5290936 TCGAAAACCG
*
5290946 TTTTC-AAAACTATATAATATATATA
1 TTTTCAAAAAATATATAATATATATA
* *
5290971 TTTTCAAAAAATATATATTATATATG
1 TTTTCAAAAAATATATAATATATATA
5290997 TTTTCAAAAAAT
1 TTTTCAAAAAAT
5291009 CGTTTTCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 5 0.15
26 29 0.85
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (26 bp):
TTTTCAAAAAATATATAATATATATA
Found at i:5292621 original size:13 final size:13
Alignment explanation
Indices: 5292597--5292635 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
5292587 AGCCACCTTA
5292597 TTTTCTTCTTTCCT
1 TTTTCTT-TTTCCT
5292611 TTTTCTTTTTCCT
1 TTTTCTTTTTCCT
*
5292624 ATTTCATTTTTC
1 TTTTC-TTTTTC
5292636 AATTTAGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTCTTTTTCCT
Found at i:5295663 original size:21 final size:21
Alignment explanation
Indices: 5295637--5295686 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
5295627 TGACACTATG
5295637 TTGGCCACCCATTCTGGATAC
1 TTGGCCACCCATTCTGGATAC
5295658 TTGGCCACCCATTCTGGATAC
1 TTGGCCACCCATTCTGGATAC
5295679 TTGGCCAC
1 TTGGCCAC
5295687 TTGAAGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.18, C:0.34, G:0.20, T:0.28
Consensus pattern (21 bp):
TTGGCCACCCATTCTGGATAC
Found at i:5296015 original size:36 final size:36
Alignment explanation
Indices: 5295975--5296049 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
5295965 AAAACTTTGA
5295975 TTTTCTCTTCATGTGACAGTATTTGTTTGTCTTCGT
1 TTTTCTCTTCATGTGACAGTATTTGTTTGTCTTCGT
*
5296011 TTTTCTCTTCATGTGGCAGTATTTGTTTGTCTTCGT
1 TTTTCTCTTCATGTGACAGTATTTGTTTGTCTTCGT
5296047 TTT
1 TTT
5296050 CTACCATCCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.09, C:0.16, G:0.17, T:0.57
Consensus pattern (36 bp):
TTTTCTCTTCATGTGACAGTATTTGTTTGTCTTCGT
Found at i:5298151 original size:22 final size:22
Alignment explanation
Indices: 5298123--5298169 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
5298113 TTTTTAATAA
* *
5298123 TGATGAACAGTACTGTGAACAG
1 TGATGAACAATACCGTGAACAG
5298145 TGATGAACAATACCGTGAACAG
1 TGATGAACAATACCGTGAACAG
5298167 TGA
1 TGA
5298170 ACAGTGTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (22 bp):
TGATGAACAATACCGTGAACAG
Found at i:5298883 original size:61 final size:61
Alignment explanation
Indices: 5298762--5298883 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
5298752 GTAGTGCTAA
* * *
5298762 ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGATATGACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACGCCATAATGCTAATCCGGACATGACACATAAGGTCGTACCCACC
* * * * * *
5298823 ACCTACACTAAGCTTACGCTATAATGTTAATCTGGACATGATACATAAGGTTGTATCCACC
1 ACCTACACTAAGCTTACGCCATAATGCTAATCCGGACATGACACATAAGGTCGTACCCACC
5298884 TTCCCGCACT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (61 bp):
ACCTACACTAAGCTTACGCCATAATGCTAATCCGGACATGACACATAAGGTCGTACCCACC
Found at i:5305664 original size:22 final size:22
Alignment explanation
Indices: 5305632--5305675 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
5305622 TTTTTATTTT
* *
5305632 TTTGAATAGTGATGAACAGTAC
1 TTTGAAAAGTGATCAACAGTAC
5305654 TTTGAAAAGTGATCAACAGTAC
1 TTTGAAAAGTGATCAACAGTAC
5305676 CGTGAACAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (22 bp):
TTTGAAAAGTGATCAACAGTAC
Found at i:5305681 original size:22 final size:22
Alignment explanation
Indices: 5305634--5305686 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
5305624 TTTATTTTTT
* * **
5305634 TGAATAGTGATGAACAGTACTT
1 TGAAAAGTGATCAACAGTACCG
5305656 TGAAAAGTGATCAACAGTACCG
1 TGAAAAGTGATCAACAGTACCG
*
5305678 TGAACAGTG
1 TGAAAAGTG
5305687 TACCGATGCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.25
Consensus pattern (22 bp):
TGAAAAGTGATCAACAGTACCG
Found at i:5307680 original size:30 final size:30
Alignment explanation
Indices: 5307623--5307681 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
5307613 AAAATTACAT
*
5307623 TTTAGTCCCTAAACTTTTCAAAGTTTATAG
1 TTTAGTCCCTAAACTTTCCAAAGTTTATAG
5307653 TTTAGTCACC-AAACTTTACCAAA-TTTATA
1 TTTAGTC-CCTAAACTTT-CCAAAGTTTATA
5307682 ATTCGGTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.41
Consensus pattern (30 bp):
TTTAGTCCCTAAACTTTCCAAAGTTTATAG
Found at i:5308490 original size:30 final size:31
Alignment explanation
Indices: 5308416--5308490 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
5308406 CAATTTAAGG
*
5308416 CAAAATGGTTTTTGGACTTCAATTGAATTTA
1 CAAAATGGTTTTTGGACTTCAATTAAATTTA
*
5308447 CAAAATGGTTTTTGGACTTGAATTAAATTTA
1 CAAAATGGTTTTTGGACTTCAATTAAATTTA
5308478 CAAAAT-GTTTTTG
1 CAAAATGGTTTTTG
5308491 TACGATTCCC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
30 7 0.17
31 35 0.83
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTCAATTAAATTTA
Found at i:5308566 original size:21 final size:21
Alignment explanation
Indices: 5308540--5308581 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
5308530 ATTTGAATAT
*
5308540 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
5308561 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
5308582 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:5308643 original size:21 final size:21
Alignment explanation
Indices: 5308610--5308649 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
5308600 TTTGAGTAGA
*
5308610 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
5308632 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
5308650 AGATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:5310934 original size:22 final size:22
Alignment explanation
Indices: 5310908--5310954 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
5310898 GTTTAGTTTG
5310908 AAAAATTCAATTTCTTAATAAA
1 AAAAATTCAATTTCTTAATAAA
*
5310930 AAAAATTCAATTTCTTAATGAA
1 AAAAATTCAATTTCTTAATAAA
5310952 AAA
1 AAA
5310955 GGGGGGGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAAATTCAATTTCTTAATAAA
Found at i:5311212 original size:31 final size:31
Alignment explanation
Indices: 5311114--5311204 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
5311104 CAATTTAAGG
5311114 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
5311145 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
5311176 CAAAATGG-TTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
5311205 TTCAAAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 10 0.17
31 39 0.65
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.42
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:5311414 original size:21 final size:21
Alignment explanation
Indices: 5311388--5311429 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
5311378 ATTTGAATAT
*
5311388 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
5311409 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
5311430 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Done.