Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 261 of 325
Found at i:85246950 original size:138 final size:143
Alignment explanation
Indices: 85246696--85246953 Score: 341
Period size: 138 Copynumber: 1.8 Consensus size: 143
85246686 ATGCCGATGC
* *
85246696 CATGTCCCAGACATGGTCTTACACTGATTATCAAAATCGAGGCCGACGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTCTGACACTGATTATCAAAATCGAAGCCGACGCCATGTCCCAGACATGG
* ** *
85246761 TCTTACACTAGCTCTCGCATATCTGTGCCAATGCCATCTCCCGGACATGGTCTTATACTGACACA
66 TCATACACTAGCTCTC-CATATCCATGCCAATGCCATCTCCCAGACATGGTCTTATACTGACACA
85246826 TCTCGTAGCCGGTG
130 TCTCGTAGCCGGTG
* ** *
85246840 CATGTCCCAGACAT-GTCTGACACTGGCTTA-C-ATCTCGAAGCCGATG-CATGTCCCAGACAT-
1 CATGTCCCAGACATGGTCTGACACT-GATTATCAAAATCGAAGCCGACGCCATGTCCCAGACATG
*
85246900 GTCATACACTAGCTCT-CA-ACTCCATGCCAATGCCATGTCCCAGACATGGTCTTA
65 GTCATACACTAGCTCTCCATA-TCCATGCCAATGCCATCTCCCAGACATGGTCTTA
85246954 CATTAGCTCT
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
137 1 0.01
138 32 0.32
140 15 0.15
141 14 0.14
142 11 0.11
143 10 0.10
144 18 0.18
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (143 bp):
CATGTCCCAGACATGGTCTGACACTGATTATCAAAATCGAAGCCGACGCCATGTCCCAGACATGG
TCATACACTAGCTCTCCATATCCATGCCAATGCCATCTCCCAGACATGGTCTTATACTGACACAT
CTCGTAGCCGGTG
Found at i:85251061 original size:21 final size:21
Alignment explanation
Indices: 85251016--85251105 Score: 144
Period size: 21 Copynumber: 4.2 Consensus size: 21
85251006 TGCAGGGCTC
* **
85251016 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGT-GACCCTGGG
85251038 ACACGCCCGTGTGACCCTGGG
1 ACACGCCCGTGTGACCCTGGG
85251059 ACACGCCCGTGTGACCCTGGG
1 ACACGCCCGTGTGACCCTGGG
85251080 ACACGCCCGTGTGACCCTGGG
1 ACACGCCCGTGTGACCCTGGG
85251101 ACACG
1 ACACG
85251106 TCTATGCTAG
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
21 53 0.82
22 12 0.18
ACGTcount: A:0.17, C:0.37, G:0.33, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGACCCTGGG
Found at i:85255664 original size:43 final size:42
Alignment explanation
Indices: 85255617--85255725 Score: 98
Period size: 43 Copynumber: 2.5 Consensus size: 42
85255607 AAAGAAAAGC
85255617 TACTGGTACACATAGTGCATCATC-AGGCAAGCCGAAGCAATTA
1 TACTGGTACACATAGTGCATCATCAAGG-AA-CCGAAGCAATTA
* * * * *
85255660 TACT-G-ACACACGAGGTGCATTACCGAATGAACTGAAGCAATTA
1 TACTGGTACACA-TA-GTGCATCATC-AAGGAACCGAAGCAATTA
*
85255703 TACTGGTACACATGGTGCATCAT
1 TACTGGTACACATAGTGCATCAT
85255726 TGAATAAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
41 5 0.10
42 2 0.04
43 34 0.67
44 3 0.06
45 7 0.14
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (42 bp):
TACTGGTACACATAGTGCATCATCAAGGAACCGAAGCAATTA
Found at i:85255739 original size:43 final size:43
Alignment explanation
Indices: 85255650--85255766 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
85255640 CAGGCAAGCC
* *
85255650 GAAGCAATTATACTGACACACGAGGTGCATTACCGAATGAACT
1 GAAGCAATTATACTGACACACGAGGTGCATCACCGAATAAACT
** ** *
85255693 GAAGCAATTATACTGGTACAC-ATGGTGCATCATTGAATAAATT
1 GAAGCAATTATACTGACACACGA-GGTGCATCACCGAATAAACT
* *
85255736 GAAGCAATTATACTAACACACGAGATGCATC
1 GAAGCAATTATACTGACACACGAGGTGCATC
85255767 GTTAGACGAA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
42 1 0.02
43 59 0.97
44 1 0.02
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (43 bp):
GAAGCAATTATACTGACACACGAGGTGCATCACCGAATAAACT
Found at i:85273147 original size:25 final size:25
Alignment explanation
Indices: 85273119--85273167 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
85273109 CTATTTTTGA
* *
85273119 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
85273144 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
85273168 ATAGATTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:85281105 original size:12 final size:12
Alignment explanation
Indices: 85281088--85281158 Score: 50
Period size: 12 Copynumber: 6.4 Consensus size: 12
85281078 AATATATGTA
85281088 TATATAATAAAT
1 TATATAATAAAT
85281100 TATATAAT-AAT
1 TATATAATAAAT
85281111 GTAT-T--TAAAT
1 -TATATAATAAAT
85281121 TAT-TAA-ATAA-
1 TATATAATA-AAT
*
85281131 TATAT-TTAAAT
1 TATATAATAAAT
*
85281142 TAAATAATAAAT
1 TATATAATAAAT
85281154 TATAT
1 TATAT
85281159 TTATTTATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
9 5 0.11
10 9 0.20
11 12 0.26
12 20 0.43
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (12 bp):
TATATAATAAAT
Found at i:85281120 original size:21 final size:21
Alignment explanation
Indices: 85281095--85281161 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
85281085 GTATATATAA
*
85281095 TAAATTATATAATAATGTATT
1 TAAATTATATAATAATATATT
85281116 TAAATTAT-TAAATAATATATT
1 TAAATTATAT-AATAATATATT
*
85281137 TAAATTAAATAATAAATTATATT
1 TAAATTATATAAT-AA-TATATT
85281160 TA
1 TA
85281162 TTTATGTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.03
21 28 0.70
22 3 0.08
23 8 0.20
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (21 bp):
TAAATTATATAATAATATATT
Found at i:85283180 original size:25 final size:26
Alignment explanation
Indices: 85283110--85283180 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 26
85283100 AATAAATAGA
*
85283110 AAAAGAAAAAGAAAAAGAAAGCCAAAG
1 AAAAGAAAAAGAGAAAGAAAG-CAAAG
* *
85283137 --CAGAAACAGAG-AAGAAAAG-AAAG
1 AAAAGAAAAAGAGAAAG-AAAGCAAAG
85283160 AAAAGAAAAAGAGAAAGAAAG
1 AAAAGAAAAAGAGAAAGAAAG
85283181 GCGAAAAAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
23 4 0.11
24 3 0.09
25 25 0.71
26 3 0.09
ACGTcount: A:0.72, C:0.06, G:0.23, T:0.00
Consensus pattern (26 bp):
AAAAGAAAAAGAGAAAGAAAGCAAAG
Found at i:85283188 original size:25 final size:24
Alignment explanation
Indices: 85283108--85283189 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
85283098 TAAATAAATA
*
85283108 GAAAAAGAAAAAGAAAAAGAAAGC
1 GAAAAAGAAAAAGAGAAAGAAAGC
* * * *
85283132 CAAAGCAGAAACAGAG-AAGAAAAGA
1 GAAA-AAGAAAAAGAGAAAG-AAAGC
*
85283157 AAGAAAAGAAAAAGAGAAAGAAAGGC
1 GA-AAAAGAAAAAGAGAAAGAAA-GC
85283183 GAAAAAG
1 GAAAAAG
85283190 CTAGGATTTC
Statistics
Matches: 43, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
24 6 0.14
25 30 0.70
26 7 0.16
ACGTcount: A:0.70, C:0.06, G:0.24, T:0.00
Consensus pattern (24 bp):
GAAAAAGAAAAAGAGAAAGAAAGC
Found at i:85289971 original size:17 final size:18
Alignment explanation
Indices: 85289949--85289993 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
85289939 TCCTCTTTCA
85289949 TTTATTTT-CTTTATTTT
1 TTTATTTTACTTTATTTT
*
85289966 TTTATTTTATTTTATTTT
1 TTTATTTTACTTTATTTT
*
85289984 AATTATTTTA
1 -TTTATTTTA
85289994 TTTGAATTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 8 0.33
19 8 0.33
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTATTTTACTTTATTTT
Found at i:85289975 original size:5 final size:5
Alignment explanation
Indices: 85289949--85289996 Score: 50
Period size: 5 Copynumber: 10.4 Consensus size: 5
85289939 TCCTCTTTCA
* *
85289949 TTTAT TTT-C TTTA- TTT-T TTTAT TTTAT TTTAT TTTA- ATTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
85289995 TT
1 TT
85289997 GAATTCTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
4 12 0.33
5 24 0.67
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:85289991 original size:14 final size:14
Alignment explanation
Indices: 85289972--85290001 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
85289962 TTTTTTTATT
*
85289972 TTATTTTATTTTAA
1 TTATTTTATTTGAA
85289986 TTATTTTATTTGAA
1 TTATTTTATTTGAA
85290000 TT
1 TT
85290002 CTTGAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
TTATTTTATTTGAA
Found at i:85289991 original size:19 final size:18
Alignment explanation
Indices: 85289958--85289996 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
85289948 ATTTATTTTC
*
85289958 TTTATTTTTTTATTTTAT
1 TTTATTTTATTATTTTAT
85289976 TTTATTTTAATTATTTTAT
1 TTTATTTT-ATTATTTTAT
85289995 TT
1 TT
85289997 GAATTCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTATTTTATTATTTTAT
Found at i:85299251 original size:2 final size:2
Alignment explanation
Indices: 85299244--85299279 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
85299234 AATCCCAAAT
*
85299244 CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
85299280 TATATATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:85300434 original size:21 final size:20
Alignment explanation
Indices: 85300410--85300449 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
85300400 CATGTATTTT
*
85300410 AATGATTTATGATAGATTATG
1 AATGATTGATGATAG-TTATG
85300431 AATGATTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
85300450 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:85305952 original size:18 final size:18
Alignment explanation
Indices: 85305886--85305975 Score: 65
Period size: 20 Copynumber: 4.6 Consensus size: 18
85305876 GAGGGGTGTT
*
85305886 ACAGAGATGCCAAATAGGGC
1 ACAGAG-TG-CAAACAGGGC
* *
85305906 ACAAATGTGCATACAGGAGC
1 ACAGA-GTGCAAACAGG-GC
*
85305926 ACCGAAGTGCAAA-AGGGC
1 ACAG-AGTGCAAACAGGGC
85305944 ACTAGAGTGCATAACAGGGC
1 AC-AGAGTGCA-AACAGGGC
85305964 ACAGATGTGCAA
1 ACAGA-GTGCAA
85305976 TTAGGGATAC
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
18 10 0.18
19 16 0.29
20 28 0.50
21 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.29, T:0.12
Consensus pattern (18 bp):
ACAGAGTGCAAACAGGGC
Found at i:85313133 original size:25 final size:25
Alignment explanation
Indices: 85313097--85313202 Score: 99
Period size: 25 Copynumber: 4.3 Consensus size: 25
85313087 CTCTCAAGCT
* *
85313097 ATATAACAGGAAGCTCATGTGAGCC
1 ATATAACGGGAAGCTCATGAGAGCC
* ** * *
85313122 ATATAACGGGAAGCTTATCCGGGCT
1 ATATAACGGGAAGCTCATGAGAGCC
* *
85313147 GTATAACGGGAAGCTCATAAGAGCC
1 ATATAACGGGAAGCTCATGAGAGCC
* *
85313172 ATAT-TCAGGAAGCTCATGAGAGCC
1 ATATAACGGGAAGCTCATGAGAGCC
85313196 A-ATAACG
1 ATATAACG
85313203 AGTAGCTCCG
Statistics
Matches: 62, Mismatches: 18, Indels: 3
0.75 0.22 0.04
Matches are distributed among these distances:
23 2 0.03
24 19 0.31
25 41 0.66
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (25 bp):
ATATAACGGGAAGCTCATGAGAGCC
Found at i:85316174 original size:35 final size:35
Alignment explanation
Indices: 85316131--85316205 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
85316121 AACTCAAAGA
* * * *
85316131 AATAAATAAAAGT-ACACAAATATTTTCAATATAAT
1 AATAAATAAAAATAAAAAAAATATTTCCAA-ATAAT
85316166 AATAAATAAAAATAAAAAAAATATTTCCAAATAAT
1 AATAAATAAAAATAAAAAAAATATTTCCAAATAAT
85316201 AATAA
1 AATAA
85316206 TTTTAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 22 0.63
36 13 0.37
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.28
Consensus pattern (35 bp):
AATAAATAAAAATAAAAAAAATATTTCCAAATAAT
Found at i:85316272 original size:7 final size:7
Alignment explanation
Indices: 85316262--85316303 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
85316252 AATAAAATAA
*
85316262 AATCCCC
1 AATCCCT
85316269 AAT-CCT
1 AATCCCT
85316275 CAATCCCT
1 -AATCCCT
85316283 AATCCCT
1 AATCCCT
85316290 AATCCCT
1 AATCCCT
85316297 AATCCCT
1 AATCCCT
85316304 CCCTCACCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 2 0.06
7 27 0.84
8 3 0.09
ACGTcount: A:0.29, C:0.45, G:0.00, T:0.26
Consensus pattern (7 bp):
AATCCCT
Found at i:85316533 original size:6 final size:6
Alignment explanation
Indices: 85316522--85316557 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
85316512 CATTGGTAGT
85316522 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA
85316558 CATGGGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:85316843 original size:51 final size:51
Alignment explanation
Indices: 85316752--85316855 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 51
85316742 TATTTCTTTA
* * * * * *
85316752 AATTTTTTAAAATTAAGATCAAATTGAGTTCATTTGTAAAATTTGAAGGTT
1 AATTTTTAAAAATTAAAATCAAATTGAGTTAATCTATAAAAGTTGAAGGTT
* *
85316803 AATTTTTAAAAATTAAAATTAAATTGA-TATAATCTATAAAAGTTGAGGGTT
1 AATTTTTAAAAATTAAAATCAAATTGAGT-TAATCTATAAAAGTTGAAGGTT
85316854 AA
1 AA
85316856 ATTTATTATA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 1 0.02
51 43 0.98
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.40
Consensus pattern (51 bp):
AATTTTTAAAAATTAAAATCAAATTGAGTTAATCTATAAAAGTTGAAGGTT
Found at i:85317771 original size:3 final size:3
Alignment explanation
Indices: 85317763--85317797 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
85317753 CCTCTTTCAC
*
85317763 TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
85317798 GAGTTGGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:85319521 original size:25 final size:25
Alignment explanation
Indices: 85319487--85319536 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
85319477 CTTAATATAA
85319487 TACATGTATATATATTGCATTCTTT
1 TACATGTATATATATTGCATTCTTT
85319512 TACATGTATATATATTGCATTCTTT
1 TACATGTATATATATTGCATTCTTT
85319537 CTCAATCGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (25 bp):
TACATGTATATATATTGCATTCTTT
Found at i:85327410 original size:40 final size:41
Alignment explanation
Indices: 85327360--85327529 Score: 213
Period size: 40 Copynumber: 4.2 Consensus size: 41
85327350 CACAAGGCCG
* * * *
85327360 TCGGGTCTTAGCCCGGATA-TGGTCACTAGCGCAAATGCCT
1 TCGGGACTTAGCCCGGATATTAGTAACTAGCACAAATGCCT
*
85327400 TCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGATATTAGTAACTAGCACAAATGCCT
* * *
85327440 TCGGGACATAGCCC-GAAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGATATTAGTAACTAGCACAAATGCCT
* * *
85327480 TCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGTCT
1 TCGGGACTTAGCCCGGATATTAGTAACTAGCACAAATGCCT
85327520 TCGGGACTTA
1 TCGGGACTTA
85327530 ACCCCGTTAG
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.03
40 111 0.96
41 2 0.02
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (41 bp):
TCGGGACTTAGCCCGGATATTAGTAACTAGCACAAATGCCT
Found at i:85330361 original size:47 final size:47
Alignment explanation
Indices: 85330266--85330704 Score: 740
Period size: 47 Copynumber: 9.4 Consensus size: 47
85330256 CAGCCAAGAC
85330266 AGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
85330312 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
85330359 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
85330406 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
85330453 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
85330500 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
85330547 AGTGTATATATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
85330593 AGTGTATATATGTG-TAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
85330639 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
85330686 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
85330705 TCCCGAAGGG
Statistics
Matches: 373, Mismatches: 17, Indels: 5
0.94 0.04 0.01
Matches are distributed among these distances:
46 117 0.31
47 256 0.69
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:85330600 original size:38 final size:38
Alignment explanation
Indices: 85330557--85330646 Score: 108
Period size: 46 Copynumber: 2.2 Consensus size: 38
85330547 AGTGTATATA
85330557 TGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
85330595 TGTATATATGTGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 TG----TA----TAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
85330641 TGTATA
1 TGTATA
85330647 TATGTGACAG
Statistics
Matches: 44, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
38 4 0.09
42 4 0.09
46 36 0.82
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (38 bp):
TGTATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
Found at i:85330879 original size:37 final size:37
Alignment explanation
Indices: 85330823--85330901 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
85330813 CCGAGCTCTA
* *
85330823 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
85330860 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
85330897 AAGAC
1 AAGAC
85330902 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:85332815 original size:43 final size:45
Alignment explanation
Indices: 85332767--85332871 Score: 196
Period size: 43 Copynumber: 2.4 Consensus size: 45
85332757 TTGGTTTTCA
85332767 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTG-TGAGA-TTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTGAGATTTG
85332810 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTGAGATTTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTGAGATTTG
85332855 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
85332872 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
43 35 0.58
44 5 0.08
45 20 0.33
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.28
Consensus pattern (45 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTTGAGATTTG
Found at i:85333357 original size:37 final size:37
Alignment explanation
Indices: 85333203--85333387 Score: 158
Period size: 41 Copynumber: 4.7 Consensus size: 37
85333193 GTTATTTGAA
* *
85333203 TGATGTCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAG
1 TGATATCCGGGCTAA-TCCCGAAGAGCATTCGTGCT-AG
*
85333240 TGACCATATCCGGGACTAAGTTCCGAAGAGCATTCGTGCTAG
1 TG---ATATCCGGG-CTAA-TCCCGAAGAGCATTCGTGCTAG
* *
85333282 TGATGTATCCGGGACTAAGTTCCGAAGAGCATTAGTGCTAG
1 TGA--TATCCGGG-CTAA-TCCCGAAGAGCATTCGTGCTAG
* * *
85333323 TGATATCCGTGCTAACCCCGAAGAGCATTCGTGCTGG
1 TGATATCCGGGCTAATCCCGAAGAGCATTCGTGCTAG
* *
85333360 TTATATCCGGGCTAGGTCCCGAAGAGCA
1 TGATATCCGGGCTA-ATCCCGAAGAGCA
85333388 ATCATGCTGG
Statistics
Matches: 126, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
37 32 0.25
38 15 0.12
39 8 0.06
40 8 0.06
41 50 0.40
42 6 0.05
43 7 0.06
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (37 bp):
TGATATCCGGGCTAATCCCGAAGAGCATTCGTGCTAG
Found at i:85336993 original size:47 final size:47
Alignment explanation
Indices: 85336935--85337376 Score: 758
Period size: 47 Copynumber: 9.4 Consensus size: 47
85336925 AGCCAAGAAC
*
85336935 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
85336982 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
85337029 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
85337076 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
85337123 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
85337170 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
85337217 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
85337264 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
85337311 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
85337358 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
85337377 TCCCGAAGGG
Statistics
Matches: 377, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 377 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:85337551 original size:37 final size:37
Alignment explanation
Indices: 85337495--85337573 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
85337485 CCGAGCTCTA
* *
85337495 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
85337532 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
85337569 AAGAC
1 AAGAC
85337574 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:85345814 original size:19 final size:19
Alignment explanation
Indices: 85345782--85345824 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
85345772 TTCGATTACA
* **
85345782 TATTTCATTACATTTTCAC
1 TATTTAATTACATTCCCAC
*
85345801 TATTTAATTCCATTCCCAC
1 TATTTAATTACATTCCCAC
85345820 TATTT
1 TATTT
85345825 TTAGTGATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTTAATTACATTCCCAC
Found at i:85346663 original size:40 final size:40
Alignment explanation
Indices: 85346613--85346782 Score: 218
Period size: 40 Copynumber: 4.2 Consensus size: 40
85346603 CACAAGGCCG
* * * **
85346613 TCGGGTCTTAGCCCGG-ATATGGTCACTAGCGTAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCT
*
85346653 TCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCT
*
85346693 TCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCT
1 TCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCT
* * *
85346733 TCGGGACTTAGCCCGGAATTAATCACTAGCACAAATGTCT
1 TCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCT
85346773 TCGGGACTTA
1 TCGGGACTTA
85346783 ACCCCGTTAG
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
40 117 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCT
Found at i:85346729 original size:80 final size:80
Alignment explanation
Indices: 85346573--85346782 Score: 248
Period size: 80 Copynumber: 2.6 Consensus size: 80
85346563 ACCCACTTAT
* * * * * *
85346573 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGCCGTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* **
85346636 CACTAGCGTAAATGC
66 AACTAGCACAAATGC
* *
85346651 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAG
1 CTTCGGGACTTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAG
*
85346715 TAACTCGCACAAATGC
65 TAACTAGCACAAATGC
* *
85346731 CTTCGGGACTTAGCCCGGA-ATTAATCACTAGCACAAATGTCTTCGGGACTTA
1 CTTCGGGACTTAGCCCGGATA-TAATCACTCGCACAAATGCCTTCGGGACTTA
85346783 ACCCCGTTAG
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
78 12 0.11
79 19 0.17
80 81 0.72
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAATCACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGC
Found at i:85351996 original size:50 final size:49
Alignment explanation
Indices: 85351916--85352022 Score: 198
Period size: 50 Copynumber: 2.2 Consensus size: 49
85351906 AAGAGAAGAA
85351916 AGAA-AGAAAAAAATCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
1 AGAAGAGAAAAAAATCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
85351964 AGAAGAGAAAAAAATTCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
1 AGAAGAGAAAAAAA-TCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
85352014 AGAAGAGAA
1 AGAAGAGAA
85352023 GAAATAAAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
48 4 0.07
49 9 0.16
50 44 0.77
ACGTcount: A:0.62, C:0.04, G:0.26, T:0.08
Consensus pattern (49 bp):
AGAAGAGAAAAAAATCAGTAAAAAAAGAAGATTACAGAAGAAGAGAGGG
Found at i:85358730 original size:151 final size:147
Alignment explanation
Indices: 85358521--85359124 Score: 787
Period size: 143 Copynumber: 4.1 Consensus size: 147
85358511 AATATATTAT
85358521 TTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATT
1 TTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATT
* * *
85358586 AATTTAGTAAATAATCCTGATTTTGGCCCTTTGTTTGTATTTTTTAAATTTTTAGATTTTATTTT
66 AATTTAATAAATAACCCTGATTTTGGCCATTTGTTTGTATTTTTTAAA---TTA-ATTTTATTTT
*
85358651 TTAAAATATACTATTTCCGTA
127 TTAAAATATACTATTTTCGTA
*
85358672 TTTTATTTTTTATCTTATTTTAGTACATAATGTTTCAAA--TA-TA--TTA-----TTTTA-A-T
1 TTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATT
* * * * *
85358725 -ATTT-TTCAATAACCCTAATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCAAATTTTATTTT
66 AATTTAATAAATAACCCTGATTTTGGCCATTTGTTTGTATTTTTTAAA--TT--AATTTTATTTT
*
85358788 TTAAAATATATTATTTTCGTA
127 TTAAAATATACTATTTTCGTA
**
85358809 TTTTATTTTTTTATATTATTTTAGTGGATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATAT
1 TTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATAT
*
85358874 TAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTGTA-TTTTT-AA--AATTTTATTTTTTA
65 TAATTTAATAAATAACCCTGATTTTGGCCATTTGTTTGTATTTTTTAAATTAATTTTATTTTTTA
*
85358935 AAATATACTATTTTTGTA
130 AAATATACTATTTTCGTA
85358953 TTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATT
1 TTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATT
* *
85359018 AATTTAATAAATAACCCTAATTTTGTCCATTTGTTTGTATTTTTTAAATTTTCAAATTTTATTTT
66 AATTTAATAAATAACCCTGATTTTGGCCATTTGTTTGTATTTTTTAAA--TT--AATTTTATTTT
**
85359083 TTAAAATATACTATTTTAATA
127 TTAAAATATACTATTTTCGTA
85359104 TTTTA-TTTTTATATTATTTTA
1 TTTTATTTTTTATATTATTTTA
85359125 AAAAAAATCC
Statistics
Matches: 403, Mismatches: 25, Indels: 51
0.84 0.05 0.11
Matches are distributed among these distances:
136 4 0.01
137 71 0.18
138 36 0.09
139 1 0.00
140 3 0.01
141 7 0.02
143 97 0.24
144 40 0.10
145 2 0.00
146 3 0.01
148 7 0.02
149 3 0.01
150 19 0.05
151 81 0.20
152 29 0.07
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (147 bp):
TTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATT
AATTTAATAAATAACCCTGATTTTGGCCATTTGTTTGTATTTTTTAAATTAATTTTATTTTTTAA
AATATACTATTTTCGTA
Found at i:85359182 original size:17 final size:17
Alignment explanation
Indices: 85359162--85359194 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
85359152 CCAAATTTTT
85359162 TTTTCATATTTTATTTC
1 TTTTCATATTTTATTTC
*
85359179 TTTTCTTATTTTATTT
1 TTTTCATATTTTATTT
85359195 TTTCATTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCATATTTTATTTC
Found at i:85359228 original size:17 final size:17
Alignment explanation
Indices: 85359158--85359239 Score: 55
Period size: 17 Copynumber: 4.9 Consensus size: 17
85359148 TCCCCCAAAT
*
85359158 TTTTTTTTCATATTTTA
1 TTTTTTTTAATATTTTA
* **
85359175 TTTCTTTTCTTATTTTA
1 TTTTTTTTAATATTTTA
*
85359192 TTTTTTCATTAAGA---TA
1 TTTTTT--TTAATATTTTA
85359208 -TTTTTTTAATATTTTA
1 TTTTTTTTAATATTTTA
* *
85359224 TTTTTTATACTATTTT
1 TTTTTTTTAATATTTT
85359240 TGTAAAATAG
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
13 5 0.10
15 5 0.10
16 4 0.08
17 33 0.66
19 3 0.06
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (17 bp):
TTTTTTTTAATATTTTA
Found at i:85359629 original size:10 final size:10
Alignment explanation
Indices: 85359610--85359643 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
85359600 AAAAAATTAC
85359610 CCTT-TTTTT
1 CCTTCTTTTT
85359619 CCTTCTTTTT
1 CCTTCTTTTT
*
85359629 CTTTCTTTTT
1 CCTTCTTTTT
85359639 CCTTC
1 CCTTC
85359644 CCTTCCTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
CCTTCTTTTT
Found at i:85359731 original size:3 final size:3
Alignment explanation
Indices: 85359706--85359782 Score: 65
Period size: 3 Copynumber: 27.0 Consensus size: 3
85359696 CCTGCTTTTC
* * * *
85359706 CTT CTT CTC CTT CTC CTT C-T CTT CTT CTT TTT C-T CTT -TT TTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
*
85359751 CTT C-T CTT CTTT CTT -TT CTT CTT CTC CTT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT
85359783 TTTTCCCAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
2 10 0.17
3 46 0.78
4 3 0.05
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:85359755 original size:16 final size:18
Alignment explanation
Indices: 85359707--85359783 Score: 77
Period size: 20 Copynumber: 4.1 Consensus size: 18
85359697 CTGCTTTTCC
*
85359707 TTCTTCTCCTTCTCCTTCT
1 TTCTTCTTCTTCT-CTTCT
*
85359726 CTTCTTCTTTTTCTCTT-T
1 -TTCTTCTTCTTCTCTTCT
85359744 TT-TTCTTCTTCTCTTCT
1 TTCTTCTTCTTCTCTTCT
85359761 TTCTTTTCTTCTTCTCCTTCT
1 TTC--TTCTTCTTCT-CTTCT
85359782 TT
1 TT
85359784 TTTCCCAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
16 12 0.24
17 5 0.10
18 1 0.02
19 3 0.06
20 21 0.43
21 7 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
TTCTTCTTCTTCTCTTCT
Found at i:85359787 original size:39 final size:41
Alignment explanation
Indices: 85359701--85359786 Score: 104
Period size: 39 Copynumber: 2.1 Consensus size: 41
85359691 TGCCGCCTGC
* * *
85359701 TTTTCCTTCTTCTCCTTCTCCTTCTCTTCTTCTTTTTCTCTT
1 TTTTTCTTCTTCTCCTTCT-CTTCTCTTCTTCTTCTCCTCTT
*
85359743 TTTTTCTTCTTCT-CTTCT-TTCTTTTCTTCTTCTCCTTCTT
1 TTTTTCTTCTTCTCCTTCTCTTCTCTTCTTCTTCTCC-TCTT
85359783 TTTT
1 TTTT
85359787 CCCAAAATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 14 0.36
40 8 0.21
41 5 0.13
42 12 0.31
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (41 bp):
TTTTTCTTCTTCTCCTTCTCTTCTCTTCTTCTTCTCCTCTT
Found at i:85360289 original size:25 final size:24
Alignment explanation
Indices: 85360253--85360299 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
85360243 GGTGACATGG
* *
85360253 TTTTTTTTAATATTAATTTTTAATA
1 TTTTTTTAAATAAT-ATTTTTAATA
85360278 TTTTTTTAAATAATATTTTTAA
1 TTTTTTTAAATAATATTTTTAA
85360300 AATATAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTTTTAAATAATATTTTTAATA
Found at i:85360291 original size:15 final size:15
Alignment explanation
Indices: 85360273--85360347 Score: 53
Period size: 15 Copynumber: 4.7 Consensus size: 15
85360263 TATTAATTTT
85360273 TAATATTTTTTTAAA
1 TAATATTTTTTTAAA
**
85360288 TAATATTTTTAAAATA
1 TAATATTTTTTTAA-A
*
85360304 TAATATCAGTTTTTAAA
1 TAATAT--TTTTTTAAA
*
85360321 GAATTATTTTTTATTAAA
1 TAA-TA-TTTTT-TTAAA
85360339 -AATATTTTT
1 TAATATTTTT
85360348 AAATTTTTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
15 17 0.36
16 9 0.19
17 8 0.17
18 12 0.26
19 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (15 bp):
TAATATTTTTTTAAA
Found at i:85370081 original size:10 final size:10
Alignment explanation
Indices: 85370066--85370091 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
85370056 TAATGAAATG
85370066 TTTATTATTA
1 TTTATTATTA
85370076 TTTATTATTA
1 TTTATTATTA
85370086 TTTATT
1 TTTATT
85370092 TAGTATATAA
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTATTA
Found at i:85372277 original size:46 final size:46
Alignment explanation
Indices: 85372225--85372498 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
85372215 GCTCTCTGAA
* *
85372225 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
85372271 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
85372317 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGGC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
85372363 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGAAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
85372409 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
85372455 A-GAAAGTGAGTAAGACCATAGTTGAAAGACACCATGGCATCATG
1 ATGAAA-TGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
85372499 TCGAAGATAA
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 206 0.98
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:85372639 original size:26 final size:26
Alignment explanation
Indices: 85372582--85372676 Score: 70
Period size: 26 Copynumber: 3.6 Consensus size: 26
85372572 TCAAATGATG
* *
85372582 AATGGTTTTATGAATTGGTTATACAA
1 AATGGTTGTATGAAATGGTTATACAA
85372608 AATGGTTGTATGAAAT-GTT-TACAA
1 AATGGTTGTATGAAATGGTTATACAA
** * *
85372632 GAATTGGTCATATGGAAAT-ATATGTACAA
1 -AA-TGGTTGTAT-GAAATGGT-TATACAA
*
85372661 AATAGTTGTATGAAAT
1 AATGGTTGTATGAAAT
85372677 AATTAAGAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
24 5 0.09
25 5 0.09
26 26 0.46
27 12 0.21
28 3 0.05
29 5 0.09
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (26 bp):
AATGGTTGTATGAAATGGTTATACAA
Found at i:85375542 original size:12 final size:12
Alignment explanation
Indices: 85375520--85375548 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
85375510 AATTGATCAC
85375520 ATATA-TTAAAA
1 ATATATTTAAAA
85375531 ATATATTTAAAA
1 ATATATTTAAAA
85375543 ATATAT
1 ATATAT
85375549 ATTTTGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATTTAAAA
Found at i:85377554 original size:43 final size:43
Alignment explanation
Indices: 85377493--85377579 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
85377483 CAGATTGCAC
85377493 AGAAATTTTACAAATGGACTATTTGCGTCTTAAAAACTACCGT
1 AGAAATTTTACAAATGGACTATTTGCGTCTTAAAAACTACCGT
85377536 AGAAATTTTACAAATGGACTATTTGCGTCTTAAAAACTACCGT
1 AGAAATTTTACAAATGGACTATTTGCGTCTTAAAAACTACCGT
85377579 A
1 A
85377580 CATCTTTCCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (43 bp):
AGAAATTTTACAAATGGACTATTTGCGTCTTAAAAACTACCGT
Found at i:85380309 original size:14 final size:15
Alignment explanation
Indices: 85380273--85380306 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
85380263 TTATTATTGA
*
85380273 ATTTTGAAAATTTTC
1 ATTTTGAAAAATTTC
85380288 ATTTTGAAAAATTTC
1 ATTTTGAAAAATTTC
85380303 ATTT
1 ATTT
85380307 GAAGAGCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (15 bp):
ATTTTGAAAAATTTC
Found at i:85381420 original size:23 final size:23
Alignment explanation
Indices: 85381394--85381444 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
85381384 CACACATATA
85381394 TCACTTTGTATCATATTACTTAT
1 TCACTTTGTATCATATTACTTAT
85381417 TCACTTTGTATCATATTACTTAT
1 TCACTTTGTATCATATTACTTAT
85381440 TCACT
1 TCACT
85381445 ACATTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.20, G:0.04, T:0.51
Consensus pattern (23 bp):
TCACTTTGTATCATATTACTTAT
Found at i:85381477 original size:17 final size:17
Alignment explanation
Indices: 85381450--85381482 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
85381440 TCACTACATT
85381450 TTTATTTCACATATTCAC
1 TTTATTTCACA-ATTCAC
85381468 TTTA-TTCACAATTCA
1 TTTATTTCACAATTCA
85381483 TAAAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATTTCACAATTCAC
Found at i:85382688 original size:10 final size:10
Alignment explanation
Indices: 85382661--85382698 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
85382651 TTAAATTTTA
85382661 AAAGATAAAT
1 AAAGATAAAT
85382671 ACAA-ATAAAT
1 A-AAGATAAAT
*
85382681 AAAGATAATT
1 AAAGATAAAT
85382691 AAAGATAA
1 AAAGATAA
85382699 CAGCTAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:85383683 original size:10 final size:10
Alignment explanation
Indices: 85383644--85383685 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
85383634 ATTCCAGGTG
*
85383644 TAATTTTTGT
1 TAATTTTTTT
*
85383654 TAATTATTTT
1 TAATTTTTTT
*
85383664 T-ATATTTTT
1 TAATTTTTTT
85383673 TAATTTTTTT
1 TAATTTTTTT
85383683 TAA
1 TAA
85383686 AAAAAATCCT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (10 bp):
TAATTTTTTT
Found at i:85385306 original size:18 final size:18
Alignment explanation
Indices: 85385285--85385319 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
85385275 AGCAGATTAG
85385285 CCCTTCTCAGCAACCAAA
1 CCCTTCTCAGCAACCAAA
85385303 CCCTTCTCAGCAACCAA
1 CCCTTCTCAGCAACCAA
85385320 CTTTCAACTA
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:0.31, C:0.46, G:0.06, T:0.17
Consensus pattern (18 bp):
CCCTTCTCAGCAACCAAA
Found at i:85387865 original size:23 final size:23
Alignment explanation
Indices: 85387838--85387911 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
85387828 TGGTAGGAGC
* *
85387838 TTATTGGCACTTTGGTGTGATTG
1 TTATTGGCACTTTAGTGCGATTG
*
85387861 TTATTGACACTTTAGTGCGATTG
1 TTATTGGCACTTTAGTGCGATTG
* *
85387884 TTATTGGCACTTCAATGCGATTG
1 TTATTGGCACTTTAGTGCGATTG
85387907 TTATT
1 TTATT
85387912 ATGGAGTGTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.19, C:0.12, G:0.23, T:0.46
Consensus pattern (23 bp):
TTATTGGCACTTTAGTGCGATTG
Found at i:85388020 original size:27 final size:27
Alignment explanation
Indices: 85387985--85388039 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
85387975 GTCTGAAGCT
*
85387985 TAAATTTGTGTATTTGTATTGAGTTAA
1 TAAACTTGTGTATTTGTATTGAGTTAA
85388012 TAAACTTGTGTATTTGTATTGAGTTAA
1 TAAACTTGTGTATTTGTATTGAGTTAA
85388039 T
1 T
85388040 GCCTAGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (27 bp):
TAAACTTGTGTATTTGTATTGAGTTAA
Found at i:85391999 original size:27 final size:27
Alignment explanation
Indices: 85391817--85392061 Score: 195
Period size: 27 Copynumber: 9.1 Consensus size: 27
85391807 TTCCACTTCT
* * * *
85391817 GCCTTCGGCACTCCTTCTTCCACCCCT
1 GCCTTTGGCACTCCGTCTTCCACACCG
* * *
85391844 GCCTTTGGCACTCCTTCTTCCACCCCT
1 GCCTTTGGCACTCCGTCTTCCACACCG
* *
85391871 GCCTTTGGCACTCCTTCTTCCACCCCG
1 GCCTTTGGCACTCCGTCTTCCACACCG
* * *
85391898 GCCTTTGGAACTCC-TCCTTCAACTCCG
1 GCCTTTGGCACTCCGT-CTTCCACACCG
* ** * *
85391925 GCTTTTGGGGCTACTTCTTCCACACCG
1 GCCTTTGGCACTCCGTCTTCCACACCG
* *
85391952 GCATTTGGCACTCCGTCTTCGACACCG
1 GCCTTTGGCACTCCGTCTTCCACACCG
* * *
85391979 GCGTTTGGCACTCCGTCTTCGACACCT
1 GCCTTTGGCACTCCGTCTTCCACACCG
* * ** *
85392006 TCGTTTGGGGCTCCGTCTTCGACACCG
1 GCCTTTGGCACTCCGTCTTCCACACCG
* * * *
85392033 GCATTTGGAACTCCGTCCTCGACACCG
1 GCCTTTGGCACTCCGTCTTCCACACCG
85392060 GC
1 GC
85392062 GACACCGGCT
Statistics
Matches: 188, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 186 0.99
28 1 0.01
ACGTcount: A:0.11, C:0.41, G:0.19, T:0.29
Consensus pattern (27 bp):
GCCTTTGGCACTCCGTCTTCCACACCG
Found at i:85392013 original size:81 final size:81
Alignment explanation
Indices: 85391857--85392062 Score: 234
Period size: 81 Copynumber: 2.5 Consensus size: 81
85391847 TTTGGCACTC
* * * * * * * *
85391857 CTTCTTCCACCCCTGCCTTTGGCACTCCTTCTTCCACCCCGGCCTTTGGAACTCCTCCTTCAACT
1 CTTCTTCCACACCGGCATTTGGCACTCCGTCTTCGACACCGGCGTTTGGAACTCCTCCTTCAACA
*
85391922 CCGGCTTTTGGGGCTA
66 CCGGCGTTTGGGGCTA
* *
85391938 CTTCTTCCACACCGGCATTTGGCACTCCGTCTTCGACACCGGCGTTTGGCACTCCGT-CTTCGAC
1 CTTCTTCCACACCGGCATTTGGCACTCCGTCTTCGACACCGGCGTTTGGAACTCC-TCCTTCAAC
** *
85392002 ACCTTCGTTTGGGGCTC
65 ACCGGCGTTTGGGGCTA
* * * *
85392019 CGTCTTCGACACCGGCATTTGGAACTCCGTCCTCGACACCGGCG
1 CTTCTTCCACACCGGCATTTGGCACTCCGTCTTCGACACCGGCG
85392063 ACACCGGCTT
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 105 0.99
82 1 0.01
ACGTcount: A:0.12, C:0.39, G:0.20, T:0.29
Consensus pattern (81 bp):
CTTCTTCCACACCGGCATTTGGCACTCCGTCTTCGACACCGGCGTTTGGAACTCCTCCTTCAACA
CCGGCGTTTGGGGCTA
Found at i:85399374 original size:147 final size:150
Alignment explanation
Indices: 85399073--85399361 Score: 487
Period size: 147 Copynumber: 1.9 Consensus size: 150
85399063 AAAGTTTTGA
85399073 TTTTTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATATTTTTTAGTCATTTTAAA
1 TTTTTTTAAAAAAAGAG-AAGTTTAGATTTTTAAAAATAAAAATATATTTTTTAGTCATTTTAAA
* * *
85399138 GGAAAAGTTTAAATTTTTAAAACAAAACTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTGA
65 GGAAAAGTTTAAAATTTTAAAACAAAACTTTGATCTTTTTCAACTATTTCGAAATAAAATTTTAA
85399203 TTTTTAAGAAAAATAATAATT
130 TTTTTAAGAAAAATAATAATT
*
85399224 TTTTTTTAGAAAAAGAG-AGTTTAGATTTTTAAAAAT-AAAA-ATATTTTTTAGTCATTTTAAAG
1 TTTTTTTAAAAAAAGAGAAGTTTAGATTTTTAAAAATAAAAATATATTTTTTAGTCATTTTAAAG
**
85399286 GAAAAGTTTAAAATTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAATTTTAAT
66 GAAAAGTTTAAAATTTTAAAACAAAACTTTGATCTTTTTCAACTATTTCGAAATAAAATTTTAAT
85399351 TTTTAA-AAAAA
131 TTTTAAGAAAAA
85399362 GTAGTGATTT
Statistics
Matches: 132, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
146 5 0.04
147 88 0.67
148 4 0.03
149 19 0.14
151 16 0.12
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (150 bp):
TTTTTTTAAAAAAAGAGAAGTTTAGATTTTTAAAAATAAAAATATATTTTTTAGTCATTTTAAAG
GAAAAGTTTAAAATTTTAAAACAAAACTTTGATCTTTTTCAACTATTTCGAAATAAAATTTTAAT
TTTTAAGAAAAATAATAATT
Found at i:85399411 original size:147 final size:146
Alignment explanation
Indices: 85399072--85399410 Score: 445
Period size: 147 Copynumber: 2.3 Consensus size: 146
85399062 AAAAGTTTTG
* *
85399072 ATTTTTTTAAAAAAAGAGAAAGTTTAGATTTTTAAAAATAAAAATATATTTTTTAGTCATTTTAA
1 ATTTTTTT-AAAAAAGA-AAAGTTTAGA-TTTTAAAAAAAAAAAAATATTTTTTAGTCATTTTAA
* * *
85399137 AGGAAAAGTTTAAATTTTTAAAACAAAACTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTG
63 AGGAAAAGTTTAAAATTTTAAAACAAAACTTTGATCTTTTTCAACTATTTCGAAATAAAATTTTA
85399202 ATTTTTAAGAAAAATAATA
128 ATTTTTAAGAAAAATAATA
* * *
85399221 ATTTTTTTTTAGAAAAAG-AGAGTTTAGATTTT-TAAAAATAAAAATATTTTTTAGTCATTTTAA
1 A--TTTTTTTA-AAAAAGAAAAGTTTAGATTTTAAAAAAAAAAAAATATTTTTTAGTCATTTTAA
**
85399284 AGGAAAAGTTTAAAATTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAATTTTA
63 AGGAAAAGTTTAAAATTTTAAAACAAAACTTTGATCTTTTTCAACTATTTCGAAATAAAATTTTA
* *
85399349 ATTTTTAA-AAAAAGTAGTG
128 ATTTTTAAGAAAAA-TAATA
*
85399368 A-TTTTTTAAAAAAGAAAACTTT-GATTTTGCAAAAAAAAAAAAA
1 ATTTTTTTAAAAAAGAAAAGTTTAGATTTT--AAAAAAAAAAAAA
85399411 AATCCGACCA
Statistics
Matches: 166, Mismatches: 16, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
143 12 0.07
144 12 0.07
146 15 0.09
147 99 0.60
148 4 0.02
149 10 0.06
150 1 0.01
151 13 0.08
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (146 bp):
ATTTTTTTAAAAAAGAAAAGTTTAGATTTTAAAAAAAAAAAAATATTTTTTAGTCATTTTAAAGG
AAAAGTTTAAAATTTTAAAACAAAACTTTGATCTTTTTCAACTATTTCGAAATAAAATTTTAATT
TTTAAGAAAAATAATA
Found at i:85402768 original size:20 final size:21
Alignment explanation
Indices: 85402743--85402788 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
85402733 AAAAATATAA
85402743 ATTTTGGAATTTTT-ATAAA-T
1 ATTTTGGAATTTTTGA-AAATT
85402763 ATTTT-GAATTTTTGAAAATT
1 ATTTTGGAATTTTTGAAAATT
85402783 ATTTTG
1 ATTTTG
85402789 ATTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.57
Consensus pattern (21 bp):
ATTTTGGAATTTTTGAAAATT
Found at i:85402789 original size:20 final size:19
Alignment explanation
Indices: 85402738--85402794 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
85402728 TTTTAAAAAA
*
85402738 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
85402756 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
85402775 TGA-AAATTATTTTG-ATTTT
1 T-ATAAA-TATTTTGAATTTT
85402794 T
1 T
85402795 TTTTTGTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 7 0.20
19 20 0.57
20 8 0.23
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:85404587 original size:60 final size:60
Alignment explanation
Indices: 85404505--85404639 Score: 168
Period size: 60 Copynumber: 2.2 Consensus size: 60
85404495 GTGTTAACTG
*
85404505 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCT-TTAC-AGTATC-AGAGTATATTA
1 GGCC-TAGCCCATATCAATATTAATCTAGGCCATAGCCCTATTACAAG--TCGAGA-TATATTA
* * *
85404566 GGCCTAGCCCATATCAGTATTAATCTAGGCCGTAGCCCTATTACAAGTCGAGATATATTG
1 GGCCTAGCCCATATCAATATTAATCTAGGCCATAGCCCTATTACAAGTCGAGATATATTA
*
85404626 GGCCTTGCCCATAT
1 GGCCTAGCCCATAT
85404640 TAACACAGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 53 0.80
61 11 0.17
62 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (60 bp):
GGCCTAGCCCATATCAATATTAATCTAGGCCATAGCCCTATTACAAGTCGAGATATATTA
Found at i:85405299 original size:8 final size:8
Alignment explanation
Indices: 85405286--85405310 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
85405276 TTCACAAATG
85405286 TCGGCTTT
1 TCGGCTTT
85405294 TCGGCTTT
1 TCGGCTTT
85405302 TCGGCTTT
1 TCGGCTTT
85405310 T
1 T
85405311 GCCGATCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.52
Consensus pattern (8 bp):
TCGGCTTT
Found at i:85407341 original size:13 final size:13
Alignment explanation
Indices: 85407323--85407365 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
85407313 AAATTTTTTC
85407323 CTAAATATTATCA
1 CTAAATATTATCA
85407336 CTAAATA--ATC-
1 CTAAATATTATCA
85407346 CTAAATATTATCA
1 CTAAATATTATCA
85407359 CTAAATA
1 CTAAATA
85407366 ATTCAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:85407347 original size:23 final size:23
Alignment explanation
Indices: 85407321--85407367 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
85407311 CTAAATTTTT
85407321 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
85407344 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
85407367 T
1 T
85407368 TCAAAATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:85407374 original size:23 final size:23
Alignment explanation
Indices: 85407325--85407374 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
85407315 ATTTTTTCCT
*
85407325 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
85407348 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
85407371 AAAT
1 AAAT
85407375 TCAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:85409713 original size:27 final size:27
Alignment explanation
Indices: 85409675--85409736 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
85409665 TGTAAAAGTC
85409675 TATAGGAAAAATTAGCTTATTTACCTT
1 TATAGGAAAAATTAGCTTATTTACCTT
85409702 TATAGGAAAAATTAGCTTATTTACCTT
1 TATAGGAAAAATTAGCTTATTTACCTT
85409729 TATGAGGA
1 TAT-AGGA
85409737 CATCTTGCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 30 0.88
28 4 0.12
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (27 bp):
TATAGGAAAAATTAGCTTATTTACCTT
Found at i:85410190 original size:27 final size:27
Alignment explanation
Indices: 85410152--85410204 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
85410142 TTCTAGGGTT
* *
85410152 TGGGGGAGGTACCGCCAATGATTTATA
1 TGGGGGAGGTACCACAAATGATTTATA
85410179 TGGGGGAGGTACCACAAATGATTTAT
1 TGGGGGAGGTACCACAAATGATTTAT
85410205 GTGGTGCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.26
Consensus pattern (27 bp):
TGGGGGAGGTACCACAAATGATTTATA
Found at i:85412241 original size:48 final size:48
Alignment explanation
Indices: 85412157--85412440 Score: 257
Period size: 48 Copynumber: 5.9 Consensus size: 48
85412147 ACATTTGGAT
* * * *
85412157 GATATGTGTGCCAGTGTAAGACCACGTCTGGGACATGGCATCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
** * * * * * * *
85412205 GATATGAGATTCAGTGTAAGAACATATTTGGAACATGGTATCAGCGAT
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* * * * *
85412253 GTTGTGAGAGCCAGTGTAAGACCATGTCTGGGGCATGGCATCGG-CATT
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-C
* * * * *
85412301 GATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* *
85412349 -ATTATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTC
1 GA-TATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
* * * * * *
85412397 GACATGTGAGCCAATGTAAAACCATGTTTAGAACATGGCATCGG
1 GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGG
85412441 TAACTCACTC
Statistics
Matches: 187, Mismatches: 45, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
47 2 0.01
48 182 0.97
49 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC
Found at i:85412404 original size:96 final size:96
Alignment explanation
Indices: 85412166--85412439 Score: 291
Period size: 96 Copynumber: 2.8 Consensus size: 96
85412156 TGATATGTGT
* * * ** * *
85412166 GCCAGTGTAAGACCACGTCTGGGACATGGCATCGGCCACGATATGAGATTCAGTGTAAGAACATA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGGCT-AGTGTAAGACCATG
* * ** *
85412231 TTTGGAACATGGTATC-AGCGATGTTGTGAGA
65 TTTGGAACATGGCATCGAGCCACATTATGAGA
* * *
85412262 GCCAGTGTAAGACCATGTCTGGGGCATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTG-GCTAGTGTAAGACCATG
* *
85412327 TCTGGGACATGGCATCGA-CCACATTATGAGA
65 TTTGGAACATGGCATCGAGCCACATTATGAGA
* * * * * *
85412358 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGACATGTGAGCCAATGTAAAACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTG-GCTAGTGTAAGACCATG
*
85412423 TTTAGAACATGGCATCG
65 TTTGGAACATGGCATCG
85412440 GTAACTCACT
Statistics
Matches: 146, Mismatches: 30, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
96 144 0.99
97 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (96 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGGCTAGTGTAAGACCATGT
TTGGAACATGGCATCGAGCCACATTATGAGA
Found at i:85412421 original size:144 final size:144
Alignment explanation
Indices: 85412156--85412423 Score: 335
Period size: 144 Copynumber: 1.9 Consensus size: 144
85412146 GACATTTGGA
* * *
85412156 TGATATGTGTGCCAGTGTAAGACCACGTCTGGGACATGGCATCGGCCACGATATGAGATTCAGTG
1 TGATATGTGCGCCAGTGTAAGACCACGTCTGGGACATGGCATCGACCACGATATGAGACTCAGTG
* *** * *
85412221 TAAGAACATATTTGGAACATGGTATCAGCGATGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGG
66 TAAGAACATATTTGGAACATGGCATCAGCGATGACATGAGAGCCAATGTAAAACCATGTCTGGGG
85412286 CATGGCATCGGCAT
131 CATGGCATCGGCAT
* *
85412300 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCAC-ATTATGAGAGCT-AG
1 TGATATGTGCGCCAGTGTAAGACCACGTCTGGGACATGGCATCGACCACGA-TATGAGA-CTCAG
* * * * * *
85412363 TGTAAGACCATGTTTGGGACATGGCATCGGC-CTCGACATGTGAGCCAATGTAAAACCATGT
64 TGTAAGAACATATTTGGAACATGGCATCAGCGAT-GACATGAGAGCCAATGTAAAACCATGT
85412424 TTAGAACATG
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
143 2 0.02
144 101 0.97
145 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (144 bp):
TGATATGTGCGCCAGTGTAAGACCACGTCTGGGACATGGCATCGACCACGATATGAGACTCAGTG
TAAGAACATATTTGGAACATGGCATCAGCGATGACATGAGAGCCAATGTAAAACCATGTCTGGGG
CATGGCATCGGCAT
Found at i:85418419 original size:48 final size:48
Alignment explanation
Indices: 85418333--85418617 Score: 292
Period size: 48 Copynumber: 6.0 Consensus size: 48
85418323 TGACATTTGG
* * *
85418333 ATGATATGTGTGCCAGTGTAAGACCACGTCTGGGACATGGCATCGGCC
1 ATGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC
** * * * *
85418381 ATGATATGAGATTCAGTGTAAGAACATGTTTGGAACATGGCATCGGCG
1 ATGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC
* * *
85418429 TTGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-C
1 ATGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC
* *
85418475 ATTGATATGTACA-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC
1 A-TGATATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC
* *
85418524 A-CATTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCC
1 ATGA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC
* * * * * * *
85418572 -TCGACATGTGAGCCAATGTAAAACCATGTTTGGAACATGGCGTCGG
1 AT-GATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
85418618 TAACTCACTC
Statistics
Matches: 195, Mismatches: 34, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
47 40 0.21
48 152 0.78
49 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
ATGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCC
Found at i:85418521 original size:95 final size:95
Alignment explanation
Indices: 85418344--85418568 Score: 301
Period size: 95 Copynumber: 2.4 Consensus size: 95
85418334 TGATATGTGT
* * *
85418344 GCCAGTGTAAGACCACGTCTGGGACATGGCATCGGCCATGATATGAGATTCAGTGTAAGAACATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-GCCATGATATGACACTCAGTGTAAGAACATG
* **** *
85418409 TTTGGAACATGGCATCGGCGTTGTTGTGAGA
65 TCTGGAACATGGCATCGGCCACATTATGAGA
*
85418440 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG-CATTGATATGTACACT-AGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCA-TGATATG-ACACTCAGTGTAAGAACAT
*
85418503 GTCTGGGACATGGCATCGGCCACATTATGAGA
64 GTCTGGAACATGGCATCGGCCACATTATGAGA
*
85418535 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
85418569 GCCTCGACAT
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
94 2 0.02
95 78 0.68
96 35 0.30
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (95 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGCCATGATATGACACTCAGTGTAAGAACATGT
CTGGAACATGGCATCGGCCACATTATGAGA
Found at i:85418592 original size:143 final size:143
Alignment explanation
Indices: 85418347--85418612 Score: 356
Period size: 143 Copynumber: 1.9 Consensus size: 143
85418337 TATGTGTGCC
* * *
85418347 AGTGTAAGACCACGTCTGGGACATGGCATCGGCCATGATATGAGATTCAGTGTAAGAACATGTTT
1 AGTGTAAGACCACGTCTGGGACATGGCATCGGCCATCATATGAGACTCAGTGTAAGAACATGTCT
* * *** * * *
85418412 GGAACATGGCATCGGCGTTGTTGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCAT
66 GGAACATGGCATCGGCCTCGACATGAGAGCCAATGTAAAACCATGTCTGGAACATGGCATCGCAT
85418477 TGATATGTACACT
131 TGATATGTACACT
* *
85418490 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGAGAGCT-AGTGTAAGACCATGT
1 AGTGTAAGACCACGTCTGGGACATGGCATCGGCCATCA-TATGAGA-CTCAGTGTAAGAACATGT
* * *
85418553 CTGGGACATGGCATCGGCCTCGACATGTGAGCCAATGTAAAACCATGTTTGGAACATGGC
64 CTGGAACATGGCATCGGCCTCGACATGAGAGCCAATGTAAAACCATGTCTGGAACATGGC
85418613 GTCGGTAACT
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
142 1 0.01
143 103 0.98
144 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (143 bp):
AGTGTAAGACCACGTCTGGGACATGGCATCGGCCATCATATGAGACTCAGTGTAAGAACATGTCT
GGAACATGGCATCGGCCTCGACATGAGAGCCAATGTAAAACCATGTCTGGAACATGGCATCGCAT
TGATATGTACACT
Found at i:85420985 original size:5 final size:5
Alignment explanation
Indices: 85420975--85421001 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
85420965 TATGAAGTGT
85420975 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
85421002 ATATATTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:85421904 original size:13 final size:13
Alignment explanation
Indices: 85421886--85421952 Score: 65
Period size: 13 Copynumber: 5.6 Consensus size: 13
85421876 AAATTTTTCT
85421886 TAAATATTATCAC
1 TAAATATTATCAC
*
85421899 TAAATA--ATC-T
1 TAAATATTATCAC
85421909 TAAATATTATCAC
1 TAAATATTATCAC
*
85421922 TAAATA--AT-TC
1 TAAATATTATCAC
*
85421932 TAAATAATATCAC
1 TAAATATTATCAC
85421945 TAAATATT
1 TAAATATT
85421953 TCAAAATTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
10 13 0.30
11 5 0.12
12 5 0.12
13 20 0.47
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAATATTATCAC
Found at i:85421911 original size:23 final size:23
Alignment explanation
Indices: 85421883--85421950 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
85421873 GCTAAATTTT
85421883 TCTTAAATATTATCACTAAATAA
1 TCTTAAATATTATCACTAAATAA
85421906 TCTTAAATATTATCACTAAATAA
1 TCTTAAATATTATCACTAAATAA
*
85421929 T-TCTAAATAATATCACTAAATA
1 TCT-TAAATATTATCACTAAATA
85421951 TTTCAAAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
22 1 0.02
23 42 0.98
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (23 bp):
TCTTAAATATTATCACTAAATAA
Found at i:85450826 original size:15 final size:15
Alignment explanation
Indices: 85450806--85450861 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
85450796 TAAATCTTAA
85450806 CCAAATTTCCATTAC
1 CCAAATTTCCATTAC
*
85450821 CCAAATTTTAAATCATTA-
1 CCAAA-TTT---CCATTAC
*
85450839 CCGAATTTCCATTAC
1 CCAAATTTCCATTAC
85450854 CCAAATTT
1 CCAAATTT
85450862 GAAATCATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
14 5 0.16
15 12 0.38
16 3 0.09
17 3 0.09
18 4 0.12
19 5 0.16
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.36
Consensus pattern (15 bp):
CCAAATTTCCATTAC
Found at i:85450846 original size:33 final size:34
Alignment explanation
Indices: 85450796--85450870 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 34
85450786 TCAAAGAACA
85450796 TAAATC-TTAACCAAATTTCCATTACCCAAATTT
1 TAAATCATTAACCAAATTTCCATTACCCAAATTT
*
85450829 TAAATCATT-ACCGAATTTCCATTACCCAAATTT
1 TAAATCATTAACCAAATTTCCATTACCCAAATTT
*
85450862 GAAATCATT
1 TAAATCATT
85450871 TTGTCTTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 37 0.95
34 2 0.05
ACGTcount: A:0.39, C:0.23, G:0.03, T:0.36
Consensus pattern (34 bp):
TAAATCATTAACCAAATTTCCATTACCCAAATTT
Found at i:85452710 original size:30 final size:29
Alignment explanation
Indices: 85452671--85452741 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
85452661 TTCCTTATAA
*
85452671 TCATATTAGTCCAT-ATATTTCATT-TATTTT
1 TCATTTTAGTCCATCA-ATTT-ATTAT-TTTT
*
85452701 TCATTTTAGTCCCTCAATTTATTATTTTT
1 TCATTTTAGTCCATCAATTTATTATTTTT
*
85452730 TCAATTTAGTCC
1 TCATTTTAGTCC
85452742 TAATTACTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 18 0.50
30 17 0.47
31 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.04, T:0.55
Consensus pattern (29 bp):
TCATTTTAGTCCATCAATTTATTATTTTT
Found at i:85455983 original size:35 final size:35
Alignment explanation
Indices: 85455944--85456074 Score: 127
Period size: 35 Copynumber: 3.6 Consensus size: 35
85455934 CATGGCAAAG
*
85455944 TGTGAAATATAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
85455979 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * ** **
85456019 TAAGAAATGTAGGTATGGCATTGTCCATACCAAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
85456054 TGTAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
85456075 TTCAATGAGG
Statistics
Matches: 77, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
35 43 0.56
37 2 0.03
38 4 0.05
40 28 0.36
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:85463169 original size:47 final size:47
Alignment explanation
Indices: 85463109--85463443 Score: 357
Period size: 47 Copynumber: 7.1 Consensus size: 47
85463099 TTAGGATTTT
* ** *
85463109 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAA
* * *
85463156 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAA
* * * *
85463203 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAA
* * * * * *
85463250 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAA
* * * *
85463297 ATGTGATGAATGTAAACATGTATATATGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAA
* * * * *
85463344 ATGTGATGAATGTGAACATGCATATGTATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAA
* * ** * **
85463391 ATGTGATGAACGTGGAA-GTGTATATATGTGGGAAAGCCGAATGGTTA
1 ATGTGATGAATGT-GAACATGTATATATGTGCTAAGGCCGAATGGCAA
85463438 ATGTGA
1 ATGTGA
85463444 AATGTGTATG
Statistics
Matches: 254, Mismatches: 33, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
47 251 0.99
48 3 0.01
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAA
Found at i:85463207 original size:94 final size:94
Alignment explanation
Indices: 85463109--85463443 Score: 438
Period size: 94 Copynumber: 3.6 Consensus size: 94
85463099 TTAGGATTTT
* ** *
85463109 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
* *
85463174 TGCATTTGTGTGCTAAGGCCGAATGGCAA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* * * *
85463203 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGAAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
*
85463268 TGCATTTGTGTGATAAGACCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* * * *
85463297 ATGTGATGAATGTAAACATGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
* *
85463362 TGCATATGTATGATAAGGCCGAATGGCCA
66 TGCATTTGTGTGATAAGGCCGAATGGCCA
* * ** * **
85463391 ATGTGATGAACGTGGAA-GTGTATATATGTGGGAAAGCCGAATGGTTAATGTGA
1 ATGTGATGAATGT-GAACATGTATATATGTGCTAAGGCCGAATGGCAAATGTGA
85463444 AATGTGTATG
Statistics
Matches: 209, Mismatches: 31, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
94 207 0.99
95 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGTATATATGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
TGCATTTGTGTGATAAGGCCGAATGGCCA
Found at i:85463230 original size:23 final size:23
Alignment explanation
Indices: 85463157--85463230 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
85463147 GAATGGCAAA
85463157 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
* * **
85463180 TGTG-TGCTAAGGCCG-A-ATGGCAAA
1 TGTGATG--AATG-TGAACAT-GCATT
85463204 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
85463227 TGTG
1 TGTG
85463231 TGCTAAGGCC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 17 0.47
24 13 0.36
25 3 0.08
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (23 bp):
TGTGATGAATGTGAACATGCATT
Found at i:85463431 original size:141 final size:141
Alignment explanation
Indices: 85463109--85463443 Score: 397
Period size: 141 Copynumber: 2.4 Consensus size: 141
85463099 TTAGGATTTT
* * * * * *
85463109 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACGTGTATATATGTGCGAAAGCCGAATGGCAAATGTGATGAATGTAAACA
* * * * * * *
85463174 TGCATTTGTGTGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGCTAAGG
66 TGCATATATGTGATAAGGCCGAATAGCAAATGTGATGAATGTGAACATGCATATGTATGATAAGG
85463239 CCGAATGGAAA
131 CCGAATGGAAA
* * * *
85463250 ATGTGATGAATGTGAACATGCAT-T-TGTGTGATAAGACCGAATGGCCAATGTGATGAATGTAAA
1 ATGTGATGAATGTGAACGTGTATATATGTGCGA-AAG-CCGAATGGCAAATGTGATGAATGTAAA
* *
85463313 CATGTATATATGTGATAAGGCCGAATAGCCAATGTGATGAATGTGAACATGCATATGTATGATAA
64 CATGCATATATGTGATAAGGCCGAATAGCAAATGTGATGAATGTGAACATGCATATGTATGATAA
**
85463378 GGCCGAATGGCCA
129 GGCCGAATGGAAA
* * **
85463391 ATGTGATGAACGTGGAA-GTGTATATATGTGGGAAAGCCGAATGGTTAATGTGA
1 ATGTGATGAATGT-GAACGTGTATATATGTGCGAAAGCCGAATGGCAAATGTGA
85463444 AATGTGTATG
Statistics
Matches: 162, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
139 4 0.02
140 3 0.02
141 142 0.88
142 7 0.04
143 6 0.04
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.27
Consensus pattern (141 bp):
ATGTGATGAATGTGAACGTGTATATATGTGCGAAAGCCGAATGGCAAATGTGATGAATGTAAACA
TGCATATATGTGATAAGGCCGAATAGCAAATGTGATGAATGTGAACATGCATATGTATGATAAGG
CCGAATGGAAA
Found at i:85463480 original size:46 final size:46
Alignment explanation
Indices: 85463414--85463504 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
85463404 GGAAGTGTAT
* * *
85463414 ATATGTGGGAAAGCCGAATGGTTAATGTGA-AATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGTGAGAA-ATGTATGAGATGG
*
85463460 ATATGTGGTAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
85463505 TGTATATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 38 0.95
47 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATGG
Found at i:85467359 original size:40 final size:35
Alignment explanation
Indices: 85467269--85467434 Score: 179
Period size: 35 Copynumber: 4.6 Consensus size: 35
85467259 CATGGCAAAG
*
85467269 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGATATGTAGGTATGGTATCATCCATACTGAGT
85467304 TGTGATATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGATATGTAGGTATGGTATCATCCATACTGAGT
85467339 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGATATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * * *** *
85467379 TAAGAAATGTATGTATGGCATTGCCCATACCGAGT
1 TGTGATATGTAGGTATGGTATCATCCATACTGAGT
* *
85467414 TGTAAAATGTAGGTATGGTAT
1 TGTGATATGTAGGTATGGTAT
85467435 TTCAATGAGG
Statistics
Matches: 111, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
35 78 0.70
37 2 0.02
38 4 0.04
40 27 0.24
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.35
Consensus pattern (35 bp):
TGTGATATGTAGGTATGGTATCATCCATACTGAGT
Found at i:85467395 original size:75 final size:75
Alignment explanation
Indices: 85467269--85467439 Score: 201
Period size: 75 Copynumber: 2.4 Consensus size: 75
85467259 CATGGCAAAG
** * * *
85467269 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGATATGTAGGTATGGTATCATC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
*
85467329 CATACTGAGT
66 CATACCGAGT
* * **
85467339 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTATGTATGGCATTGCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
85467404 CATACCGAGT
66 CATACCGAGT
*
85467414 TGTAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
85467440 TGAGGAAAAC
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
70 17 0.20
73 4 0.05
74 4 0.05
75 59 0.70
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATCACC
CATACCGAGT
Found at i:85471280 original size:73 final size:73
Alignment explanation
Indices: 85471162--85471345 Score: 271
Period size: 73 Copynumber: 2.5 Consensus size: 73
85471152 TAACTTAGGT
* * * *
85471162 CACACGGCC-AGCCACATGCCCGTGTGCTAGGCCGTGTGGACAATTTAATTTTCAAAAATTAGGT
1 CACACGGCCAAGTCACACGCCCATGTGCTAGGCTGTGTGGACAATTTAATTTTCAAAAATTAGGT
*
85471226 GCAGGGGC
66 GCAAGGGC
85471234 CACACGGCCAAGTCACACGCCCATGTGCTAGGCTGTGTGGACAATTTAATTTTCAAAAATTAGGT
1 CACACGGCCAAGTCACACGCCCATGTGCTAGGCTGTGTGGACAATTTAATTTTCAAAAATTAGGT
*
85471299 GCAAGGGT
66 GCAAGGGC
* * * *
85471307 CACACAGCGAAGTCACACGCCCATATGCTAGGGTGTGTG
1 CACACGGCCAAGTCACACGCCCATGTGCTAGGCTGTGTG
85471346 ACACATATGG
Statistics
Matches: 101, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 9 0.09
73 92 0.91
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (73 bp):
CACACGGCCAAGTCACACGCCCATGTGCTAGGCTGTGTGGACAATTTAATTTTCAAAAATTAGGT
GCAAGGGC
Found at i:85472532 original size:23 final size:25
Alignment explanation
Indices: 85472517--85472568 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
85472507 AAGTTCAAGC
85472517 GAGCC-ATATCAGGAAGCTCACAAA
1 GAGCCTATATCAGGAAGCTCACAAA
* *
85472541 GAGCCTATATCAGGACGCTCATAAA
1 GAGCCTATATCAGGAAGCTCACAAA
85472566 GAG
1 GAG
85472569 TTGCGATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (25 bp):
GAGCCTATATCAGGAAGCTCACAAA
Found at i:85477082 original size:24 final size:24
Alignment explanation
Indices: 85477050--85477106 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
85477040 ATGATTTTAG
* *
85477050 TATTCATTTAAAATTAA-TTATT-A
1 TATTTATTT-AAATAAAGTTATTAA
85477073 TATTATATTTAAATAAAGTTATTAA
1 TATT-TATTTAAATAAAGTTATTAA
85477098 TATTTATTT
1 TATTTATTT
85477107 GTAAAACTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 10 0.34
24 14 0.48
25 5 0.17
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
TATTTATTTAAATAAAGTTATTAA
Found at i:85479839 original size:3 final size:3
Alignment explanation
Indices: 85479833--85479865 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
85479823 ATTGCAGCAG
85479833 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
85479866 CATGATTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:85483699 original size:16 final size:16
Alignment explanation
Indices: 85483678--85483714 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
85483668 AAAAATAAGT
85483678 AAAATAAAATGGATTA
1 AAAATAAAATGGATTA
*
85483694 AAAAT-AAGTGGATTA
1 AAAATAAAATGGATTA
85483709 AAAATA
1 AAAATA
85483715 TTATATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (16 bp):
AAAATAAAATGGATTA
Found at i:85501107 original size:45 final size:44
Alignment explanation
Indices: 85501057--85501141 Score: 143
Period size: 45 Copynumber: 1.9 Consensus size: 44
85501047 ACAAAACATG
85501057 TGTCATACATATCACGAACTCAGACCACAACTCAATGAGTTAGGA
1 TGTCATACATATCACGAACTCAGA-CACAACTCAATGAGTTAGGA
* *
85501102 TGTCATATATATCATGAACTCAGACACAACTCAATGAGTT
1 TGTCATACATATCACGAACTCAGACACAACTCAATGAGTT
85501142 CAGATTACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 16 0.42
45 22 0.58
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (44 bp):
TGTCATACATATCACGAACTCAGACACAACTCAATGAGTTAGGA
Found at i:85508069 original size:26 final size:24
Alignment explanation
Indices: 85508030--85508116 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 24
85508020 GGACTCACCA
* *
85508030 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGAAAGAGCTTACCGAT-T-T
*
85508056 CATCTCGAAAGAGCTTACCG-TTT
1 CAGCTCGAAAGAGCTTACCGATTT
85508079 CAGCTCGAAAGAGCTTACCGA--T
1 CAGCTCGAAAGAGCTTACCGATTT
85508101 CATGGCTCGAAAGAGC
1 CA--GCTCGAAAGAGC
85508117 ATAAATGATG
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.06
23 20 0.37
24 13 0.24
25 1 0.02
26 17 0.31
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (24 bp):
CAGCTCGAAAGAGCTTACCGATTT
Found at i:85519285 original size:23 final size:22
Alignment explanation
Indices: 85519250--85519293 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
85519240 TTAAAGGCTA
*
85519250 TTTTTATTATTAAGTTT-AATTT
1 TTTTTATAATTAA-TTTGAATTT
85519272 TTTTTATAATTTAATTTGAATT
1 TTTTTATAA-TTAATTTGAATT
85519294 ATCATTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (22 bp):
TTTTTATAATTAATTTGAATTT
Found at i:85519286 original size:17 final size:19
Alignment explanation
Indices: 85519249--85519288 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
85519239 TTTAAAGGCT
85519249 ATTTTTATTATTAAGTTTA
1 ATTTTTATTATTAAGTTTA
*
85519268 ATTTTTTTTA-TAA-TTTA
1 ATTTTTATTATTAAGTTTA
85519285 ATTT
1 ATTT
85519289 GAATTATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
ATTTTTATTATTAAGTTTA
Found at i:85519434 original size:42 final size:42
Alignment explanation
Indices: 85519382--85519467 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
85519372 TGTTTTATGG
*
85519382 TCTAAGTATAATCATATTTGAACGGGTGATATTTAGATAAAA
1 TCTAAATATAATCATATTTGAACGGGTGATATTTAGATAAAA
*
85519424 TCTAAATATAATCATATTTGAACGGGTGGTATTTAGATAAAA
1 TCTAAATATAATCATATTTGAACGGGTGATATTTAGATAAAA
85519466 TC
1 TC
85519468 CCCTCAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (42 bp):
TCTAAATATAATCATATTTGAACGGGTGATATTTAGATAAAA
Found at i:85521683 original size:18 final size:18
Alignment explanation
Indices: 85521614--85521686 Score: 78
Period size: 18 Copynumber: 4.1 Consensus size: 18
85521604 GCGAGCTTTA
* *
85521614 TATAACATGTGAACCATG
1 TATATCATGTGAACCCTG
*
85521632 TATATCATGCGAACCCTAGG
1 TATATCATGTGAACCCT--G
*
85521652 TAT-T-ATGAGAACCCTG
1 TATATCATGTGAACCCTG
85521668 TATATCATGTGAACCCTG
1 TATATCATGTGAACCCTG
85521686 T
1 T
85521687 GTATATTGCG
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
16 4 0.09
17 1 0.02
18 36 0.78
19 1 0.02
20 4 0.09
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (18 bp):
TATATCATGTGAACCCTG
Found at i:85521977 original size:22 final size:22
Alignment explanation
Indices: 85521952--85521997 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
85521942 AACCCTATGC
*
85521952 GTTATTCGTGCAAACCCTACAT
1 GTTATTCATGCAAACCCTACAT
* *
85521974 GTTATTTATGCGAACCCTACAT
1 GTTATTCATGCAAACCCTACAT
85521996 GT
1 GT
85521998 GGTATATACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (22 bp):
GTTATTCATGCAAACCCTACAT
Found at i:85522009 original size:22 final size:22
Alignment explanation
Indices: 85521964--85522011 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
85521954 TATTCGTGCA
* * *
85521964 AACCCTACATGTTATTTATGCG
1 AACCCTACATGTGATATATACG
*
85521986 AACCCTACATGTGGTATATACG
1 AACCCTACATGTGATATATACG
85522008 AACC
1 AACC
85522012 TTATTTGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (22 bp):
AACCCTACATGTGATATATACG
Found at i:85522060 original size:14 final size:14
Alignment explanation
Indices: 85522041--85522074 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
85522031 ACATATGTGG
*
85522041 GAACCCCTAGGTGC
1 GAACCCATAGGTGC
*
85522055 GAACCCATATGTGC
1 GAACCCATAGGTGC
85522069 GAACCC
1 GAACCC
85522075 TACTTATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.35, G:0.24, T:0.15
Consensus pattern (14 bp):
GAACCCATAGGTGC
Found at i:85523472 original size:11 final size:11
Alignment explanation
Indices: 85523440--85523474 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
85523430 TTTTTTCAAA
85523440 AATATTATTTT
1 AATATTATTTT
85523451 AATATGATATTTT
1 AATAT--TATTTT
85523464 AATATTATTTT
1 AATATTATTTT
85523475 GGTCCTTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (11 bp):
AATATTATTTT
Found at i:85528249 original size:7 final size:7
Alignment explanation
Indices: 85528237--85528262 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
85528227 AGAGCGAGCA
85528237 ATATGTG
1 ATATGTG
85528244 ATATGTG
1 ATATGTG
85528251 ATATGTG
1 ATATGTG
85528258 ATATG
1 ATATG
85528263 AGGTAGCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (7 bp):
ATATGTG
Found at i:85535640 original size:11 final size:10
Alignment explanation
Indices: 85535614--85535639 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
85535604 AAAGGTATAA
85535614 TAAAAATATT
1 TAAAAATATT
85535624 TAAAAATATT
1 TAAAAATATT
85535634 TAAAAA
1 TAAAAA
85535640 AAAAAGAGAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TAAAAATATT
Found at i:85549619 original size:3 final size:3
Alignment explanation
Indices: 85549611--85549635 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
85549601 AAACACAGTA
85549611 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
85549636 GGTCGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:85550002 original size:27 final size:27
Alignment explanation
Indices: 85549972--85550028 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
85549962 TAATTAATTT
85549972 ATTTAAGGAAAT-AATT-TTTAGTTGTTA
1 ATTTAAGGAAATAAATTATTTA-TT-TTA
85549999 ATTTAAGGAAATAAATTATTTATTTTA
1 ATTTAAGGAAATAAATTATTTATTTTA
85550026 ATT
1 ATT
85550029 GTTTTTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 18 0.64
28 6 0.21
29 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTAAGGAAATAAATTATTTATTTTA
Found at i:85556461 original size:16 final size:15
Alignment explanation
Indices: 85556442--85556484 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
85556432 ATATTTTAAT
*
85556442 GAAAAAATAAAATAC
1 GAAAAAATAAAACAC
85556457 GGAAAGAAATAAAACAC
1 -GAAA-AAATAAAACAC
85556474 GAAAATAATAA
1 GAAAA-AATAA
85556485 CTTTTTTGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 1 0.04
16 13 0.54
17 10 0.42
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.12
Consensus pattern (15 bp):
GAAAAAATAAAACAC
Found at i:85556666 original size:25 final size:25
Alignment explanation
Indices: 85556638--85556718 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 25
85556628 GAAACATTAT
*
85556638 ATACTAAAATAATATAAAAAATAAA
1 ATACAAAAATAATATAAAAAATAAA
*
85556663 ATACGAAAATAGGATATTTTAAAAAATAAA
1 ATACAAAAATA--ATA---TAAAAAATAAA
* * *
85556693 ATCCAAAAATAAAATAAATAATAAA
1 ATACAAAAATAATATAAAAAATAAA
85556718 A
1 A
85556719 ATAAACGGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
25 21 0.46
27 3 0.07
28 2 0.04
30 20 0.43
ACGTcount: A:0.68, C:0.05, G:0.04, T:0.23
Consensus pattern (25 bp):
ATACAAAAATAATATAAAAAATAAA
Found at i:85556747 original size:154 final size:153
Alignment explanation
Indices: 85556532--85557329 Score: 1205
Period size: 156 Copynumber: 5.2 Consensus size: 153
85556522 AAAATAATAT
* * * * * *
85556532 AAAAATAAAATACGAAAATAAAA-ATAA-AAAAGAACAAAGGGACAAAACCAGAGTTTTTTACTA
1 AAAAATAAAATCCGAAAATAAAATA-AATAAAAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
*
85556595 AATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATATACTAAAATAATATAAAAAAT
65 AATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAT
*
85556660 AAAATACGAAAATAGGATATTTTA
130 AAAATACGAAAATAGTATATTTTA
* *
85556684 AAAAATAAAATCCAAAAATAAAATAAATAATAAAAATAAACGGCCAAAACCAGAGTTTTTTACTA
1 AAAAATAAAATCCGAAAATAAAATAAATAA-AAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
85556749 AATTAATATAATAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA
65 AATTAATAT-A-AAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA
*
85556814 ATAAAATACAAAAATAGTATATTTTAA
128 ATAAAATACGAAAATAGTATATTTT-A
* *
85556841 AAAAATAAAATCCGAAATTAAAAT--A-AAAAAACT-AACGGCCAAAATCAGAGTTTTTTACTAA
1 AAAAATAAAATCCGAAAATAAAATAAATAAAAAAATAAACGGCCAAAATCAGAGTTTTTTACTAA
*
85556902 ATTAATATAAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAATAAT
66 ATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA-AAT
*
85556967 AAATTACGAAAATAGTATATTTT-
130 AAAATACGAAAATAGTATATTTTA
* * *
85556990 AAAAATAAAATCCAAAAATAAAATAAATAATAAAAACAAACGCCCAAAATCAGAGTTTTTTACTA
1 AAAAATAAAATCCGAAAATAAAATAAATAA-AAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
*
85557055 AATTAATATAAAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAA
65 AATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT--AAAAA
*
85557120 ATAAAATAAGAAAATAGTATATTTTA
128 ATAAAATACGAAAATAGTATATTTTA
* * *
85557146 AAAAATAAAATTCGAAAATAAAATAAATAAATAAATAAAATGGCCAAAATCAGAGTTTTTTACTA
1 AAAAATAAAATCCGAAAATAAAATAAATAAAAAAAT-AAACGGCCAAAATCAGAGTTTTTTACTA
* *
85557211 AATTAATATAAAATAATACTAAAATAATACATTTGAAACATTATGTAATAAAATAATATAAAAAA
65 AATTAATATAAAA-AACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAA
*
85557276 TAAAATATGAAAATAGTATATTTTA
129 TAAAATACGAAAATAGTATATTTTA
*
85557301 AAAAATAAAATTCGAAAATAAAATAAATA
1 AAAAATAAAATCCGAAAATAAAATAAATA
85557330 CCAAAATATA
Statistics
Matches: 596, Mismatches: 33, Indels: 31
0.90 0.05 0.05
Matches are distributed among these distances:
149 22 0.04
150 51 0.09
151 26 0.04
152 60 0.10
153 12 0.02
154 124 0.21
155 89 0.15
156 146 0.24
157 66 0.11
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (153 bp):
AAAAATAAAATCCGAAAATAAAATAAATAAAAAAATAAACGGCCAAAATCAGAGTTTTTTACTAA
ATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATA
AAATACGAAAATAGTATATTTTA
Found at i:85556957 original size:49 final size:49
Alignment explanation
Indices: 85556896--85557128 Score: 132
Period size: 49 Copynumber: 4.6 Consensus size: 49
85556886 CAGAGTTTTT
*
85556896 TACTAAATTAATATAAAAAATACTAAAATAATACATTTGAAACATTATG
1 TACTAAAATAATATAAAAAATACTAAAATAATACATTTGAAACATTATG
* * * * * * **
85556945 TACTAAAATAATATAAAATAATAAATTACGAAAATAGTATATTTTAAAAATAAAA
1 TACTAAAATAATAT---A-AA-AAA-TACTAAAATAATACATTTGAAACATTATG
* * * * * ***** * *
85557000 TCCAAAAATAAAATAAATAATA--AAAACAA-ACGCCCAAAATCAGAGTTTTT
1 TACTAAAATAATATAAAAAATACTAAAATAATACATTTGAAA-C--A-TTATG
* *
85557050 TACTAAATTAATATAAAAAAAACTAAAATAATACATTTGAAACATTATG
1 TACTAAAATAATATAAAAAATACTAAAATAATACATTTGAAACATTATG
*
85557099 TACTAAAATAATATAAAAAA-AATAAAATAA
1 TACTAAAATAATATAAAAAATACTAAAATAA
85557129 GAAAATAGTA
Statistics
Matches: 129, Mismatches: 42, Indels: 27
0.65 0.21 0.14
Matches are distributed among these distances:
46 4 0.03
47 5 0.04
48 9 0.07
49 38 0.29
50 20 0.16
51 2 0.02
52 9 0.07
53 7 0.05
54 3 0.02
55 32 0.25
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.28
Consensus pattern (49 bp):
TACTAAAATAATATAAAAAATACTAAAATAATACATTTGAAACATTATG
Found at i:85557136 original size:306 final size:307
Alignment explanation
Indices: 85556532--85557329 Score: 1266
Period size: 306 Copynumber: 2.6 Consensus size: 307
85556522 AAAATAATAT
* * * * *
85556532 AAAAATAAAATACGAAAATAAAAATAAAAAAGAACAAAGGGACAAAACCAGAGTTTTTTACTAAA
1 AAAAATAAAATACG-AAATTAAAATAAAAAAGAACTAACGGCCAAAATCAGAGTTTTTTACTAAA
* *
85556597 TTAATATAAAAAACACTAAAATAATACATTTGAAACATTATATACTAAAATAATATAAAAAATAA
65 TTAATATAAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAA
* * *
85556662 AATACGAAAATAGGATATTTTAAAAAATAAAATCCAAAAATAAAATAAATAATAAAAATAAACGG
130 AATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAATAATAAAAACAAACGC
85556727 CCAAAACCAGAGTTTTTTACTAAATTAATATAATAAAAACACTAAAATAATACATTTGAAACATT
195 CCAAAACCAGAGTTTTTTACTAAATTAATATAATAAAAACACTAAAATAATACATTTGAAACATT
85556792 ATGTACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTAA
260 ATGTACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTT-A
*
85556841 AAAAATAAAATCCGAAATTAAAAT-AAAAA-AACTAACGGCCAAAATCAGAGTTTTTTACTAAAT
1 AAAAATAAAATACGAAATTAAAATAAAAAAGAACTAACGGCCAAAATCAGAGTTTTTTACTAAAT
85556904 TAATATAAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAATAATAA
66 TAATATAAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA-AATAA
*
85556969 ATTACGAAAATAGTATATTTT-AAAAATAAAATCCAAAAATAAAATAAATAATAAAAACAAACGC
130 AATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAATAATAAAAACAAACGC
*
85557033 CCAAAATCAGAGTTTTTTACTAAATTAATATAA-AAAAA-ACTAAAATAATACATTTGAAACATT
195 CCAAAACCAGAGTTTTTTACTAAATTAATATAATAAAAACACTAAAATAATACATTTGAAACATT
85557096 ATGTACTAAAATAATATAAAAAAAATAAAATA-AGAAAATAGTATATTTTA
260 ATGTACTAAAATAATAT--AAAAAATAAAATACA-AAAATAGTATATTTTA
* * * * *
85557146 AAAAATAAAATTCGAAAATAAAATAAATAAATAAATAAAATGGCCAAAATCAGAGTTTTTTACTA
1 AAAAATAAAATACGAAATTAAAATAAA-AAAGAACT--AACGGCCAAAATCAGAGTTTTTTACTA
*
85557211 AATTAATATAAAATAATACTAAAATAATACATTTGAAACATTATGTAATAAAATAATATAAAAAA
63 AATTAATATAAAA-AATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAA
* * *
85557276 TAAAATATGAAAATAGTATATTTTAAAAAATAAAATTCGAAAATAAAATAAATA
127 TAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAATA
85557330 CCAAAATATA
Statistics
Matches: 456, Mismatches: 22, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
304 42 0.09
305 29 0.06
306 190 0.42
307 32 0.07
308 12 0.03
309 13 0.03
310 63 0.14
311 75 0.16
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (307 bp):
AAAAATAAAATACGAAATTAAAATAAAAAAGAACTAACGGCCAAAATCAGAGTTTTTTACTAAAT
TAATATAAAAAATACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAA
ATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAATAATAAAAACAAACGCC
CAAAACCAGAGTTTTTTACTAAATTAATATAATAAAAACACTAAAATAATACATTTGAAACATTA
TGTACTAAAATAATATAAAAAATAAAATACAAAAATAGTATATTTTA
Found at i:85557233 original size:11 final size:11
Alignment explanation
Indices: 85557206--85557240 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
85557196 CAGAGTTTTT
*
85557206 TACTAAATTAA
1 TACTAAAATAA
85557217 TA-TAAAATAA
1 TACTAAAATAA
85557227 TACTAAAATAA
1 TACTAAAATAA
85557238 TAC
1 TAC
85557241 ATTTGAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (11 bp):
TACTAAAATAA
Found at i:85563691 original size:18 final size:19
Alignment explanation
Indices: 85563663--85563698 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
85563653 AAAATTACAT
85563663 TTTCTTTTCTTTCTTCTCC
1 TTTCTTTTCTTTCTTCTCC
85563682 TTTC-TTTCTTTCTTCTC
1 TTTCTTTTCTTTCTTCTC
85563699 TTCTATTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTTTCTTTCTTCTCC
Found at i:85566943 original size:87 final size:88
Alignment explanation
Indices: 85566787--85566956 Score: 252
Period size: 87 Copynumber: 1.9 Consensus size: 88
85566777 ATTTAGGCCT
* * *
85566787 TATACATCAATTTGATTAAATTTAGTCTACGTAGTTTTCAATTTTTAAAATTTCAGTCCTCACCA
1 TATACATCAATTTGATCAAATTTAGTCTACGTAGTTTTCAAATTTTAAAATTTCAATCCTCACCA
85566852 AATGGTAACTATTAAATTGTCTA
66 AATGGTAACTATTAAATTGTCTA
* * ** *
85566875 TATACATCAATTTTATCAAATTTAGTC-ATGTAGTTTTCAAATTTTAAAATTTCAATCCTTGCCG
1 TATACATCAATTTGATCAAATTTAGTCTACGTAGTTTTCAAATTTTAAAATTTCAATCCTCACCA
*
85566939 AATGGTAATTATTAAATT
66 AATGGTAACTATTAAATT
85566957 TATTAAGTTA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 48 0.66
88 25 0.34
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.43
Consensus pattern (88 bp):
TATACATCAATTTGATCAAATTTAGTCTACGTAGTTTTCAAATTTTAAAATTTCAATCCTCACCA
AATGGTAACTATTAAATTGTCTA
Found at i:85567417 original size:16 final size:16
Alignment explanation
Indices: 85567380--85567415 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
85567370 TAGAGTGAAA
85567380 GAAAATTGAAAAGATG
1 GAAAATTGAAAAGATG
*
85567396 GAAAATTGAAATG-TG
1 GAAAATTGAAAAGATG
85567411 GAAAA
1 GAAAA
85567416 ATAAAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (16 bp):
GAAAATTGAAAAGATG
Found at i:85569722 original size:5 final size:6
Alignment explanation
Indices: 85569704--85569729 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
85569694 TATGTGGTTA
85569704 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
85569730 GGGAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:85570425 original size:21 final size:20
Alignment explanation
Indices: 85570363--85570427 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
85570353 ACATGGGCTA
**
85570363 TTCACACGGGCGTGTGCCCC
1 TTCACACGGGCGTGTGGGCC
* * *
85570383 CTCTACACGGGTGTATGGGGCC
1 TTC-ACACGGGCGTGT-GGGCC
85570405 TTCACACGGGCGTGTGTGGCC
1 TTCACACGGGCGTGTG-GGCC
85570426 TT
1 TT
85570428 TACATGGGCA
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
20 3 0.09
21 26 0.76
22 5 0.15
ACGTcount: A:0.11, C:0.31, G:0.34, T:0.25
Consensus pattern (20 bp):
TTCACACGGGCGTGTGGGCC
Done.