Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 306 of 378
Found at i:92845567 original size:26 final size:26
Alignment explanation
Indices: 92845531--92845640 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
92845521 CATGAAATTC
92845531 TTATCATGAAACATTTACCTAATCC-A
1 TTATCATGAAACATTTACCTAA-CCTA
*
92845557 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
92845583 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
92845609 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
92845635 TTATCA
1 TTATCA
92845641 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 2 0.02
26 79 0.98
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:92850663 original size:243 final size:243
Alignment explanation
Indices: 92850235--92850721 Score: 947
Period size: 243 Copynumber: 2.0 Consensus size: 243
92850225 AGTTTAAGAT
92850235 TTTTCTATGGATGTAATTGTGATAGATGCTGAGTTTTTATGGAGGAATATGAGTCCTAGTTATGC
1 TTTTCTATGGATGTAATTGTGATAGATGCTGAGTTTTTATGGAGGAATATGAGTCCTAGTTATGC
92850300 TATAAGCAACTTTTGAAAAAGGTGTTAGCTTGAAAACACCTAAAGGAACCATTTTGCATAAGTTG
66 TATAAGCAACTTTTGAAAAAGGTGTTAGCTTGAAAACACCTAAAGGAACCATTTTGCATAAGTTG
92850365 CAAAATAGGTAATAAGTGTATGAAATAGTGAGAATTTGGGGTTGCTATAAGAGTAAAAAGAGTTT
131 CAAAATAGGTAATAAGTGTATGAAATAGTGAGAATTTGGGGTTGCTATAAGAGTAAAAAGAGTTT
*
92850430 AGCTAGGCTTGAAATACGAAGAAATTTGATAAAAAGCGATTTCGAATA
196 AGCTAGGCTTGAAATACGAAGAAATTTGATAAAAAACGATTTCGAATA
*
92850478 TTTTCTATGGATGTAATTGTGATAGATGCTGAGTTTTTATGGAGGAATATGAGTCCTAGTTGTGC
1 TTTTCTATGGATGTAATTGTGATAGATGCTGAGTTTTTATGGAGGAATATGAGTCCTAGTTATGC
92850543 TATAAGCAACTTTTGAAAAAGGTGTTAGCTTGAAAACACCTAAAGGAACCATTTTGCATAAGTTG
66 TATAAGCAACTTTTGAAAAAGGTGTTAGCTTGAAAACACCTAAAGGAACCATTTTGCATAAGTTG
92850608 CAAAATAGGTAATAAGTGTATGAAATAGTGAGAATTTGGGGTTGCTATAAGAGTAAAAAGAGTTT
131 CAAAATAGGTAATAAGTGTATGAAATAGTGAGAATTTGGGGTTGCTATAAGAGTAAAAAGAGTTT
*
92850673 AGCTAGGCTTGAAATATGAAGAAATTTGATAAAAAACGATTTCGAATA
196 AGCTAGGCTTGAAATACGAAGAAATTTGATAAAAAACGATTTCGAATA
92850721 T
1 T
92850722 AGGGGTAAAA
Statistics
Matches: 241, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
243 241 1.00
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.32
Consensus pattern (243 bp):
TTTTCTATGGATGTAATTGTGATAGATGCTGAGTTTTTATGGAGGAATATGAGTCCTAGTTATGC
TATAAGCAACTTTTGAAAAAGGTGTTAGCTTGAAAACACCTAAAGGAACCATTTTGCATAAGTTG
CAAAATAGGTAATAAGTGTATGAAATAGTGAGAATTTGGGGTTGCTATAAGAGTAAAAAGAGTTT
AGCTAGGCTTGAAATACGAAGAAATTTGATAAAAAACGATTTCGAATA
Found at i:92851161 original size:47 final size:46
Alignment explanation
Indices: 92851085--92851452 Score: 205
Period size: 47 Copynumber: 7.8 Consensus size: 46
92851075 TTGGGTTATG
92851085 TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGA
* * * * *
92851133 TGAGGGCTAGTGTAAGACGTGTCTGGGACATGCATCAGCCACATT-ACA
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATC-G--GCATTGAGA
* * * *
92851181 --ATAGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGGCGTAGAGA
1 TGAGAGCCAGTGTAA-GACATGTCTGGGACAT-GCATCGGCATTGAGA
* *
92851227 T-AGATGCCAGTGTAAGACATGTCTGGGATATGCATCGGC-TTCA-A
1 TGAGA-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA
* * * * * * *
92851271 TGATGGTAACCAGTGTAAGACGTGTGTAGGACATGCATCAGC--TAAGC
1 TGA--G-AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA
** * * * * * *
92851318 TTCGTGCTAATGTAAGACATGTCTGGGACATGCATCAGCACTTATACA
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCA-TT-GAGA
* * * * * *
92851366 CGAGAGCTAGTGTAAGACCATGTCTGGGATATGGCATCAGCCTCGATGA
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGA-GA
* *
92851415 AGATAGCCAGTGTAAGAACATGTC-GGGACATGGCATCG
1 TGAGAGCCAGTGTAAG-ACATGTCTGGGACAT-GCATCG
92851453 ACAACTTAAC
Statistics
Matches: 245, Mismatches: 54, Indels: 42
0.72 0.16 0.12
Matches are distributed among these distances:
44 30 0.12
45 6 0.02
46 27 0.11
47 76 0.31
48 59 0.24
49 38 0.16
50 9 0.04
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA
Found at i:92851200 original size:94 final size:94
Alignment explanation
Indices: 92851089--92851451 Score: 287
Period size: 94 Copynumber: 3.9 Consensus size: 94
92851079 GTTATGTGAG
* * *
92851089 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT-GAGGGCTAGTGTAAGACGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATAGA-GGCCAGTGTAAGACAT
92851153 GTCTGGGACATGCATCAGCCACATTACAAT
65 GTCTGGGACATGCATCAGCCACATTACAAT
* * *
92851183 AGCCAGTGTAAGGCCATGTCTGGGACATGGCATCGGCGTAGAGATAGATGCCAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATAGAGGCCAGTGTAAGACATG
* * * ***
92851248 TCTGGGATATGCATCGGCTTCA-ATGATGGT
66 TCTGGGACATGCATCAGC--CACATTACAAT
* * * * * * * * * *
92851278 AACCAGTGTAAGA-CGTGTGTAGGACAT-GCATCAGC-TA-AGCTTCG-TGCTAATGTAAGACAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAG-ATAGAGGCCAGTGTAAGACAT
* *
92851338 GTCTGGGACATGCATCAG-CACTTATACACGAG
65 GTCTGGGACATGCATCAGCCACAT-TACA--AT
* * * * * *
92851370 AGCTAGTGTAAGACCATGTCTGGGATATGGCATCAGCCTCGATGA-AGATAGCCAGTGTAAGAAC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGA-GATAGA-GGCCAGTGTAAG-AC
92851434 ATGTC-GGGACATGGCATC
63 ATGTCTGGGACAT-GCATC
92851452 GACAACTTAA
Statistics
Matches: 210, Mismatches: 42, Indels: 30
0.74 0.15 0.11
Matches are distributed among these distances:
88 2 0.01
89 1 0.00
90 1 0.00
91 32 0.15
92 15 0.07
93 17 0.08
94 91 0.43
95 19 0.09
96 3 0.01
97 17 0.08
98 12 0.06
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATAGAGATAGAGGCCAGTGTAAGACATG
TCTGGGACATGCATCAGCCACATTACAAT
Found at i:92860211 original size:40 final size:40
Alignment explanation
Indices: 92860137--92860314 Score: 191
Period size: 40 Copynumber: 4.5 Consensus size: 40
92860127 GAGTCACGTA
** *
92860137 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * *
92860176 CCTTCGGGTCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
92860216 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
92860256 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
92860296 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
92860315 GTATCATTCA
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:92864085 original size:7 final size:7
Alignment explanation
Indices: 92864070--92864176 Score: 71
Period size: 7 Copynumber: 15.4 Consensus size: 7
92864060 TTAATTATTA
*
92864070 TTATAGT
1 TTATGGT
*
92864077 TTAGGGT
1 TTATGGT
92864084 TTATGGT
1 TTATGGT
92864091 TTATGGT
1 TTATGGT
*
92864098 ATATGGT
1 TTATGGT
92864105 TTATGG-
1 TTATGGT
*
92864111 TT-TGCT
1 TTATGGT
92864117 TTATGAGT
1 TTATG-GT
92864125 TACTAT--T
1 T--TATGGT
*
92864132 TTAAGG-
1 TTATGGT
*
92864138 TTATGGA
1 TTATGGT
92864145 TTATGGGT
1 TTAT-GGT
* *
92864153 TTAGGGA
1 TTATGGT
92864160 TTATGGT
1 TTATGGT
92864167 TTATGGT
1 TTATGGT
92864174 TTA
1 TTA
92864177 AGGGTTGTGT
Statistics
Matches: 77, Mismatches: 14, Indels: 18
0.71 0.13 0.17
Matches are distributed among these distances:
5 4 0.05
6 9 0.12
7 54 0.70
8 7 0.09
10 3 0.04
ACGTcount: A:0.21, C:0.02, G:0.27, T:0.50
Consensus pattern (7 bp):
TTATGGT
Found at i:92864092 original size:14 final size:14
Alignment explanation
Indices: 92864070--92864225 Score: 54
Period size: 14 Copynumber: 11.1 Consensus size: 14
92864060 TTAATTATTA
*
92864070 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
92864084 TTATGGTTTATGGT
1 TTATGGTTTAGGGT
* *
92864098 ATATGGTTTATGG-
1 TTATGGTTTAGGGT
* *
92864111 TT-TGCTTTATGAGT
1 TTATGGTTTA-GGGT
*
92864125 TACTAT--TTTAAGG-
1 T--TATGGTTTAGGGT
*
92864138 TTATGGATTATGGGT
1 TTATGGTTTA-GGGT
* * *
92864153 TTAGGGATTATGGT
1 TTATGGTTTAGGGT
92864167 TTATGGTTTAAGGG-
1 TTATGGTTT-AGGGT
* * *
92864181 TTGTGTTTTAAGGT
1 TTATGGTTTAGGGT
* * *
92864195 TTAGGGGTTAAGGCT
1 TTA-TGGTTTAGGGT
*
92864210 TTAGGGTTTAGGGT
1 TTATGGTTTAGGGT
92864224 TT
1 TT
92864226 GAGGGATAGT
Statistics
Matches: 103, Mismatches: 27, Indels: 24
0.67 0.18 0.16
Matches are distributed among these distances:
11 3 0.03
12 6 0.06
13 9 0.09
14 58 0.56
15 25 0.24
16 1 0.01
17 1 0.01
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:92864221 original size:7 final size:7
Alignment explanation
Indices: 92864149--92864255 Score: 58
Period size: 7 Copynumber: 15.0 Consensus size: 7
92864139 TATGGATTAT
92864149 GGGTTTA
1 GGGTTTA
*
92864156 GGGATTA
1 GGGTTTA
*
92864163 TGGTTTA
1 GGGTTTA
*
92864170 TGGTTTAA
1 GGGTTT-A
92864178 GGG-TT-
1 GGGTTTA
*
92864183 GTGTTTTA
1 G-GGTTTA
*
92864191 AGGTTTA
1 GGGTTTA
*
92864198 GGGGTTAA
1 -GGGTTTA
*
92864206 GGCTTTA
1 GGGTTTA
92864213 GGGTTTA
1 GGGTTTA
92864220 GGGTTTGA
1 GGGTTT-A
*
92864228 GGG-ATA
1 GGGTTTA
*
92864234 GTGGTTAA
1 G-GGTTTA
*
92864242 GGATTTA
1 GGGTTTA
92864249 GGGTTTA
1 GGGTTTA
92864256 TATTAATTTT
Statistics
Matches: 74, Mismatches: 18, Indels: 16
0.69 0.17 0.15
Matches are distributed among these distances:
5 1 0.01
6 3 0.04
7 56 0.76
8 14 0.19
ACGTcount: A:0.20, C:0.01, G:0.38, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:92864664 original size:17 final size:18
Alignment explanation
Indices: 92864642--92864675 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92864632 TACTAATTTT
92864642 AATATA-TTAAAATTATC
1 AATATAGTTAAAATTATC
*
92864659 AATATAGTTTAAATTAT
1 AATATAGTTAAAATTAT
92864676 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (18 bp):
AATATAGTTAAAATTATC
Found at i:92867755 original size:18 final size:18
Alignment explanation
Indices: 92867703--92867748 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
92867693 ATATAAGAAA
*
92867703 TATTAATTTAAATGTAAG
1 TATTAATTTAAATATAAG
92867721 TATTAATTTAAATATAAG
1 TATTAATTTAAATATAAG
92867739 TATTTAATTT
1 TA-TTAATTT
92867749 GATATAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (18 bp):
TATTAATTTAAATATAAG
Found at i:92869423 original size:19 final size:19
Alignment explanation
Indices: 92869400--92869442 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
92869390 ATTTAATCTA
*
92869400 ATTTTT-ATTATTTATTTT
1 ATTTTTGATTATATATTTT
*
92869418 ATTTTTGATTCTATATTTT
1 ATTTTTGATTATATATTTT
92869437 ATTTTT
1 ATTTTT
92869443 ATTTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (19 bp):
ATTTTTGATTATATATTTT
Found at i:92869452 original size:19 final size:18
Alignment explanation
Indices: 92869370--92869454 Score: 68
Period size: 18 Copynumber: 4.7 Consensus size: 18
92869360 GGACTTGCTG
* *
92869370 TATTTTAT-TTATATCTT
1 TATTTTATATTTTATTTT
* *
92869387 TATATTTA-ATCTAATTTT
1 TAT-TTTATATTTTATTTT
92869405 TATTATT-TATTTTATTTT
1 TATT-TTATATTTTATTTT
*
92869423 TGATTCTATATTTTATTTT
1 T-ATTTTATATTTTATTTT
92869442 TATTTTAATATTT
1 TATTTT-ATATTT
92869455 AAGATAACTT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
17 4 0.08
18 28 0.53
19 21 0.40
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (18 bp):
TATTTTATATTTTATTTT
Found at i:92869703 original size:18 final size:17
Alignment explanation
Indices: 92869673--92869706 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
92869663 TCATAGAAAT
92869673 AAATATTTATTTAATTA
1 AAATATTTATTTAATTA
*
92869690 AAATAATTTTTTTAATT
1 AAAT-ATTTATTTAATT
92869707 TTAGCAGCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATATTTATTTAATTA
Found at i:92869767 original size:43 final size:43
Alignment explanation
Indices: 92869706--92869833 Score: 184
Period size: 43 Copynumber: 3.0 Consensus size: 43
92869696 TTTTTTTAAT
*
92869706 TTTAGCAGCGTTTGTGGGAAAAGCGGCGCTAAAGATCATGTTC
1 TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
** *
92869749 TTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
** * *
92869792 TTTAGCAGCGTTTGTGGGAAAAATGCCGATAAAGGTCATGTT
1 TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTT
92869834 TTATAGCGGT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGTTC
Found at i:92871854 original size:25 final size:24
Alignment explanation
Indices: 92871819--92871869 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
92871809 AGTTCAAGTA
92871819 AGCCATATCAGGAAGCTCACAAAG
1 AGCCATATCAGGAAGCTCACAAAG
* *
92871843 AGCCTATATCAGGATGCTCATAAAG
1 AGCC-ATATCAGGAAGCTCACAAAG
92871868 AG
1 AG
92871870 TTGCGGTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (24 bp):
AGCCATATCAGGAAGCTCACAAAG
Found at i:92881334 original size:3 final size:3
Alignment explanation
Indices: 92881328--92881384 Score: 53
Period size: 3 Copynumber: 18.3 Consensus size: 3
92881318 TAATACGTCA
* * *
92881328 AAT AAT AAA AATT AAT AAT AAT AAT AA- AAGT AAT GAT AAT AAT AAG
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
92881374 AAT ATAT AAT A
1 AAT A-AT AAT A
92881385 TATAGTATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 2 0.05
3 35 0.80
4 7 0.16
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:92881361 original size:18 final size:18
Alignment explanation
Indices: 92881328--92881372 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
92881318 TAATACGTCA
*
92881328 AATAATAAAAATTAATAAT
1 AATAAT-AAAAGTAATAAT
*
92881347 AATAATAAAAGTAATGAT
1 AATAATAAAAGTAATAAT
92881365 AATAATAA
1 AATAATAA
92881373 GAATATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AATAATAAAAGTAATAAT
Found at i:92881741 original size:2 final size:2
Alignment explanation
Indices: 92881679--92881725 Score: 62
Period size: 2 Copynumber: 23.5 Consensus size: 2
92881669 ATGTACCATA
92881679 AT AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT -T ACT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
92881721 AT AT A
1 AT AT A
92881726 AAGGGTATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
1 2 0.05
2 35 0.85
3 4 0.10
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:92881833 original size:30 final size:30
Alignment explanation
Indices: 92881782--92881839 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
92881772 ATAACAATAA
*
92881782 TATGATATAAAAGTATATATATATATATAT
1 TATGATATAAAAGTACATATATATATATAT
* *
92881812 TATGATATTAAAAG-ACGTATATGTATAT
1 TATGATA-TAAAAGTACATATATATATAT
92881840 TAGGAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (30 bp):
TATGATATAAAAGTACATATATATATATAT
Found at i:92881852 original size:3 final size:3
Alignment explanation
Indices: 92881844--92881901 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
92881834 GTATATTAGG
92881844 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
92881892 AAT AAT AAT A
1 AAT AAT AAT A
92881902 CTATATAGAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:92883963 original size:44 final size:44
Alignment explanation
Indices: 92883908--92884555 Score: 222
Period size: 44 Copynumber: 14.9 Consensus size: 44
92883898 ATCTATTCCT
* *
92883908 TACTGCTTAGGGGATTAAGATCTTGTAAATTCAGCCTGTTACCC
1 TACTGCTTAGGGGTTTAAGATCTTGTAAAATCAGCCTGTTACCC
*
92883952 TACTACTTAGGGGTTTAAGATCTTGTAAAATCAGCCTGTTACCC
1 TACTGCTTAGGGGTTTAAGATCTTGTAAAATCAGCCTGTTACCC
* ** * * *** * **
92883996 TACTGCTTAAGGGTTTAAGGCCCAT-CACCTTC-GATCTGTTTTCC
1 TACTGCTTAGGGGTTTAA-GATCTTGTAAAATCAG-CCTGTTACCC
** * * *** * * *
92884040 TACTGCTTAGGGGTTTAAGGCCCAT-CACCTTC-GATCTATTTCCC
1 TACTGCTTAGGGGTTTAA-GATCTTGTAAAATCAG-CCTGTTACCC
* *
92884084 TACTGCTTAGGGG-TTAAGATCTTGTAAATTCAACCTGTTACCC
1 TACTGCTTAGGGGTTTAAGATCTTGTAAAATCAGCCTGTTACCC
* * *** * *
92884127 TAATGCTTAGGGGTTTAAGGTCCATTG--CCTTC-GATCTGTTTCCC
1 TACTGCTTAGGGGTTTAAGAT-C-TTGTAAAATCAG-CCTGTTACCC
* * *
92884171 TACTGCTTAGGGG-TTAAGATC-TATAAATTTAGCCTGTTACCC
1 TACTGCTTAGGGGTTTAAGATCTTGTAAAATCAGCCTGTTACCC
** * * *** ** * *
92884213 TACTGCTTAGGGGTTTAAGGCCCAT-CATCTTCAATCTATTTCCC
1 TACTGCTTAGGGGTTTAA-GATCTTGTAAAATCAGCCTGTTACCC
* * * * *
92884257 TACTGTTTAGGGGGTTAAGATC-TGTAAATTTAGCCTGCTACCC
1 TACTGCTTAGGGGTTTAAGATCTTGTAAAATCAGCCTGTTACCC
** * * *** * * *
92884300 TACTGCTTAGGGGTTTAAGGCCCAT-CACCTTC-GATCTATTTCCC
1 TACTGCTTAGGGGTTTAA-GATCTTGTAAAATCAG-CCTGTTACCC
* * *
92884344 TACTGCTTAGGGGGTTAAGATCTTGTAAATTCAGCCTGTTACTC
1 TACTGCTTAGGGGTTTAAGATCTTGTAAAATCAGCCTGTTACCC
* ** * *** * *
92884388 TACTGCTTAGGGTTTTAAGGCCCATCG--CCTTC-GATCTGTTTCCC
1 TACTGCTTAGGGGTTTAA-GATC-TTGTAAAATCAG-CCTGTTACCC
* * *
92884432 TACTGCTTAGGGAG-TTGAGATC-TGTAAATTTAGCCTGTTACCC
1 TACTGCTTAGGG-GTTTAAGATCTTGTAAAATCAGCCTGTTACCC
* * *** ** *
92884475 TACTGCTTAGGGGTTTAAGACTCAT-CATCTTCAATCTGTTTCCC
1 TACTGCTTAGGGGTTTAAGA-TCTTGTAAAATCAGCCTGTTACCC
* * *
92884519 TACTGCTTAGGGGGTTAAGAT-TTGTAAATTTAGCCTG
1 TACTGCTTAGGGGTTTAAGATCTTGTAAAATCAGCCTG
92884556 CTCCACTGCA
Statistics
Matches: 448, Mismatches: 125, Indels: 63
0.70 0.20 0.10
Matches are distributed among these distances:
40 1 0.00
41 1 0.00
42 30 0.07
43 109 0.24
44 292 0.65
45 10 0.02
46 5 0.01
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (44 bp):
TACTGCTTAGGGGTTTAAGATCTTGTAAAATCAGCCTGTTACCC
Found at i:92884146 original size:87 final size:87
Alignment explanation
Indices: 92883853--92884555 Score: 821
Period size: 87 Copynumber: 8.1 Consensus size: 87
92883843 TATAATTTTT
* *
92883853 AGCCTGTTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTA-TTCCTTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTTA
92883917 GGGGATTAAGATCTTGTAAATTC
66 GGGG-TTAAGATCTTGTAAATTC
* ** * * *** * * *
92883940 AGCCTGTTACCCTACTACTTAGGGGTTTAA-GATCTTGTAAAATC-AGCCTGTTACCCTACTGCT
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCAT-CACCTTCGA-TCTATTTCCCTACTGCT
* ** * * **
92884003 TAAGGGTTTAAGGCCCAT-CACCTTC
64 T-AGGGGTTAA-GATCTTGTAAATTC
* **
92884028 -GATCTGTTTTCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTT
1 AG-CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTT
92884092 AGGGGTTAAGATCTTGTAAATTC
65 AGGGGTTAAGATCTTGTAAATTC
* * * ** *
92884115 AACCTGTTACCCTAATGCTTAGGGGTTTAAGGTCCATTGCCTTCGATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTTA
* *
92884180 GGGGTTAAGATC-TATAAATTT
66 GGGGTTAAGATCTTGTAAATTC
* * *
92884201 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCAATCTATTTCCCTACTGTTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTTA
*
92884266 GGGGGTTAAGATC-TGTAAATTT
66 -GGGGTTAAGATCTTGTAAATTC
*
92884288 AGCCTGCTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTTA
92884353 GGGGGTTAAGATCTTGTAAATTC
66 -GGGGTTAAGATCTTGTAAATTC
* * * *
92884376 AGCCTGTTACTCTACTGCTTAGGGTTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTTA
* *
92884441 GGGAGTTGAGATC-TGTAAATTT
66 GGG-GTTAAGATCTTGTAAATTC
* * * * *
92884463 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTCATCATCTTCAATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTTA
*
92884528 GGGGGTTAAGAT-TTGTAAATTT
66 -GGGGTTAAGATCTTGTAAATTC
92884550 AGCCTG
1 AGCCTG
92884556 CTCCACTGCA
Statistics
Matches: 519, Mismatches: 82, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
86 70 0.13
87 298 0.57
88 140 0.27
89 11 0.02
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (87 bp):
AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTTA
GGGGTTAAGATCTTGTAAATTC
Found at i:92884538 original size:175 final size:175
Alignment explanation
Indices: 92883853--92884555 Score: 850
Period size: 175 Copynumber: 4.0 Consensus size: 175
92883843 TATAATTTTT
* *
92883853 AGCCTGTTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTA-TTCCTTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTTA
* * * **
92883917 GGGGATTAAGATCTTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGA-TCTTGTAAA
66 GGGG-TTAAGATCTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTCAT-CACC
* ** * * * ** * * **
92883981 ATCAGCCTGTTACCCTACTGCTTAAGGGTTTAAGGCCCAT-CACCTTC
129 TTCAATCTGTTTCCCTACTGCTTAGGGGGTTAA-GATCTTGTAAATTC
* **
92884028 -GATCTGTTTTCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTT
1 AG-CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTT
* * * **
92884092 AGGGGTTAAGATCTTGTAAATTCAACCTGTTACCCTAATGCTTAGGGGTTTAAG-GTCCATTGCC
65 AGGGGTTAAGATCTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACT-CATCACC
* * *
92884156 TTCGATCTGTTTCCCTACTGCTTA-GGGGTTAAGATC-TATAAATTT
129 TTCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTC
* * *
92884201 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCAATCTATTTCCCTACTGTTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTTA
* * * *
92884266 GGGGGTTAAGATC-TGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCT
66 -GGGGTTAAGATCTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTCATCACCT
* *
92884330 TCGATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTC
130 TCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTC
* * * *
92884376 AGCCTGTTACTCTACTGCTTAGGGTTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTA
1 AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTTA
* * *
92884441 GGGAGTTGAGATC-TGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTCATCATCT
66 GGG-GTTAAGATCTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTCATCACCT
*
92884505 TCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGAT-TTGTAAATTT
130 TCAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTC
92884550 AGCCTG
1 AGCCTG
92884556 CTCCACTGCA
Statistics
Matches: 461, Mismatches: 56, Indels: 23
0.85 0.10 0.04
Matches are distributed among these distances:
172 1 0.00
173 126 0.27
174 51 0.11
175 264 0.57
176 19 0.04
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (175 bp):
AGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTATTTCCCTACTGCTTA
GGGGTTAAGATCTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACTCATCACCTT
CAATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTGTAAATTC
Found at i:92884639 original size:44 final size:44
Alignment explanation
Indices: 92884534--92884642 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 44
92884524 CTTAGGGGGT
92884534 TAAGATTTGTAAATTT-AGCCTGCTCCACTGCAACTTCAAGGAGA
1 TAAGATTTGT-AATTTCAGCCTGCTCCACTGCAACTTCAAGGAGA
* * * * *
92884578 TGAGACTTGTAACTTCAGTCTGCTCCACTGC-ACTTCAGGGAGA
1 TAAGATTTGTAATTTCAGCCTGCTCCACTGCAACTTCAAGGAGA
92884621 TAAGATTTGTAATTTTCAGCCT
1 TAAGATTTGTAA-TTTCAGCCT
92884643 ATTACCCTAC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 25 0.46
44 29 0.54
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
TAAGATTTGTAATTTCAGCCTGCTCCACTGCAACTTCAAGGAGA
Found at i:92888151 original size:28 final size:28
Alignment explanation
Indices: 92888105--92888173 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
92888095 TTTAAAACCC
*
92888105 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
92888132 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
92888160 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
92888174 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:92889806 original size:20 final size:20
Alignment explanation
Indices: 92889783--92889820 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
92889773 CACATCCAAA
*
92889783 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
92889803 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
92889821 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:92896054 original size:28 final size:28
Alignment explanation
Indices: 92896008--92896076 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
92895998 TTTAAAACCC
*
92896008 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
92896035 TAGGGGTAATTTCGGTAATTTTGCTTTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
92896063 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
92896077 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:92896216 original size:11 final size:11
Alignment explanation
Indices: 92896200--92896236 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
92896190 AAGCCCATTG
92896200 GGCCCAGTTTT
1 GGCCCAGTTTT
*
92896211 GGCCCA--TTG
1 GGCCCAGTTTT
92896220 GGCCCAGTTTT
1 GGCCCAGTTTT
92896231 GGCCCA
1 GGCCCA
92896237 TCGAGCCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.11, C:0.32, G:0.30, T:0.27
Consensus pattern (11 bp):
GGCCCAGTTTT
Found at i:92896217 original size:20 final size:20
Alignment explanation
Indices: 92896192--92896237 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
92896182 TGGTCCGTAA
92896192 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCAGTTTTG
92896212 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCAGTTTTG
92896232 GCCCAT
1 GCCCAT
92896238 CGAGCCCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.11, C:0.33, G:0.28, T:0.28
Consensus pattern (20 bp):
GCCCATTGGGCCCAGTTTTG
Found at i:92896250 original size:20 final size:20
Alignment explanation
Indices: 92896201--92896244 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
92896191 AGCCCATTGG
* *
92896201 GCCCAGTTTTGGCCCATTGG
1 GCCCAGTTTTGGCCCATCGA
92896221 GCCCAGTTTTGGCCCATCGA
1 GCCCAGTTTTGGCCCATCGA
92896241 GCCC
1 GCCC
92896245 CTTTTTCCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.36, G:0.27, T:0.25
Consensus pattern (20 bp):
GCCCAGTTTTGGCCCATCGA
Found at i:92902200 original size:20 final size:18
Alignment explanation
Indices: 92902175--92902211 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
92902165 ATTGCTAAGT
92902175 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
92902195 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
92902212 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:92906616 original size:9 final size:9
Alignment explanation
Indices: 92906598--92906646 Score: 84
Period size: 9 Copynumber: 5.7 Consensus size: 9
92906588 TGCAATGCTG
92906598 ATGC-ATGA
1 ATGCAATGA
92906606 ATGCAATGA
1 ATGCAATGA
92906615 ATGC-ATGA
1 ATGCAATGA
92906623 ATGCAATGA
1 ATGCAATGA
92906632 ATGCAATGA
1 ATGCAATGA
92906641 ATGCAA
1 ATGCAA
92906647 AAAAACGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
8 12 0.31
9 27 0.69
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:92906620 original size:17 final size:17
Alignment explanation
Indices: 92906598--92906646 Score: 89
Period size: 17 Copynumber: 2.8 Consensus size: 17
92906588 TGCAATGCTG
92906598 ATGCATGAATGCAATGA
1 ATGCATGAATGCAATGA
92906615 ATGCATGAATGCAATGA
1 ATGCATGAATGCAATGA
92906632 ATGCAATGAATGCAA
1 ATGC-ATGAATGCAA
92906647 AAAAACGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 21 0.68
18 10 0.32
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (17 bp):
ATGCATGAATGCAATGA
Found at i:92906759 original size:20 final size:20
Alignment explanation
Indices: 92906722--92906759 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
92906712 AATAGATTAC
*
92906722 ATATAAGGCTTGGCCCTGAT
1 ATATAAGGCTTGGACCTGAT
92906742 ATATAAGGCCTT-GACCTG
1 ATATAAGG-CTTGGACCTG
92906760 CCTAAGAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (20 bp):
ATATAAGGCTTGGACCTGAT
Found at i:92910478 original size:18 final size:19
Alignment explanation
Indices: 92910445--92910487 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
92910435 TAATACGTCA
*
92910445 AATAATAAAAATTAATAAT
1 AATAATAAAAAGTAATAAT
*
92910464 AATAAT-AAAAGTAATGAT
1 AATAATAAAAAGTAATAAT
92910482 AATAAT
1 AATAAT
92910488 GAGAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AATAATAAAAAGTAATAAT
Found at i:92910908 original size:2 final size:2
Alignment explanation
Indices: 92910901--92910934 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
92910891 GATATAAAAG
92910901 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
92910935 TAAAAGACGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:92910967 original size:3 final size:3
Alignment explanation
Indices: 92910959--92910992 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
92910949 GTATATTAGG
92910959 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
92910993 CTATATAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:92915322 original size:26 final size:26
Alignment explanation
Indices: 92915286--92915369 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
92915276 CATGAAATTC
92915286 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
92915312 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * * *
92915338 TTATTATGGAACATTTATCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
92915364 TTATCA
1 TTATCA
92915370 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.23, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:92917376 original size:33 final size:33
Alignment explanation
Indices: 92917339--92917405 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
92917329 ATTTGGTCCA
*
92917339 ATTTTC-AATCTATATAATAATTCAATTCAATTC
1 ATTTTCGAA-CTATACAATAATTCAATTCAATTC
92917372 ATTTTCGAACTATACAATAATTCAATTCAATTC
1 ATTTTCGAACTATACAATAATTCAATTCAATTC
92917405 A
1 A
92917406 ATTTATCAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.40, C:0.16, G:0.01, T:0.42
Consensus pattern (33 bp):
ATTTTCGAACTATACAATAATTCAATTCAATTC
Found at i:92937406 original size:43 final size:43
Alignment explanation
Indices: 92937358--92937651 Score: 466
Period size: 43 Copynumber: 6.9 Consensus size: 43
92937348 GCATGAAACT
*
92937358 CGGTGATGTGTATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
92937401 CGGTGATGTGTATT-AGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
92937443 CGATGATGTGTATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
92937486 CGATGATGTGTATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* * *
92937529 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGT
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* *
92937572 CGGTGATGTGTATTCAGGCTTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
92937615 CGGTGATGTGTATTCGGGTCTTC-TGCCTAGCAGGCTT
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTT
92937652 AATGCTGGTG
Statistics
Matches: 232, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
42 55 0.24
43 177 0.76
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:92937919 original size:29 final size:28
Alignment explanation
Indices: 92937819--92937977 Score: 124
Period size: 29 Copynumber: 5.5 Consensus size: 28
92937809 ATGATTAGAG
* *
92937819 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCGAATT-CTTTAACCGA
** **
92937848 GCACTATGTGTGCGAGA-TCAGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
92937876 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCGAATT-CTTTAACCGA
** **
92937906 GCACTATGTGTGCGAGA-TCGGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
* * *
92937934 GGCACTGTGTGTGCGAGTTCTTCAACCGA
1 -GCACTATGTGTGCGAATTCTTTAACCGA
92937963 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
92937978 GATCGGTCAG
Statistics
Matches: 99, Mismatches: 24, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
28 27 0.27
29 64 0.65
30 8 0.08
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:92937994 original size:28 final size:28
Alignment explanation
Indices: 92937848--92938002 Score: 98
Period size: 29 Copynumber: 5.4 Consensus size: 28
92937838 CTTTAACCGA
* * *
92937848 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTCACTG-G
* ** * * *
92937877 GCACTGTGTGTGCGA-ATTCCTTTAACCGA
1 GCACTATGTGTGCGAGA-T-CGGTCACTGG
* *
92937906 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATCGGTCACTG-G
* * * * *
92937935 GCACTGTGTGTGCGAGTTC-TTCAACCGA
1 GCACTATGTGTGCGAGATCGGTC-ACTGG
*
92937963 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCACTGG
92937991 GCACTATGTGTG
1 GCACTATGTGTG
92938003 TGAAATGAGA
Statistics
Matches: 95, Mismatches: 25, Indels: 13
0.71 0.19 0.10
Matches are distributed among these distances:
28 38 0.40
29 51 0.54
30 6 0.06
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCACTGG
Found at i:92938004 original size:58 final size:58
Alignment explanation
Indices: 92937816--92938002 Score: 297
Period size: 58 Copynumber: 3.3 Consensus size: 58
92937806 CGAATGATTA
* *
92937816 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
92937874 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* * * *
92937932 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGTCAGT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
*
92937989 G-GGCACTATGTGTG
1 GAGGCACTGTGTGTG
92938003 TGAAATGAGA
Statistics
Matches: 122, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
56 12 0.10
57 34 0.28
58 76 0.62
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:92938150 original size:29 final size:29
Alignment explanation
Indices: 92938108--92938169 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
92938098 GTGATAACAT
92938108 GTAAGAACATGGTTAGACTATGGCTTTAA
1 GTAAGAACATGGTTAGACTATGGCTTTAA
92938137 GTAAGAACATGGTTAGACTATGGCTTTAA
1 GTAAGAACATGGTTAGACTATGGCTTTAA
92938166 GTAA
1 GTAA
92938170 ACGACATACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (29 bp):
GTAAGAACATGGTTAGACTATGGCTTTAA
Found at i:92946759 original size:16 final size:17
Alignment explanation
Indices: 92946728--92946760 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
92946718 TAAGTAGTAA
*
92946728 AATAACTTTGTTTTCGT
1 AATAACATTGTTTTCGT
92946745 AATAACATT-TTTTCGT
1 AATAACATTGTTTTCGT
92946761 GTACGATGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (17 bp):
AATAACATTGTTTTCGT
Found at i:92949579 original size:11 final size:12
Alignment explanation
Indices: 92949546--92949584 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
92949536 CTTCTTTATA
92949546 TTTATTTA-TTC
1 TTTATTTATTTC
92949557 ATTTATTTATTTC
1 -TTTATTTATTTC
92949570 TTTA-TTATTTC
1 TTTATTTATTTC
92949581 TTTA
1 TTTA
92949585 CCTTTCTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.42
12 12 0.46
13 3 0.12
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTATTTATTTC
Found at i:92951155 original size:23 final size:24
Alignment explanation
Indices: 92951088--92951202 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 24
92951078 ATAAGAAAAA
*
92951088 AGTAAT-AAT-GAAA-ATAATATT
1 AGTAATAAATAGAAATATAATAAT
92951109 AGTATATAAATAGAAATA-AA-AAT
1 AGTA-ATAAATAGAAATATAATAAT
92951132 A-TAATAAATAGAAATATAATAAT
1 AGTAATAAATAGAAATATAATAAT
* * *
92951155 AGT-AGAAATATAAATA-GATAA-
1 AGTAATAAATAGAAATATAATAAT
92951176 A-TAA-AAATTAGATAA-ATAATAAT
1 AGTAATAAA-TAGA-AATATAATAAT
92951199 AGTA
1 AGTA
92951203 TTAGAATAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
20 4 0.05
21 23 0.31
22 16 0.21
23 22 0.29
24 9 0.12
25 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (24 bp):
AGTAATAAATAGAAATATAATAAT
Found at i:92951168 original size:29 final size:29
Alignment explanation
Indices: 92951135--92951251 Score: 85
Period size: 29 Copynumber: 4.0 Consensus size: 29
92951125 TAAAAATATA
* *
92951135 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAATATAAAAATAATAGAAAT
* * *
92951164 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AATATAAAAATAATAGAAAT
* * * * * *
92951193 A-ATAATAGTATTAGAATAATAAAATAAAT
1 ATA-AATAGAAATATAAAAATAATAGAAAT
* *
92951222 ATAAATAGAAACATAAAAATAATAGGAAT
1 ATAAATAGAAATATAAAAATAATAGAAAT
92951251 A
1 A
92951252 ATATATTAAA
Statistics
Matches: 65, Mismatches: 19, Indels: 8
0.71 0.21 0.09
Matches are distributed among these distances:
28 2 0.03
29 60 0.92
30 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.09, T:0.26
Consensus pattern (29 bp):
ATAAATAGAAATATAAAAATAATAGAAAT
Found at i:92951170 original size:44 final size:44
Alignment explanation
Indices: 92951116--92951202 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
92951106 ATTAGTATAT
92951116 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
92951160 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
92951203 TTAGAATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:92951187 original size:15 final size:14
Alignment explanation
Indices: 92951114--92951242 Score: 70
Period size: 15 Copynumber: 8.9 Consensus size: 14
92951104 ATATTAGTAT
*
92951114 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
92951127 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
92951143 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
92951157 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
92951172 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
92951187 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
92951201 TATTAGAATAATAA-A-
1 -A-TA-AATAAAAATAG
*
92951216 ATAAATATAAATAG
1 ATAAATAAAAATAG
92951230 A-AACATAAAAATA
1 ATAA-ATAAAAATA
92951243 ATAGGAATAA
Statistics
Matches: 93, Mismatches: 11, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
12 6 0.06
13 8 0.09
14 30 0.32
15 35 0.38
16 6 0.06
17 8 0.09
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:92951783 original size:5 final size:5
Alignment explanation
Indices: 92951775--92951801 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
92951765 CTAATTTAAT
92951775 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
92951802 ATAATATCTT
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:92960294 original size:13 final size:13
Alignment explanation
Indices: 92960276--92960312 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
92960266 AGATAATTAG
92960276 CAAATCATACATA
1 CAAATCATACATA
92960289 CAAATCATACATA
1 CAAATCATACATA
*
92960302 TAAATTCATAC
1 CAAA-TCATAC
92960313 CAAACTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (13 bp):
CAAATCATACATA
Found at i:92960692 original size:40 final size:37
Alignment explanation
Indices: 92960648--92960741 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 37
92960638 ACCAGAATGG
92960648 CGACCAACGCCTCATCGGAT-AGTTCGAAGCAAATAAGTGA
1 CGACCAACGCCTCATCGGATAAG-TCGAAGC--A-AAGTGA
** *
92960688 CGACCAACATCTCATCGGCTAAGTCGAAGCAAAGTGA
1 CGACCAACGCCTCATCGGATAAGTCGAAGCAAAGTGA
92960725 CGACCAACGCCTCATCG
1 CGACCAACGCCTCATCG
92960742 AATCTATTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
37 21 0.44
38 1 0.02
40 24 0.50
41 2 0.04
ACGTcount: A:0.33, C:0.30, G:0.21, T:0.16
Consensus pattern (37 bp):
CGACCAACGCCTCATCGGATAAGTCGAAGCAAAGTGA
Found at i:92961929 original size:3 final size:3
Alignment explanation
Indices: 92961915--92961975 Score: 113
Period size: 3 Copynumber: 20.0 Consensus size: 3
92961905 CTATCTCAAT
92961915 TAA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
92961961 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
92961976 GTAAATATCT
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 54 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:92963636 original size:23 final size:23
Alignment explanation
Indices: 92963606--92963652 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
92963596 CAAATGAACC
*
92963606 ATCATGTGCCTCTTGGAGTATTA
1 ATCATGTGCCTCTTAGAGTATTA
92963629 ATCATGTGCCTCTTAGAGTATTA
1 ATCATGTGCCTCTTAGAGTATTA
92963652 A
1 A
92963653 CTCTTTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (23 bp):
ATCATGTGCCTCTTAGAGTATTA
Found at i:92967541 original size:28 final size:28
Alignment explanation
Indices: 92967509--92967565 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
92967499 TGACCGTGAG
92967509 AAAATATGATTTTGACCATTTTAAAGCT
1 AAAATATGATTTTGACCATTTTAAAGCT
92967537 AAAATATGATTTTGACCATTTTAAAGCT
1 AAAATATGATTTTGACCATTTTAAAGCT
92967565 A
1 A
92967566 TTTTCACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.39
Consensus pattern (28 bp):
AAAATATGATTTTGACCATTTTAAAGCT
Found at i:92968372 original size:40 final size:37
Alignment explanation
Indices: 92968328--92968421 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 37
92968318 ACCAAAATGG
*
92968328 CGACCAACGCCTCATCGGAT-GGTTCGAAGCAAATAAGTGA
1 CGACCAACGCCTCATCGGATAAG-TCGAAG--AA-AAGTGA
* *
92968368 CGACCAACGTCTCATCGGCTAAGTCGAAGAAAAGTGA
1 CGACCAACGCCTCATCGGATAAGTCGAAGAAAAGTGA
*
92968405 TGACCAACGCCTCATCG
1 CGACCAACGCCTCATCG
92968422 AATCTATCCG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
37 21 0.44
38 2 0.04
40 24 0.50
41 1 0.02
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.17
Consensus pattern (37 bp):
CGACCAACGCCTCATCGGATAAGTCGAAGAAAAGTGA
Found at i:92969593 original size:3 final size:3
Alignment explanation
Indices: 92969579--92969645 Score: 125
Period size: 3 Copynumber: 22.0 Consensus size: 3
92969569 CTATCTCAAT
92969579 TAA TAGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
92969625 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
92969646 GTAAATATCT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 60 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:92973884 original size:2 final size:2
Alignment explanation
Indices: 92973877--92973910 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
92973867 TTAAAAGATA
92973877 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
92973911 CCCAAAACAA
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:92977885 original size:23 final size:22
Alignment explanation
Indices: 92977834--92977878 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
92977824 TAGAATGAGG
*
92977834 ATTATTAAT--TTTTTTTATTA
1 ATTATTAATCATTTTTTTAATA
92977854 ATTATTAATCATTTTTTTAATA
1 ATTATTAATCATTTTTTTAATA
92977876 ATT
1 ATT
92977879 CCTTAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.41
22 13 0.59
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTATTAATCATTTTTTTAATA
Found at i:92986308 original size:11 final size:13
Alignment explanation
Indices: 92986282--92986323 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
92986272 ACTTTAATAA
92986282 ATATATTTGTTAT
1 ATATATTTGTTAT
*
92986295 ATATATTTTTTAT
1 ATATATTTGTTAT
92986308 ATATATTTGTGTAT
1 ATATATTTGT-TAT
92986322 AT
1 AT
92986324 TAATAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 21 0.81
14 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (13 bp):
ATATATTTGTTAT
Found at i:92987189 original size:15 final size:15
Alignment explanation
Indices: 92987177--92987208 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
92987167 CATTTTATTG
92987177 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
*
92987192 TTATGTCTTTCATAT
1 TTATGTCTTTTATAT
92987207 TT
1 TT
92987209 TGCATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.09, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:92988849 original size:5 final size:6
Alignment explanation
Indices: 92988802--92988855 Score: 53
Period size: 5 Copynumber: 9.7 Consensus size: 6
92988792 TTTGATAGAT
* * *
92988802 TTAATA TTAA-A TTAATA -TAATA TTTAGA TAAATA TT-ATA TTAAT-
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
92988846 TTAATA TTAA
1 TTAATA TTAA
92988856 AGTGATTAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
5 20 0.53
6 18 0.47
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (6 bp):
TTAATA
Found at i:92993791 original size:51 final size:51
Alignment explanation
Indices: 92993731--92993835 Score: 192
Period size: 51 Copynumber: 2.1 Consensus size: 51
92993721 GTCTGCTGGG
92993731 ACATTAAACACAAATAGCCAAATAGGACAACAATAGTGGGACATTTTGCAA
1 ACATTAAACACAAATAGCCAAATAGGACAACAATAGTGGGACATTTTGCAA
**
92993782 ACATTAAACATGAATAGCCAAATAGGACAACAATAGTGGGACATTTTGCAA
1 ACATTAAACACAAATAGCCAAATAGGACAACAATAGTGGGACATTTTGCAA
92993833 ACA
1 ACA
92993836 ATGAGAAAGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.20
Consensus pattern (51 bp):
ACATTAAACACAAATAGCCAAATAGGACAACAATAGTGGGACATTTTGCAA
Found at i:92996680 original size:39 final size:39
Alignment explanation
Indices: 92996626--92996820 Score: 239
Period size: 39 Copynumber: 5.0 Consensus size: 39
92996616 AACATGTTTT
** *
92996626 TGAGTATTACGATATATGCTTAAATGTTATTTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
92996665 TGAGTATTGTGATATATGCTTGAAA-GTTATGTGATTATA
1 TGAGTATTGTGATATATGCTT-AAATGTTATGTGATTATA
* *
92996704 TGAGTATTATGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * * * *
92996743 CGTGTATTGTGATATATGTTTGAATATTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * * *
92996782 TGTGTAATGTGATATATGCTTAAAAGTGAATGTGATTAT
1 TGAGTATTGTGATATATGCTTAAATGT-TATGTGATTAT
92996821 CATGTAAATG
Statistics
Matches: 136, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
38 2 0.01
39 121 0.89
40 13 0.10
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:92996755 original size:78 final size:78
Alignment explanation
Indices: 92996626--92996820 Score: 266
Period size: 78 Copynumber: 2.5 Consensus size: 78
92996616 AACATGTTTT
* * *
92996626 TGAGTATTACGATATATGCTTAAATGTTATTTGATTATATGAGTATTGTGATATATGCTTGAA-A
1 TGAGTATTATGATATATGCTTAAATGTTATGTGATTATACGAGTATTGTGATATATGCTTGAATA
92996690 GTTATGTGATTATA
66 -TTATGTGATTATA
* * *
92996704 TGAGTATTATGATATATGCTTGAATGTTATGTGATTATACGTGTATTGTGATATATGTTTGAATA
1 TGAGTATTATGATATATGCTTAAATGTTATGTGATTATACGAGTATTGTGATATATGCTTGAATA
92996769 TTATGTGATTATA
66 TTATGTGATTATA
* * * * *
92996782 TGTGTAATGTGATATATGCTTAAAAGTGAATGTGATTAT
1 TGAGTATTATGATATATGCTTAAATGT-TATGTGATTAT
92996821 CATGTAAATG
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
78 92 0.89
79 11 0.11
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (78 bp):
TGAGTATTATGATATATGCTTAAATGTTATGTGATTATACGAGTATTGTGATATATGCTTGAATA
TTATGTGATTATA
Found at i:93000296 original size:48 final size:48
Alignment explanation
Indices: 93000243--93000564 Score: 439
Period size: 48 Copynumber: 6.7 Consensus size: 48
93000233 ACGATGCCTC
* *
93000243 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCA-GATAACC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACG-TAACA
** *
93000291 ATGCCGATGCCATGTCCCAGACATAATCTTACACTGGCTCACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
*
93000339 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * *
93000387 ATGTCGATGCCATGTTCCAGACATGGTCTTACATTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * *
93000435 ATGTCGATGCTATGTCCCAAACATGGTCTTACACTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * * *
93000483 ATGCCGATGCCATGTCCCAGACATGGTCTTATACAGGATCACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * * * *
93000531 ATACCAATGCCATATCCCAGATATGGCCTTACAC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACAC
93000565 GGTTACATAT
Statistics
Matches: 243, Mismatches: 30, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
48 243 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
Found at i:93015773 original size:29 final size:29
Alignment explanation
Indices: 93015740--93015806 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
93015730 AATTAGATGC
* * *
93015740 ACTATTGTCGAGCACATATTCAACCTAAA
1 ACTATTGTCAAGCACAGACTCAACCTAAA
* **
93015769 ACTATTGTCAAGCATAGACTCAACCTCGA
1 ACTATTGTCAAGCACAGACTCAACCTAAA
93015798 ACTATTGTC
1 ACTATTGTC
93015807 TAACAAAGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (29 bp):
ACTATTGTCAAGCACAGACTCAACCTAAA
Found at i:93015816 original size:29 final size:29
Alignment explanation
Indices: 93015740--93015816 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 29
93015730 AATTAGATGC
* * * *
93015740 ACTATTGTCGAGCACATATTCAACCTAAA
1 ACTATTGTCAAGCAAAGACTCAACCTAAA
* **
93015769 ACTATTGTCAAGCATAGACTCAACCTCGA
1 ACTATTGTCAAGCAAAGACTCAACCTAAA
93015798 ACTATTGTCTAA-CAAAGAC
1 ACTATTGTC-AAGCAAAGAC
93015817 CCACACTCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 38 0.95
30 2 0.05
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.26
Consensus pattern (29 bp):
ACTATTGTCAAGCAAAGACTCAACCTAAA
Found at i:93016686 original size:266 final size:266
Alignment explanation
Indices: 93016212--93016748 Score: 1074
Period size: 266 Copynumber: 2.0 Consensus size: 266
93016202 TTGCGTACCT
93016212 ATATTCTTAACCAGGTGAGAAGCTTAGGAATTTTGTCAAGTCCATCACCTATGTGGCCTAGTCAG
1 ATATTCTTAACCAGGTGAGAAGCTTAGGAATTTTGTCAAGTCCATCACCTATGTGGCCTAGTCAG
93016277 TTGAGGTCTAATTTAAGGGACAGATATAGTTTTCTTAATGATAGAGGAACAAGACAGAAGATTGT
66 TTGAGGTCTAATTTAAGGGACAGATATAGTTTTCTTAATGATAGAGGAACAAGACAGAAGATTGT
93016342 TTTACTTTGAAGGATGTAATCGATGAGGCTGTCAGAAATGGCTAACTAAAAGAATTTGTAGCACA
131 TTTACTTTGAAGGATGTAATCGATGAGGCTGTCAGAAATGGCTAACTAAAAGAATTTGTAGCACA
93016407 GGAAGCTTCACCATCAAGGCAGGGTTTGCGAGGTGTTGATAAGGGCAAGCAGAAGGCCAGGGGTA
196 GGAAGCTTCACCATCAAGGCAGGGTTTGCGAGGTGTTGATAAGGGCAAGCAGAAGGCCAGGGGTA
93016472 CGATAC
261 CGATAC
93016478 ATATTCTTAACCAGGTGAGAAGCTTAGGAATTTTGTCAAGTCCATCACCTATGTGGCCTAGTCAG
1 ATATTCTTAACCAGGTGAGAAGCTTAGGAATTTTGTCAAGTCCATCACCTATGTGGCCTAGTCAG
93016543 TTGAGGTCTAATTTAAGGGACAGATATAGTTTTCTTAATGATAGAGGAACAAGACAGAAGATTGT
66 TTGAGGTCTAATTTAAGGGACAGATATAGTTTTCTTAATGATAGAGGAACAAGACAGAAGATTGT
93016608 TTTACTTTGAAGGATGTAATCGATGAGGCTGTCAGAAATGGCTAACTAAAAGAATTTGTAGCACA
131 TTTACTTTGAAGGATGTAATCGATGAGGCTGTCAGAAATGGCTAACTAAAAGAATTTGTAGCACA
93016673 GGAAGCTTCACCATCAAGGCAGGGTTTGCGAGGTGTTGATAAGGGCAAGCAGAAGGCCAGGGGTA
196 GGAAGCTTCACCATCAAGGCAGGGTTTGCGAGGTGTTGATAAGGGCAAGCAGAAGGCCAGGGGTA
93016738 CGATAC
261 CGATAC
93016744 ATATT
1 ATATT
93016749 AAAATTGGTA
Statistics
Matches: 271, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
266 271 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (266 bp):
ATATTCTTAACCAGGTGAGAAGCTTAGGAATTTTGTCAAGTCCATCACCTATGTGGCCTAGTCAG
TTGAGGTCTAATTTAAGGGACAGATATAGTTTTCTTAATGATAGAGGAACAAGACAGAAGATTGT
TTTACTTTGAAGGATGTAATCGATGAGGCTGTCAGAAATGGCTAACTAAAAGAATTTGTAGCACA
GGAAGCTTCACCATCAAGGCAGGGTTTGCGAGGTGTTGATAAGGGCAAGCAGAAGGCCAGGGGTA
CGATAC
Found at i:93024088 original size:98 final size:96
Alignment explanation
Indices: 93023973--93024190 Score: 242
Period size: 98 Copynumber: 2.2 Consensus size: 96
93023963 TGTGTTTTTT
* * * * *
93023973 ATTTTTAAAAATAATATTTTATTTGGTGGAGTCATATAGAATAACGTCACCAGTATACTCTAT-A
1 ATTTTTAAAAATAATATTTTATTTGGTGGAGCCATATAAAATAACGCCACCAATATACACTATGA
* * **
93024037 TGTTTTGTTTAAATGTGTTTTTTTTTTAATTT-AA
66 T-TGTT-TTT-AATGT-ATTACTTTTTAATTTAAA
* * * ** * *
93024071 ATTTTTTAAAATAATATTTTATTTGTTTGAGCCATATAAAATGGCGCCACCAATGTACAGTATGA
1 ATTTTTAAAAATAATATTTTATTTGGTGGAGCCATATAAAATAACGCCACCAATATACACTATGA
93024136 TTGTTTTTAATGTATTACTTTTTAATTTAAA
66 TTGTTTTTAATGTATTACTTTTTAATTTAAA
93024167 ATTTTTAAAAATAATATTTTATTT
1 ATTTTTAAAAATAATATTTTATTT
93024191 TAAATTGGCC
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
95 12 0.12
96 30 0.30
97 3 0.03
98 54 0.53
99 2 0.02
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.49
Consensus pattern (96 bp):
ATTTTTAAAAATAATATTTTATTTGGTGGAGCCATATAAAATAACGCCACCAATATACACTATGA
TTGTTTTTAATGTATTACTTTTTAATTTAAA
Found at i:93024775 original size:45 final size:45
Alignment explanation
Indices: 93024709--93024874 Score: 197
Period size: 45 Copynumber: 3.6 Consensus size: 45
93024699 AATCTATTCT
*
93024709 ACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAATTTGCTCC
1 ACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAATCTGCTCC
* * * * **
93024754 ACTGCAACTTTAGGGAGATAAGATTTGTGACTTGTAGCTTTAATCTATTCC
1 ACTGCAACTTCAGGGAAATAAGA-TT-CG-C---TATCTTTAATCTGCTCC
*
93024805 ACTGCAACTTTAGGGAAATAAGATTCGCTATCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAATCTGCTCC
*
93024850 ACTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAAATAAGATT
93024875 TGTGGCCTCA
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 58 0.57
46 2 0.02
47 1 0.01
48 2 0.02
49 1 0.01
50 2 0.02
51 35 0.35
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (45 bp):
ACTGCAACTTCAGGGAAATAAGATTCGCTATCTTTAATCTGCTCC
Found at i:93024798 original size:96 final size:96
Alignment explanation
Indices: 93024679--93024878 Score: 346
Period size: 96 Copynumber: 2.1 Consensus size: 96
93024669 AGAGGTATAG
* *
93024679 GATTTGTAACTTGTAGCTCTAATCTATTCTACTGCAACTTCAGGGAAATAAGATTCGCTATCTTT
1 GATTTGTGACTTGTAGCTCTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTT
* *
93024744 AATTTGCTCCACTGCAACTTTAGGGAGATAA
66 AATCTGCTCCACTGCAACTTCAGGGAGATAA
* *
93024775 GATTTGTGACTTGTAGCTTTAATCTATTCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTT
1 GATTTGTGACTTGTAGCTCTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTT
93024840 AATCTGCTCCACTGCAACTTCAGGGAGATAA
66 AATCTGCTCCACTGCAACTTCAGGGAGATAA
93024871 GATTTGTG
1 GATTTGTG
93024879 GCCTCAATCT
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 98 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (96 bp):
GATTTGTGACTTGTAGCTCTAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTT
AATCTGCTCCACTGCAACTTCAGGGAGATAA
Found at i:93024816 original size:51 final size:47
Alignment explanation
Indices: 93024501--93024878 Score: 193
Period size: 45 Copynumber: 8.0 Consensus size: 47
93024491 TTGTGGTTTG
** *
93024501 TAGCTTTAATCTTGTCCCACTACAACTTCAGGGAAATAAGA-TT-TGC
1 TAGCTTTAATCTACT-CCACTGCAACTTCAGGGAAATAAGATTTGTGC
* * * * *
93024547 TATCTTTTATCTACTCCATTGCAACTTCAGGGAAATAAAACTTGTG-
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGTGC
* * ** * ** *
93024593 -A-CTTCAATCTGCTCCACTGCAACTTCAATGAGATAAGATTCACCATGG
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGGAAATAAGATT---TGTGC
* * * * * * * * *
93024641 TAGATTTGATCCGAC-CTACTGCAATTTTAGAGG-TATAGGATTTGTAAC
1 TAGCTTTAAT-CTACTCCACTGCAACTTCAG-GGAAATAAGATTTGT-GC
* * * *
93024689 TTGTAGCTCTAATCTATTCTACTGCAACTTCAGGGAAATAAGA-TT-CGC
1 ---TAGCTTTAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGTGC
* * * * *
93024737 TATCTTTAATTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTGAC
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGTG-C
* * *
93024785 TTGTAGCTTTAATCTATTCCACTGCAACTTTAGGGAAATAAGA-TT-CGC
1 ---TAGCTTTAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGTGC
* * *
93024833 TATCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
1 TAGCTTTAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGTG
93024879 GCCTCAATCT
Statistics
Matches: 242, Mismatches: 66, Indels: 47
0.68 0.19 0.13
Matches are distributed among these distances:
44 30 0.12
45 90 0.37
46 17 0.07
47 7 0.03
48 3 0.01
49 2 0.01
50 30 0.12
51 63 0.26
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (47 bp):
TAGCTTTAATCTACTCCACTGCAACTTCAGGGAAATAAGATTTGTGC
Found at i:93027341 original size:3 final size:3
Alignment explanation
Indices: 93027333--93027387 Score: 101
Period size: 3 Copynumber: 18.0 Consensus size: 3
93027323 AACTTAAAAT
93027333 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
93027379 TAA TAA TAA
1 TAA TAA TAA
93027388 AATCTTAGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:93027772 original size:45 final size:45
Alignment explanation
Indices: 93027679--93028013 Score: 275
Period size: 44 Copynumber: 7.5 Consensus size: 45
93027669 TCATTACAAT
* * ** * * * *
93027679 TGCAACTTCAAGGATATTGGATTTG-TAACTTCAACCTACTCTAC
1 TGCAACTTCAGGGAGATAAGATTTGTTATCTTCAATCTGCTCCAC
* * * *
93027723 TGCAACCTCAGGGAGATAAGATTTGTTATTTTTAACCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGATTTGTTATCTTCAATCTGCTCCAC
* * * * * * *
93027768 TGCAACTTCAGTGTGATAAGGTTT-ATAGCTTTAATCTGCTCTAC
1 TGCAACTTCAGGGAGATAAGATTTGTTATCTTCAATCTGCTCCAC
* * * * *
93027812 TACAACTTCAGAGAGATAAGATTGGCTATCTTCAATCTGTTCCAC
1 TGCAACTTCAGGGAGATAAGATTTGTTATCTTCAATCTGCTCCAC
* * * * *
93027857 TGCAAC-TCAGTGAGATAAGACTCGTTATCTTCAGTCTGCTTCAC
1 TGCAACTTCAGGGAGATAAGATTTGTTATCTTCAATCTGCTCCAC
* * *
93027901 TGCAACTTTAGGGAGATAAGACTTGCTT-TCTTCAATCTGCTTCAC
1 TGCAACTTCAGGGAGATAAGATTTG-TTATCTTCAATCTGCTCCAC
* * * * * * *
93027946 TACAACCTCAGGGAGATAAAACTTGTGA-CTTTAATCTGTTCCAC
1 TGCAACTTCAGGGAGATAAGATTTGTTATCTTCAATCTGCTCCAC
93027990 TGCAACTTCAGGGAGATAAGATTT
1 TGCAACTTCAGGGAGATAAGATTT
93028014 ACCATGGTAG
Statistics
Matches: 233, Mismatches: 53, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
44 125 0.54
45 106 0.45
46 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (45 bp):
TGCAACTTCAGGGAGATAAGATTTGTTATCTTCAATCTGCTCCAC
Found at i:93027895 original size:89 final size:87
Alignment explanation
Indices: 93027717--93028012 Score: 278
Period size: 89 Copynumber: 3.3 Consensus size: 87
93027707 CTTCAACCTA
* * * * * * *
93027717 CTCTACTGCAACCTCAGGGAGATAAGATTTGTTATTTTTAACCTGCTCCACTGCAACTTCAGTGT
1 CTCTACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAATCTGTTCCACTGCAAC-TCAGTGA
*
93027782 GATAAG-GT-TTATAGCTTTAATCTG
64 GATAAGACTGTTAT--CTTTAATCTG
* *
93027806 CTCTACTACAACTTCAGAGAGATAAGATTGGCTATCTTCAATCTGTTCCACTGCAACTCAGTGAG
1 CTCTACTGCAACTTCAGGGAGATAAGATT-GCTATCTTCAATCTGTTCCACTGCAACTCAGTGAG
* *
93027871 ATAAGACTCGTTATCTTCAGTCTG
65 ATAAGACT-GTTATCTTTAATCTG
* * * *
93027895 CT-TCACTGCAACTTTAGGGAGATAAGACTTGCTTTCTTCAATCTGCTT-CACTACAACCTCAGG
1 CTCT-ACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAATCTG-TTCCACTGCAA-CTCAGT
* *
93027958 GAGATAAAACTTGTGA-CTTTAATCTG
62 GAGATAAGAC-TGTTATCTTTAATCTG
* *
93027984 TTCCACTGCAACTTCAGGGAGATAAGATT
1 CTCTACTGCAACTTCAGGGAGATAAGATT
93028013 TACCATGGTA
Statistics
Matches: 172, Mismatches: 25, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
88 17 0.10
89 129 0.75
90 21 0.12
91 5 0.03
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (87 bp):
CTCTACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAATCTGTTCCACTGCAACTCAGTGAGA
TAAGACTGTTATCTTTAATCTG
Found at i:93030679 original size:46 final size:46
Alignment explanation
Indices: 93030627--93030802 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
93030617 TGGTTGAGCA
93030627 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
93030673 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
93030718 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
93030766 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93030803 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 64 0.58
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:93030783 original size:93 final size:93
Alignment explanation
Indices: 93030624--93030794 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
93030614 GGATGGTTGA
* **
93030624 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
93030689 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
93030717 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
93030782 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
93030795 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:93033698 original size:18 final size:17
Alignment explanation
Indices: 93033665--93033697 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
93033655 CAAAATATCT
93033665 ATGTTTTCCATTTTTTA
1 ATGTTTTCCATTTTTTA
93033682 ATGTTTATCC-TTTTTT
1 ATGTTT-TCCATTTTTT
93033698 TTTTTTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.15, C:0.12, G:0.06, T:0.67
Consensus pattern (17 bp):
ATGTTTTCCATTTTTTA
Found at i:93037758 original size:6 final size:6
Alignment explanation
Indices: 93037730--93037783 Score: 58
Period size: 6 Copynumber: 9.3 Consensus size: 6
93037720 AACTTGTGGG
* * * *
93037730 AGAGAA AAAGAA A-AGAA A-TGAA AGAGAA AGAGAA AGAGAG AGAGAG
1 AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA AGAGAA
93037776 AGAGAA AG
1 AGAGAA AG
93037784 GAGGGTTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
5 9 0.21
6 33 0.79
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (6 bp):
AGAGAA
Found at i:93044283 original size:42 final size:41
Alignment explanation
Indices: 93044170--93044283 Score: 122
Period size: 42 Copynumber: 2.7 Consensus size: 41
93044160 GAGTTTCAAT
* * * **
93044170 TTTTGTTTAACTCTTTTGAACTTCAGTTTAACCCTTTTGGG
1 TTTTGTTTAACTCTTATGAGCTTCAGTTCAACCCTTACGGG
* *
93044211 TTTTCGTTCAGCTCTTATGAGCTTTC-GTTCAACCCTTACGGG
1 TTTT-GTTTAACTCTTATGAGC-TTCAGTTCAACCCTTACGGG
*
93044253 TTTCTGTTTAACTCTCATGAGCTTCAGTTCA
1 TTT-TGTTTAACTCTTATGAGCTTCAGTTCA
93044284 GCCTTCAGGC
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
41 7 0.12
42 48 0.81
43 4 0.07
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.46
Consensus pattern (41 bp):
TTTTGTTTAACTCTTATGAGCTTCAGTTCAACCCTTACGGG
Found at i:93049329 original size:69 final size:69
Alignment explanation
Indices: 93049218--93049620 Score: 384
Period size: 69 Copynumber: 5.8 Consensus size: 69
93049208 TGTCGTTTAA
* * * ** *
93049218 AAAATCGAGGTTCGCAAGG-GAAGAGTTGCAACCTCTAACACAGTTAGTAAGAGTAAAGCTCTCA
1 AAAATCAAGGTTCGC-AGGCGAAGAGCTGCGACCTCTAACACAGTTAGCGAGAGTAAAGCTCCCA
93049282 GTTGT
65 GTTGT
* * * *
93049287 AAAATCAAGGTTCGCAGGTGAAGAGCTGCGACCTCCAACACAGTTAGCGAGAGTAAAGTTCCTAG
1 AAAATCAAGGTTCGCAGGCGAAGAGCTGCGACCTCTAACACAGTTAGCGAGAGTAAAGCTCCCAG
*
93049352 TTAT
66 TTGT
* * * ** ** * * * *
93049356 AAAATTAAGATTCGTAAACGAAGAGCCACGACCTCTAACCCAAG-TAGCAAAAGTACAGCTCCCA
1 AAAATCAAGGTTCGCAGGCGAAGAGCTGCGACCTCTAACAC-AGTTAGCGAGAGTAAAGCTCCCA
93049420 GTTGT
65 GTTGT
* * * *
93049425 AAAATCAAGGTTCGCAGGCAAAGAG-TCGCGACCTCCAACACACTTAGCGAGAGCAAAGCTCCCA
1 AAAATCAAGGTTCGCAGGCGAAGAGCT-GCGACCTCTAACACAGTTAGCGAGAGTAAAGCTCCCA
*
93049489 GCTGT
65 GTTGT
* * * *
93049494 AAAATCAAGGTTCGCAGGTGAAGAG-TCGCGACCTCTAACACAGTTAGTGAGAGCAAAGTTCCCA
1 AAAATCAAGGTTCGCAGGCGAAGAGCT-GCGACCTCTAACACAGTTAGCGAGAGTAAAGCTCCCA
93049558 GTTGT
65 GTTGT
* * * * * * *
93049563 AAAATTAAGGTCCACAGGCGAAGAGCCGCGACCT-TCAATACAATTAGCGAGAGCAAAG
1 AAAATCAAGGTTCGCAGGCGAAGAGCTGCGACCTCT-AACACAGTTAGCGAGAGTAAAG
93049621 ATCTTTCAAC
Statistics
Matches: 271, Mismatches: 57, Indels: 12
0.80 0.17 0.04
Matches are distributed among these distances:
68 5 0.02
69 264 0.97
70 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (69 bp):
AAAATCAAGGTTCGCAGGCGAAGAGCTGCGACCTCTAACACAGTTAGCGAGAGTAAAGCTCCCAG
TTGT
Found at i:93049587 original size:207 final size:207
Alignment explanation
Indices: 93049218--93049596 Score: 519
Period size: 207 Copynumber: 1.8 Consensus size: 207
93049208 TGTCGTTTAA
* * * * * * * *
93049218 AAAATCGAGGTTCGCAAGGGAAGAGTTGCAACCTCTAACACAGTTAGTAAGAGTAAAGCTCTCAG
1 AAAATCAAGGTTCGCAAGGAAAGAGTCGCAACCTCCAACACACTTAGCAAGAGCAAAGCTCCCAG
* *
93049283 TTGTAAAATCAAGGTTCGCAGGTGAAGAGCTGCGACCTCCAACACAGTTAGCGAGAGTAAAGTTC
66 CTGTAAAATCAAGGTTCGCAGGTGAAGAGCTGCGACCTCCAACACAGTTAGCGAGAGCAAAGTTC
* * **
93049348 CTAGTTATAAAATTAAGATTCGTAAACGAAGAGCCACGACCTCTAACCCAAGTAGCAAAAGTACA
131 CCAGTTATAAAATTAAGATCCACAAACGAAGAGCCACGACCTCTAACCCAAGTAGCAAAAGTACA
93049413 GCTCCCAGTTGT
196 GCTCCCAGTTGT
* *
93049425 AAAATCAAGGTTCGC-AGGCAAAGAGTCGCGACCTCCAACACACTTAGCGAGAGCAAAGCTCCCA
1 AAAATCAAGGTTCGCAAGG-AAAGAGTCGCAACCTCCAACACACTTAGCAAGAGCAAAGCTCCCA
* *
93049489 GCTGTAAAATCAAGGTTCGCAGGTGAAGAG-TCGCGACCTCTAACACAGTTAGTGAGAGCAAAGT
65 GCTGTAAAATCAAGGTTCGCAGGTGAAGAGCT-GCGACCTCCAACACAGTTAGCGAGAGCAAAGT
* * ** *
93049553 TCCCAGTTGTAAAATTAAGGTCCACAGGCGAAGAGCCGCGACCT
129 TCCCAGTTATAAAATTAAGATCCACAAACGAAGAGCCACGACCT
93049597 TCAATACAAT
Statistics
Matches: 147, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
206 4 0.03
207 143 0.97
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (207 bp):
AAAATCAAGGTTCGCAAGGAAAGAGTCGCAACCTCCAACACACTTAGCAAGAGCAAAGCTCCCAG
CTGTAAAATCAAGGTTCGCAGGTGAAGAGCTGCGACCTCCAACACAGTTAGCGAGAGCAAAGTTC
CCAGTTATAAAATTAAGATCCACAAACGAAGAGCCACGACCTCTAACCCAAGTAGCAAAAGTACA
GCTCCCAGTTGT
Found at i:93054801 original size:13 final size:13
Alignment explanation
Indices: 93054783--93054811 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
93054773 TTTAGTTTAA
93054783 TTAGTTAATTAGT
1 TTAGTTAATTAGT
93054796 TTAGTTAATTAGT
1 TTAGTTAATTAGT
93054809 TTA
1 TTA
93054812 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:93060280 original size:6 final size:6
Alignment explanation
Indices: 93060269--93060294 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
93060259 ATGAATCCTA
93060269 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
93060295 CAATTTTATT
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):
TTTTAT
Found at i:93066502 original size:68 final size:70
Alignment explanation
Indices: 93066430--93066627 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
93066420 ACACCCTGTA
* * * *
93066430 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
93066492 ATAAAT
65 ATAAAT
*
93066498 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
93066563 ATAAAT
65 ATAAAT
*
93066569 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
93066628 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:93066541 original size:41 final size:41
Alignment explanation
Indices: 93066496--93066613 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
93066486 TGAAAGATAA
93066496 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
93066537 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
93066567 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
93066608 ATGTAG
1 ATGTAG
93066614 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:93066553 original size:71 final size:71
Alignment explanation
Indices: 93066464--93066627 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
93066454 GAGATGTATC
93066464 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
93066529 AGGACA
66 AGGACA
93066535 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
93066600 AGGACA
66 AGGACA
93066606 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
93066628 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:93077835 original size:15 final size:15
Alignment explanation
Indices: 93077815--93077853 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
93077805 AATGATAGTA
93077815 ATAATAATAGTAATG
1 ATAATAATAGTAATG
* *
93077830 ATAATACTATTAATG
1 ATAATAATAGTAATG
*
93077845 GTAATAATA
1 ATAATAATA
93077854 CAAACAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (15 bp):
ATAATAATAGTAATG
Found at i:93077980 original size:3 final size:3
Alignment explanation
Indices: 93077958--93078230 Score: 162
Period size: 3 Copynumber: 91.7 Consensus size: 3
93077948 ATTTAAAGAG
* * * * * *
93077958 TAA TAG TAA AAA TAA T-A TAA TAA TAA AACA TAA TAG TGA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * * * *
93078003 CAA T-A TAA TAA TAA TAG TAG TAA TAG CAA TAA -ACA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* *** * ** * *
93078047 TAA AAA TAA TAA TAA TAA TAA TAA TAA CCG TAG TGG TAG TAA AAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
93078094 TAA TAG TAA TAA TAA TGA TAA TAAA TAT TAG CAG TAA -AA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
93078138 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * ** *
93078186 TAA TAA TAG TAG CAA CAA TAA TGG TAA TAA TGA TAA TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA
93078231 GTAGTAAATA
Statistics
Matches: 208, Mismatches: 53, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
2 11 0.05
3 188 0.90
4 9 0.04
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:93078517 original size:3 final size:3
Alignment explanation
Indices: 93078458--93078506 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
93078448 AGGTGAAAAT
93078458 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
93078506 A
1 A
93078507 GGGTAATAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:93078579 original size:3 final size:3
Alignment explanation
Indices: 93078571--93078693 Score: 69
Period size: 3 Copynumber: 40.7 Consensus size: 3
93078561 ATGATAATTG
* * *
93078571 TAA TAA TAA TAA TAA T-A TAAA TAA TAG TAA -AA TAA TGA TAG TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
93078615 TAA TAA TGA TAG TAA TAA T-A TAAA TAAA TATA GAGA GAA T-A TATA
1 TAA TAA TAA TAA TAA TAA TAA T-AA T-AA TA-A TA-A TAA TAA TA-A
*
93078660 TAA T-A TAA TAA TAA CAA TAA T-A TAAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA
93078694 TATACATGAA
Statistics
Matches: 94, Mismatches: 15, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
2 12 0.13
3 64 0.68
4 18 0.19
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:93078593 original size:15 final size:15
Alignment explanation
Indices: 93078575--93078736 Score: 70
Period size: 15 Copynumber: 10.7 Consensus size: 15
93078565 TAATTGTAAT
93078575 AATAATAATAATATA
1 AATAATAATAATATA
* *
93078590 AATAATAGTAAAATA
1 AATAATAATAATATA
*
93078605 ATGATAGTAATAATA-A
1 A--ATAATAATAATATA
* *
93078621 TGATAGTAATAATATA
1 -AATAATAATAATATA
* *
93078637 AATAA-ATATAGAGA-G
1 AATAATA-ATA-ATATA
93078652 AAT-ATATATAATATAA
1 AATAATA-ATAATAT-A
*
93078668 TAATAACAATAATATA
1 -AATAATAATAATATA
93078684 AATAATAAT-ATATA
1 AATAATAATAATATA
* *
93078698 CATGAA-AAAAATATA
1 AAT-AATAATAATATA
* *
93078713 TAT-A-AATAATAGA
1 AATAATAATAATATA
*
93078726 AAAAATAATAA
1 AATAATAATAA
93078737 AATTAACTAA
Statistics
Matches: 111, Mismatches: 21, Indels: 30
0.69 0.13 0.19
Matches are distributed among these distances:
13 9 0.08
14 14 0.13
15 62 0.56
16 5 0.05
17 19 0.17
18 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (15 bp):
AATAATAATAATATA
Found at i:93078709 original size:23 final size:22
Alignment explanation
Indices: 93078683--93078736 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
93078673 ACAATAATAT
*
93078683 AAATAATAATATATACAT-GAAA
1 AAATAATAATAAATA-ATAGAAA
93078705 AAA-ATATATATAAATAATAGAAA
1 AAATA-ATA-ATAAATAATAGAAA
93078728 AAATAATAA
1 AAATAATAA
93078737 AATTAACTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
21 1 0.04
22 9 0.33
23 16 0.59
24 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.26
Consensus pattern (22 bp):
AAATAATAATAAATAATAGAAA
Found at i:93081527 original size:20 final size:20
Alignment explanation
Indices: 93081502--93081547 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
93081492 CAAATCTTTT
93081502 GCACATGATCTCTTCAATAG
1 GCACATGATCTCTTCAATAG
93081522 GCACATGATCTCTTCAATAG
1 GCACATGATCTCTTCAATAG
*
93081542 ACACAT
1 GCACAT
93081548 ATTCTCGAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (20 bp):
GCACATGATCTCTTCAATAG
Found at i:93082792 original size:20 final size:18
Alignment explanation
Indices: 93082747--93082796 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
93082737 ATATTCAATC
93082747 CACATATTCAA-ACATTTT
1 CACA-ATTCAATACATTTT
93082765 CACAATTCAATACATTTT
1 CACAATTCAATACATTTT
93082783 CATTCAATTCAATA
1 CA--CAATTCAATA
93082797 TCAATACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.21
18 13 0.45
20 10 0.34
ACGTcount: A:0.40, C:0.22, G:0.00, T:0.38
Consensus pattern (18 bp):
CACAATTCAATACATTTT
Found at i:93083205 original size:21 final size:21
Alignment explanation
Indices: 93083179--93083250 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
93083169 AATTTCTTGC
93083179 AATTTAGTCCCTATTATACAA
1 AATTTAGTCCCTATTATACAA
* *
93083200 AATTTA-TAGCCTATTCTACAA
1 AATTTAGT-CCCTATTATACAA
* * *
93083221 TTTAATTTAGTTCCTATGACACAA
1 ---AATTTAGTCCCTATTATACAA
93083245 AATTTA
1 AATTTA
93083251 TAGTCTATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
20 1 0.03
21 23 0.57
24 15 0.38
25 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (21 bp):
AATTTAGTCCCTATTATACAA
Found at i:93083230 original size:45 final size:45
Alignment explanation
Indices: 93083179--93083271 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
93083169 AATTTCTTGC
* *
93083179 AATTTAGTCCCTATTATACAAAATTTATAGCCTATTCTACAATTT
1 AATTTAGTCCCTATGACACAAAATTTATAGCCTATTCTACAATTT
* *
93083224 AATTTAGTTCCTATGACACAAAATTTATAGTCTATTCTACAATTT
1 AATTTAGTCCCTATGACACAAAATTTATAGCCTATTCTACAATTT
93083269 AAT
1 AAT
93083272 CCTTCTCCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (45 bp):
AATTTAGTCCCTATGACACAAAATTTATAGCCTATTCTACAATTT
Found at i:93083265 original size:21 final size:21
Alignment explanation
Indices: 93083189--93083265 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 21
93083179 AATTTAGTCC
* *
93083189 CTATTATACAAAATTTATAGC
1 CTATTCTACAAAATTTATAGT
93083210 CTATTCTAC--AATTTAATTTAGTT
1 CTATTCTACAAAATTT-A--TAG-T
*
93083233 CCTATGAC-ACAAAATTTATAGT
1 -CTAT-TCTACAAAATTTATAGT
93083255 CTATTCTACAA
1 CTATTCTACAA
93083266 TTTAATCCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
19 5 0.12
20 2 0.05
21 16 0.37
22 4 0.09
23 3 0.07
24 6 0.14
25 2 0.05
26 5 0.12
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (21 bp):
CTATTCTACAAAATTTATAGT
Found at i:93083509 original size:22 final size:22
Alignment explanation
Indices: 93083481--93083529 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
93083471 AAATCCCTAA
*
93083481 TTTTTTCTTTC-TTTCTTTCTCT
1 TTTTTTCCTTCTTTTC-TTCTCT
93083503 TTTTTTCCTTCTTTTCTTCTCT
1 TTTTTTCCTTCTTTTCTTCTCT
*
93083525 GTTTT
1 TTTTT
93083530 CGTCCCCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTTTCCTTCTTTTCTTCTCT
Found at i:93088953 original size:29 final size:29
Alignment explanation
Indices: 93088918--93088991 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
93088908 GTTGTGAGAT
* *
93088918 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
93088947 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
93088976 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
93088992 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:93092071 original size:3 final size:3
Alignment explanation
Indices: 93092063--93092147 Score: 124
Period size: 3 Copynumber: 29.7 Consensus size: 3
93092053 TTATTTTATT
93092063 TAA TAA TAA TAA T-A TAA T-A TAA -AA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
93092108 TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA T-T TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
93092148 TATTTTAACA
Statistics
Matches: 74, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
2 7 0.09
3 67 0.91
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:93096021 original size:19 final size:19
Alignment explanation
Indices: 93095985--93096021 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
93095975 TAACTAGGCT
* *
93095985 TTAATTAAGTGAACTTAGC
1 TTAATTAAGAGAAATTAGC
93096004 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
93096022 GAAAAATGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.35
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:93096213 original size:3 final size:3
Alignment explanation
Indices: 93096194--93096243 Score: 82
Period size: 3 Copynumber: 16.0 Consensus size: 3
93096184 TTATTACGGT
93096194 TTA TATA TTA GTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
93096241 TTA
1 TTA
93096244 AAATAAATTG
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:93096555 original size:31 final size:32
Alignment explanation
Indices: 93096515--93096578 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
93096505 ATTTAGTAAA
*
93096515 AGATATTTAT-TAATTAAATA-ATTATATTATG
1 AGATATTTATGTAA-TAAATATATTAAATTATG
*
93096546 AGATTTTTATGTAATAAATATATTAAATTATG
1 AGATATTTATGTAATAAATATATTAAATTATG
93096578 A
1 A
93096579 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATGTAATAAATATATTAAATTATG
Found at i:93096654 original size:163 final size:161
Alignment explanation
Indices: 93096348--93096667 Score: 371
Period size: 163 Copynumber: 2.0 Consensus size: 161
93096338 AATTTTAGAA
* * *
93096348 TAAAAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTGTTTGATAAATAAATTAAATAA
1 TAAAAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATAA
* * * * * * * * * *
93096413 TGACAATTGTAATAAATTTATTGGTACAAATGTGAAAATATAAGTGTGTACAATTGTAATATTAG
66 TGACAAATGTAATAAATTTAGTGGTAC-AATGTGAAAATAAAAATGTATACAAATATAAAATAAA
93096478 TATTTGATATTAAATAAGATATTTATTATTTAG
130 TATTTGATATTAAAT-AGATATTTATTATTTAG
* * * *
93096511 TAAAAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAATATATTAAATTA
1 TAAAAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATAA
*
93096576 TGACAAATGTATGGTAAAATTT-GT-G-AC-ATGTGTAATAATAAAAATGTATACAAATATAAAA
66 TGACAAATGTA--AT-AAATTTAGTGGTACAATGTG-AA-AATAAAAATGTATACAAATATAAAA
93096637 TAAATA-TTGATTATTAAATAGATATTTATTA
126 TAAATATTTGA-TATTAAATAGATATTTATTA
93096668 ACTTATTATA
Statistics
Matches: 133, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
161 5 0.04
162 18 0.14
163 101 0.76
164 1 0.01
165 2 0.02
166 6 0.05
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (161 bp):
TAAAAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTATGTAATAAATAAATTAAATAA
TGACAAATGTAATAAATTTAGTGGTACAATGTGAAAATAAAAATGTATACAAATATAAAATAAAT
ATTTGATATTAAATAGATATTTATTATTTAG
Found at i:93096800 original size:13 final size:14
Alignment explanation
Indices: 93096768--93096803 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
93096758 CTGAAACAGG
93096768 GAAGAAAG-AAGGA
1 GAAGAAAGAAAGGA
93096781 GAA-AAAGAAAGGA
1 GAAGAAAGAAAGGA
93096794 -AAGAAAGAAA
1 GAAGAAAGAAA
93096804 AGGGAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (14 bp):
GAAGAAAGAAAGGA
Found at i:93097479 original size:19 final size:15
Alignment explanation
Indices: 93097433--93097474 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
93097423 CGATGAATTT
*
93097433 ATTGAATTTATATTG
1 ATTGAAATTATATTG
93097448 ATTGAAATTATATTG
1 ATTGAAATTATATTG
93097463 ATTG-AATTATAT
1 ATTGAAATTATAT
93097475 AATATACATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:93098129 original size:19 final size:20
Alignment explanation
Indices: 93098105--93098146 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
93098095 ATGAAACGAT
93098105 AAATTGA-AT-TGAGAATTGA
1 AAATTGAGATATGAG-ATTGA
93098124 AAATTGAGATATGAGATTGA
1 AAATTGAGATATGAGATTGA
93098144 AAA
1 AAA
93098147 CATGAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (20 bp):
AAATTGAGATATGAGATTGA
Found at i:93101830 original size:18 final size:19
Alignment explanation
Indices: 93101807--93101845 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
93101797 ATATATTCAC
93101807 ACATTTTCA-CAATTCAAT
1 ACATTTTCATCAATTCAAT
93101825 ACATTTTCATTCAATTCAAT
1 ACATTTTCA-TCAATTCAAT
93101845 A
1 A
93101846 TCAATACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (19 bp):
ACATTTTCATCAATTCAAT
Found at i:93102748 original size:3 final size:3
Alignment explanation
Indices: 93102740--93102791 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
93102730 TTATTTTATT
* *
93102740 TAA TAA TAA T-A TAA T-T TAA -AA TAA TAA TAA TAA TAA TAA TAA T-C
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
93102784 TAA TAA TA
1 TAA TAA TA
93102792 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 6 0.15
3 35 0.85
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:93116092 original size:19 final size:21
Alignment explanation
Indices: 93116068--93116106 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93116058 TGTCATTTAA
93116068 TTTT-AAAAAC-AATCCACTC
1 TTTTAAAAAACTAATCCACTC
93116087 TTTTAAAAAACTAATCCACT
1 TTTTAAAAAACTAATCCACT
93116107 AAAATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (21 bp):
TTTTAAAAAACTAATCCACTC
Found at i:93116281 original size:13 final size:13
Alignment explanation
Indices: 93116263--93116287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93116253 TAGTATATAT
93116263 ACATGTATTTATC
1 ACATGTATTTATC
93116276 ACATGTATTTAT
1 ACATGTATTTAT
93116288 TTTGTCCACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (13 bp):
ACATGTATTTATC
Found at i:93116505 original size:31 final size:31
Alignment explanation
Indices: 93116470--93116539 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 31
93116460 GTTACTTTAG
93116470 TTATTATAATG-AGTCTTTAATT-ATGTCTTGT
1 TTATTA-AATGCA-TCTTTAATTAATGTCTTGT
* *
93116501 TTATTAAATGCATGTTTAATTAATGTCTTGCA
1 TTATTAAATGCATCTTTAATTAATGTCTTG-T
93116533 TTATTAA
1 TTATTAA
93116540 TCTACATCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 12 0.35
31 15 0.44
32 7 0.21
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.51
Consensus pattern (31 bp):
TTATTAAATGCATCTTTAATTAATGTCTTGT
Found at i:93117261 original size:37 final size:37
Alignment explanation
Indices: 93117188--93117262 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
93117178 TTAAGTCTTC
* * * **
93117188 ATCAAGTGAAGAGGCATGACTTTTTAGCTATGCATGA
1 ATCAAGTGAAAAGACATGACTCTTTAGCTACCCATGA
*
93117225 ATCAAGTGAAAAGACATGACTCTTTGGCTACCCATGA
1 ATCAAGTGAAAAGACATGACTCTTTAGCTACCCATGA
93117262 A
1 A
93117263 GAGTTATAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (37 bp):
ATCAAGTGAAAAGACATGACTCTTTAGCTACCCATGA
Found at i:93123444 original size:16 final size:16
Alignment explanation
Indices: 93123393--93123446 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
93123383 ATCTAAGTTT
93123393 TTTTAAATTTATATATA
1 TTTT-AATTTATATATA
** *
93123410 TTTTTTGTTTA-ATAAA
1 -TTTTAATTTATATATA
93123426 TTTTAATTTATATATA
1 TTTTAATTTATATATA
93123442 TTTTA
1 TTTTA
93123447 TGAATTGTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 8 0.28
16 13 0.45
17 4 0.14
18 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTTAATTTATATATA
Found at i:93129394 original size:22 final size:19
Alignment explanation
Indices: 93129369--93129418 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
93129359 TATCCAAACA
93129369 ATAACAACAAAATAGTAACAAT
1 ATAACAACAAAAT-G--ACAAT
*
93129391 ATAATAACAAAATGACAAT
1 ATAACAACAAAATGACAAT
*
93129410 AAAACAACA
1 ATAACAACA
93129419 TCAAAATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 12 0.48
21 1 0.04
22 12 0.48
ACGTcount: A:0.66, C:0.14, G:0.04, T:0.16
Consensus pattern (19 bp):
ATAACAACAAAATGACAAT
Found at i:93131557 original size:4 final size:4
Alignment explanation
Indices: 93131548--93131585 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
93131538 TTCTTTATCT
* *
93131548 TTTA TTTA TTTA TTTA TTTA TTCA -TTC TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
93131586 GTTTTATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 1 0.03
4 28 0.97
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:93131603 original size:5 final size:5
Alignment explanation
Indices: 93131593--93131640 Score: 89
Period size: 5 Copynumber: 9.8 Consensus size: 5
93131583 TTTGTTTTAT
93131593 TATAA TATAA TATAA TATAA TAT-A TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
93131641 CTTAATTCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Done.