Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 131 of 333
Found at i:42379635 original size:40 final size:40
Alignment explanation
Indices: 42379572--42379793 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
42379562 AACCCAAGTA
* * * * *
42379572 CCTTCGGGATTTAG-TCGGATATAG-CAACTCGTACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
** *
42379611 CCTTCGGCTCTTATCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42379651 CCTTCGGGATTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
42379691 CCTTCGGGACTTAGCCCGGATATAGTCACTAGAACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42379731 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42379771 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42379794 CATTCGAATA
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 10 0.06
40 151 0.93
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42405482 original size:40 final size:40
Alignment explanation
Indices: 42405427--42405507 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
42405417 CCTGACAGAC
42405427 TTCATATGTTGCCATAGCCCAACTATGGTCTTACACATTA
1 TTCATATGTTGCCATAGCCCAACTATGGTCTTACACATTA
*
42405467 TTCATATGTTGCCATAGCCCCACTATGGTCTTACACATTA
1 TTCATATGTTGCCATAGCCCAACTATGGTCTTACACATTA
42405507 T
1 T
42405508 GATGCCAAGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (40 bp):
TTCATATGTTGCCATAGCCCAACTATGGTCTTACACATTA
Found at i:42412251 original size:27 final size:27
Alignment explanation
Indices: 42412221--42412375 Score: 211
Period size: 27 Copynumber: 5.7 Consensus size: 27
42412211 TCCCACCTTA
* * *
42412221 CAGGGGTATTTTAGTAATTTCACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAC
**
42412248 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
42412275 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* **
42412302 CAGTGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
42412329 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
42412356 TAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
42412376 AGCTAATCGA
Statistics
Matches: 110, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:42412286 original size:54 final size:54
Alignment explanation
Indices: 42412224--42412436 Score: 252
Period size: 54 Copynumber: 3.9 Consensus size: 54
42412214 CACCTTACAG
*
42412224 GGGTATTTTAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTGTAAACCAA
* * *
42412278 GGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTGTAAACCAA
* * * *
42412332 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTAGCT-AATCGA
1 GGGTATTTTGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTG-TAAACCAA
*** * * *
42412386 GGGTAAAATGGTAA-TTCTATAAATCAAGGGTATTTTGGTAATTTGGTAAAC
1 GGGTATTTTGGTAATTTC-ACAAATCAGGGGTATTTTGGTAATTTTGTAAAC
42412437 TAAATTATTT
Statistics
Matches: 138, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
53 4 0.03
54 132 0.96
55 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTGTAAACCAA
Found at i:42412435 original size:27 final size:26
Alignment explanation
Indices: 42412224--42412435 Score: 169
Period size: 27 Copynumber: 7.8 Consensus size: 26
42412214 CACCTTACAG
* ** *
42412224 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTT-GTAAATCAA
*
42412251 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAA-TTTGTAAATCAA
* *
42412278 GGGTATTTTGGTAATTT-TACAAACCA
1 GGGTATTTTGGTAATTTGTA-AATCAA
*
42412304 GTGGTATTTTGGTAATTTTGTAAACCAA
1 G-GGTATTTTGGTAA-TTTGTAAATCAA
* *
42412332 GGGTATTTTGGTAATTT-TACAAACTAG
1 GGGTATTTTGGTAATTTGTA-AATC-AA
*
42412359 GGGTATTTTGGTAATTTAGCT-AATCGA
1 GGGTATTTTGGTAATTT-G-TAAATCAA
*** *
42412386 GGGTAAAATGGTAATTCTATAAATCAA
1 GGGTATTTTGGTAATT-TGTAAATCAA
42412413 GGGTATTTTGGTAATTTGGTAAA
1 GGGTATTTTGGTAATTT-GTAAA
42412436 CTAAATTATT
Statistics
Matches: 149, Mismatches: 23, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
25 4 0.03
26 16 0.11
27 111 0.74
28 15 0.10
29 2 0.01
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTGTAAATCAA
Found at i:42412437 original size:81 final size:81
Alignment explanation
Indices: 42412244--42412439 Score: 234
Period size: 81 Copynumber: 2.4 Consensus size: 81
42412234 GTAATTTCAC
* *
42412244 AAATCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGTGGT
1 AAATCAAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAGTGGT
*** * *
42412309 ATTTTGGTAATTTTGT
66 AAAATGGTAATTCTAT
* ** * * *
42412325 AAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAA-TTTAGCTAATCGAG-G
1 AAATCAAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTA-C-AAACCAGTG
42412388 GTAAAATGGTAATTCTAT
64 GTAAAATGGTAATTCTAT
*
42412406 AAATCAAGGGTATTTTGGTAATTTGGTAAACTAA
1 AAATCAAGGGTATTTTGGTAATTTTGTAAACTAA
42412440 ATTATTTTAA
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
80 4 0.04
81 86 0.91
82 5 0.05
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (81 bp):
AAATCAAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAGTGGT
AAAATGGTAATTCTAT
Found at i:42417196 original size:17 final size:18
Alignment explanation
Indices: 42417164--42417197 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
42417154 CTCTCCTAAA
42417164 ACGATTCTGATCTTTCTC
1 ACGATTCTGATCTTTCTC
42417182 ACGATTCTG-TCTTTCT
1 ACGATTCTGATCTTTCT
42417198 GTATGCTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.15, C:0.26, G:0.12, T:0.47
Consensus pattern (18 bp):
ACGATTCTGATCTTTCTC
Found at i:42418253 original size:14 final size:15
Alignment explanation
Indices: 42418221--42418255 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
42418211 GTGTGCCACC
42418221 TTTTAAAAAACCTAA
1 TTTTAAAAAACCTAA
*
42418236 TTTTACAAAACC-AA
1 TTTTAAAAAACCTAA
42418250 TTTTAA
1 TTTTAA
42418256 TATTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTTAAAAAACCTAA
Found at i:42419205 original size:27 final size:26
Alignment explanation
Indices: 42419157--42419216 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
42419147 ACAAGGTTGC
*
42419157 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
42419184 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
42419210 CAGATAT
1 CAGATAT
42419217 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:42420398 original size:65 final size:65
Alignment explanation
Indices: 42420319--42420443 Score: 241
Period size: 65 Copynumber: 1.9 Consensus size: 65
42420309 TACCGTCCCA
42420319 ACATAGCAAAATAATCAACCTTTGCATGCCAAGGGATTCAAACCAAAGTCCTCTCACATGGCGTG
1 ACATAGCAAAATAATCAACCTTTGCATGCCAAGGGATTCAAACCAAAGTCCTCTCACATGGCGTG
*
42420384 ACATAGCAAAATAATCAACCTTTGCATGCCAAGGGATTCGAACCAAAGTCCTCTCACATG
1 ACATAGCAAAATAATCAACCTTTGCATGCCAAGGGATTCAAACCAAAGTCCTCTCACATG
42420444 CCAACTCACG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (65 bp):
ACATAGCAAAATAATCAACCTTTGCATGCCAAGGGATTCAAACCAAAGTCCTCTCACATGGCGTG
Found at i:42421344 original size:42 final size:41
Alignment explanation
Indices: 42421236--42421345 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 41
42421226 ATCGACAAAC
* * ** *
42421236 TAAGACCATGTCTGGGACATTGGCATCGAATTTGATTTCGTG
1 TAAGACCATGTCTGGGA-AATGGCATCGAATGTGATAACATG
*
42421278 TAAGACCCTGTCTGGGAAAGTGGCATCGATATGTGATAACATG
1 TAAGACCATGTCTGGGAAA-TGGCATCGA-ATGTGATAACATG
* *
42421321 TAAGACCATATCTAGGAAATGGCAT
1 TAAGACCATGTCTGGGAAATGGCAT
42421346 TGTACGAGCT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.02
42 31 0.54
43 25 0.44
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (41 bp):
TAAGACCATGTCTGGGAAATGGCATCGAATGTGATAACATG
Found at i:42423146 original size:43 final size:42
Alignment explanation
Indices: 42423096--42423187 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
42423086 TCCCGGATGT
* * ** *
42423096 GGTCTTACATGTAATTCA-ATATCGATGCCTCTGTCCCAGATAG
1 GGTCTTACACG-AAATCAGATAT-GATGCCGATGTCCCAGACAG
*
42423139 GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAG
42423181 GGTCTTA
1 GGTCTTA
42423188 TACATAAATC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 28 0.67
43 14 0.33
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (42 bp):
GGTCTTACACGAAATCAGATATGATGCCGATGTCCCAGACAG
Found at i:42423175 original size:42 final size:43
Alignment explanation
Indices: 42423096--42423234 Score: 115
Period size: 43 Copynumber: 3.3 Consensus size: 43
42423086 TCCCGGATGT
* * ** *
42423096 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGATAG
1 GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGACAG
*
42423139 GGTCTTACACG-AAATCAGATAT-GATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAAATCA-ATATCGATGCCGATGTCCCAGACAG
* * * * *
42423181 GGTCTTATACATAAATCTAA-ATCGAGGCCTG-TGTCCTAGACAC
1 GGTCTTACACGTAAATC-AATATCGATGCC-GATGTCCCAGACAG
*
42423224 GATCTTACACG
1 GGTCTTACACG
42423235 ATATCTCAGA
Statistics
Matches: 77, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
42 32 0.42
43 43 0.56
44 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAATATCGATGCCGATGTCCCAGACAG
Found at i:42424830 original size:6 final size:6
Alignment explanation
Indices: 42424819--42424844 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
42424809 AGTTGTAAAG
42424819 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
42424845 ATTTATTTAC
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:42427231 original size:18 final size:18
Alignment explanation
Indices: 42427210--42427248 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
42427200 GATTGAGAGT
* *
42427210 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
42427228 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
42427246 GAA
1 GAA
42427249 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:42428651 original size:6 final size:6
Alignment explanation
Indices: 42428640--42428665 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
42428630 AGTTGTAAAG
42428640 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
42428666 ATTTATTTAC
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:42434391 original size:40 final size:40
Alignment explanation
Indices: 42434314--42434535 Score: 295
Period size: 40 Copynumber: 5.6 Consensus size: 40
42434304 AACCCGAGTA
* * * *
42434314 CCTTTGGGAATTAG-CCGGATATAG-CAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
42434353 CCTTTGGGTCTTAGCCCGGATATAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
42434393 CCTTTGGGACTTAGCCCAGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
42434433 CCTTCGGGACTTAGCTCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
42434473 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
42434513 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42434536 CATCCGAATA
Statistics
Matches: 164, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 12 0.07
40 151 0.92
41 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42442356 original size:40 final size:40
Alignment explanation
Indices: 42442279--42442500 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
42442269 AACCCAAGTA
* * *
42442279 CCTTCGGAAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
42442318 CCTTCGGGTCTTAGCTCGGATATAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42442358 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42442398 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42442438 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42442478 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42442501 CATCCGAATA
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 11 0.07
40 156 0.93
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42445092 original size:21 final size:21
Alignment explanation
Indices: 42445063--42445102 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
42445053 CTGGAAAACA
*
42445063 ATGACCTCTAATCATCAAAGG
1 ATGAACTCTAATCATCAAAGG
42445084 ATGAACTCTAATCATCAAA
1 ATGAACTCTAATCATCAAA
42445103 CGACATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (21 bp):
ATGAACTCTAATCATCAAAGG
Found at i:42448108 original size:47 final size:47
Alignment explanation
Indices: 42448038--42448211 Score: 205
Period size: 50 Copynumber: 3.7 Consensus size: 47
42448028 GAGTAGAATA
*
42448038 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCAAG
* * *
42448085 TCGATGCCATGTCCCAAACATGGTCTTACACTGACTC-TCACATATCCATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC-C--AT-CAAG
* * *
42448135 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACAT--TTTATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCA-AG
42448181 CCGATG-CATGTCCCAGACAT-GTCTTACACTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG
42448212 GCACACAAAT
Statistics
Matches: 111, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
44 11 0.10
45 15 0.14
46 10 0.09
47 35 0.32
49 2 0.02
50 37 0.33
51 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCAAG
Found at i:42448156 original size:50 final size:49
Alignment explanation
Indices: 42448038--42448211 Score: 204
Period size: 47 Copynumber: 3.7 Consensus size: 49
42448028 GAGTAGAATA
* *
42448038 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-C--ATCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCACATATCATG
* *
42448085 TCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCACATATCCATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATAT-CATG
* *
42448135 CCGATGCCATGTCCCAGACATGGTCTTACACTGA----CACATTTTATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCAT-G
42448181 CCGATG-CATGTCCCAGACAT-GTCTTACACTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG
42448212 GCACACAAAT
Statistics
Matches: 114, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
44 11 0.10
45 16 0.14
46 15 0.13
47 35 0.31
49 2 0.02
50 35 0.31
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCATG
Found at i:42452955 original size:20 final size:20
Alignment explanation
Indices: 42452912--42452957 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
42452902 ACTGTTTTGT
*
42452912 TATGGG-CCAACTGTGTTGA
1 TATGGGCCCAACTGTGTTAA
*
42452931 GATGGGCCCAACTGTGTTAA
1 TATGGGCCCAACTGTGTTAA
42452951 TATGGGC
1 TATGGGC
42452958 AAGGCCCAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (20 bp):
TATGGGCCCAACTGTGTTAA
Found at i:42453026 original size:60 final size:59
Alignment explanation
Indices: 42452950--42453086 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
42452940 AACTGTGTTA
* *
42452950 ATATGGGCAAGGCCCAACATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAACATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * * *
42453010 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAACATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
42453070 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
42453087 GTTAACACTG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 51 0.76
61 15 0.22
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAACATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:42455403 original size:46 final size:46
Alignment explanation
Indices: 42455335--42455471 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
42455325 TATATATACA
* * * *
42455335 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
42455381 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
42455427 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
42455472 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:42455505 original size:47 final size:47
Alignment explanation
Indices: 42455445--42455636 Score: 303
Period size: 47 Copynumber: 4.1 Consensus size: 47
42455435 ACACATTTCG
* * * **
42455445 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
42455492 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
42455539 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
42455586 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
42455633 CATT
1 CATT
42455637 AAAATCCTAA
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 137 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:42455588 original size:23 final size:23
Alignment explanation
Indices: 42455561--42455635 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
42455551 GGCCTTATCG
42455561 CACATACGCATGTTCACATTCAT
1 CACATACGCATGTTCACATTCAT
** * *
42455584 CACATTGGCCA--TTCGGCCTT-AT
1 CACATACG-CATGTTC-ACATTCAT
42455606 CACACATACGCATGTTCACATTCAT
1 --CACATACGCATGTTCACATTCAT
42455631 CACAT
1 CACAT
42455636 TAAAATCCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 16 0.43
24 11 0.30
25 5 0.14
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (23 bp):
CACATACGCATGTTCACATTCAT
Found at i:42459099 original size:17 final size:17
Alignment explanation
Indices: 42459077--42459110 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42459067 CACTTATTCA
*
42459077 CTCACAATGCTTTTATT
1 CTCACAATACTTTTATT
*
42459094 CTCACATTACTTTTATT
1 CTCACAATACTTTTATT
42459111 TACATGACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.50
Consensus pattern (17 bp):
CTCACAATACTTTTATT
Found at i:42461986 original size:6 final size:6
Alignment explanation
Indices: 42461975--42462009 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
42461965 TCCTCCTCAA
* *
42461975 CTTCCT CTTCCT TTTCCT TTTCCT CTTCCT CTTCC
1 CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTTCC
42462010 ACTCTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (6 bp):
CTTCCT
Found at i:42463474 original size:19 final size:20
Alignment explanation
Indices: 42463436--42463474 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
42463426 GTCCTTATGT
*
42463436 TGTAAATAGACCATGGATAG
1 TGTAAATAGACCATGAATAG
*
42463456 TGTAAATTGA-CATGAATAG
1 TGTAAATAGACCATGAATAG
42463475 CTATCCATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (20 bp):
TGTAAATAGACCATGAATAG
Found at i:42464369 original size:40 final size:41
Alignment explanation
Indices: 42464303--42464441 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 41
42464293 ATTATGTTTG
* * * *
42464303 GCACTTAGTGTGTG-TATCGAGGTAGCTTCGGCTATATACA
1 GCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATATAAA
**
42464343 GCACTTAGTGTGTGA-ATTG-GAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGTGAGATTGAG-ATAGCTTCGGCTATATAAA
* * **
42464383 GCATTTAGTGTGCGAGATTGAGATAGCTTTAGCTAT-TAAA
1 GCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATATAAA
*
42464423 GAACTTAGTGTGTGAGATT
1 GCACTTAGTGTGTGAGATT
42464442 ATAATAGCTT
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
39 1 0.01
40 64 0.78
41 16 0.20
42 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.35
Consensus pattern (41 bp):
GCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATATAAA
Found at i:42464393 original size:80 final size:81
Alignment explanation
Indices: 42464301--42464482 Score: 197
Period size: 81 Copynumber: 2.2 Consensus size: 81
42464291 CGATTATGTT
* * * * * * *
42464301 TGGCACTTAGTGTGTG-TATCGAGGTAGCTTCGGCTATATACAGCACTTAGTGTGTGA-ATTGGA
1 TGGCACTTAGTGTGCGAGATCGAGATAGCTTCAGCTAT-TAAAGAACTTAGTGTGTGAGATTAGA
42464364 ATAGCTTCGGCTATATA
65 ATAGCTTCGGCTATATA
* * * *
42464381 TGGCATTTAGTGTGCGAGATTGAGATAGCTTTAGCTATTAAAGAACTTAGTGTGTGAGATTATAA
1 TGGCACTTAGTGTGCGAGATCGAGATAGCTTCAGCTATTAAAGAACTTAGTGTGTGAGATTAGAA
** * *
42464446 TAGCTTCAACTATGCTT
66 TAGCTTCGGCTAT-ATA
42464463 TGGCACTTAGTGTGCGAGAT
1 TGGCACTTAGTGTGCGAGAT
42464483 ATAGAGTATT
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
80 31 0.37
81 32 0.39
82 20 0.24
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (81 bp):
TGGCACTTAGTGTGCGAGATCGAGATAGCTTCAGCTATTAAAGAACTTAGTGTGTGAGATTAGAA
TAGCTTCGGCTATATA
Found at i:42466060 original size:20 final size:19
Alignment explanation
Indices: 42466019--42466071 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
42466009 TTCCTTAAGC
* *
42466019 AAGAAGAAAGAAAACTAGCA
1 AAGAAG-AAGAAAAATAACA
42466039 AAGAAGAAGAAACAATAACA
1 AAGAAGAAGAAA-AATAACA
* *
42466059 AAAAATAAGAAAA
1 AAGAAGAAGAAAA
42466072 TTTTGAAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.72, C:0.08, G:0.15, T:0.06
Consensus pattern (19 bp):
AAGAAGAAGAAAAATAACA
Found at i:42469245 original size:46 final size:46
Alignment explanation
Indices: 42469178--42469353 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
42469168 TATTTGGGCA
* *
42469178 TCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
42469224 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GACGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA--T-GCGA-GCG
* * *
42469271 TTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
42469317 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42469354 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 2 0.02
45 3 0.03
46 66 0.62
47 31 0.29
48 3 0.03
50 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:42469333 original size:93 final size:93
Alignment explanation
Indices: 42469174--42469345 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
42469164 GGGATATTTG
* * *
42469174 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42469239 TTGAGTCCGAGTTCGTGAGACGTAACTA
66 TTGAGTCCGAGTTCGTGAGACGTAACTA
* * * *
42469267 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42469332 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
42469346 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGACGTAACTA
Found at i:42473153 original size:16 final size:16
Alignment explanation
Indices: 42473134--42473164 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42473124 CTTCTTCACT
42473134 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
42473150 TACTTACTTACTTAA
1 TACTCACTTACTTAA
42473165 TTAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:42473154 original size:20 final size:20
Alignment explanation
Indices: 42473131--42473170 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
42473121 AAACTTCTTC
*
42473131 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATTAAAT
*
42473151 ACTTACTTACTTAATTAAAT
1 ACTTACTCACTTAATTAAAT
42473171 TTATTAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (20 bp):
ACTTACTCACTTAATTAAAT
Found at i:42473544 original size:55 final size:53
Alignment explanation
Indices: 42473415--42473610 Score: 189
Period size: 55 Copynumber: 3.6 Consensus size: 53
42473405 CTTACCATTT
* *
42473415 CCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
* * * * * *
42473468 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTGACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATG
* * *
42473523 CCATGTGTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTTACCAATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-TG
* * * *
42473578 TCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
42473611 AAACCCTAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
52 2 0.02
53 34 0.29
54 8 0.07
55 71 0.61
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
Found at i:42491001 original size:40 final size:40
Alignment explanation
Indices: 42490940--42491186 Score: 318
Period size: 40 Copynumber: 6.2 Consensus size: 40
42490930 CGGAATTTAG
* * * *
42490940 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * ** *
42490980 CCGGGT-ATAGCAACCCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
42491020 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
42491060 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
42491100 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
42491140 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
42491180 CCGGATA
1 CCGGATA
42491187 TCATTCAAAT
Statistics
Matches: 187, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 181 0.97
41 4 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:42499497 original size:40 final size:40
Alignment explanation
Indices: 42499388--42499672 Score: 371
Period size: 40 Copynumber: 7.2 Consensus size: 40
42499378 CGGAATTTAG
* * * *
42499388 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
42499428 CCGGGT-ATAGCAAC-CGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
42499467 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
42499507 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
42499547 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTC-TAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
42499586 CCGGATAAAATCACTAGCATAAATGCTTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
42499626 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
42499666 CCGGATA
1 CCGGATA
42499673 TCATTCAAAT
Statistics
Matches: 223, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
39 74 0.33
40 145 0.65
41 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:42499510 original size:79 final size:80
Alignment explanation
Indices: 42499388--42499672 Score: 371
Period size: 79 Copynumber: 3.6 Consensus size: 80
42499378 CGGAATTTAG
* * * * * * * *
42499388 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAAC-CGCACAAAT
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACTAGCACAAAT
*
42499451 GCCTTCGGGTCTTAGC
65 GCCTTCGGGTCTTAAC
* * *
42499467 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAAT
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACAAAT
42499531 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
* *
42499547 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTC-TAACCCGGATAAAATCACTAGCATAAATG
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACAAATG
*
42499611 CTTTCGGGTCTTAAC
66 CCTTCGGGTCTTAAC
* *
42499626 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATA
42499673 TCATTCAAAT
Statistics
Matches: 180, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
78 2 0.01
79 111 0.62
80 63 0.35
81 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (80 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATCACTAGCACAAATG
CCTTCGGGTCTTAAC
Found at i:42499610 original size:119 final size:120
Alignment explanation
Indices: 42499384--42499672 Score: 372
Period size: 119 Copynumber: 2.4 Consensus size: 120
42499374 TCTTCGGAAT
* * * * * * *
42499384 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAGCAACAGCAC
* * *
42499447 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAACCCGGATAAATCAACTAGCACAAATGCCTTCGGGTC
*
42499502 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAATC-ACTAGCA
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAGCAAC-AGCA
* * *
42499566 TAAATGCCTTCGGGTC-TAACCCGGATAAAATC-ACTAGCATAAATGCTTTCGGGTC
65 CAAATGCCTTCGGGTCTTAACCCGGAT-AAATCAACTAGCACAAATGCCTTCGGGTC
* * *
42499621 TTAACCCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATA
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATA
42499673 TCATTCAAAT
Statistics
Matches: 150, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
118 4 0.03
119 121 0.81
120 25 0.17
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (120 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAGCAACAGCAC
AAATGCCTTCGGGTCTTAACCCGGATAAATCAACTAGCACAAATGCCTTCGGGTC
Found at i:42506226 original size:46 final size:46
Alignment explanation
Indices: 42506173--42506301 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
42506163 TATTTGGGCA
* *
42506173 TCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
42506219 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * *
42506265 CCCGAGCCCGTTGGGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42506302 GCGGGTTACA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:42518062 original size:46 final size:47
Alignment explanation
Indices: 42518009--42518181 Score: 196
Period size: 46 Copynumber: 3.7 Consensus size: 47
42517999 TATTTGGGCA
*
42518009 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA-TG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTG
* * *
42518055 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT--G
* *
42518100 CATCCGAACTCATTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACT-
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTG
* *
42518148 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
42518182 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.55
47 27 0.26
48 2 0.02
50 4 0.04
51 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTG
Found at i:42518164 original size:93 final size:93
Alignment explanation
Indices: 42518005--42518176 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
42517995 GGGATATTTG
* * * *
42518005 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
42518070 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
42518098 GGCATCCGAACTCATTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACT-CCCGAGCTCGTTGA
1 GGCATCCGAACTCATTGAGTTCAGTCCGAGTTCACTTATGGATGCGAA-TGCCCGAACTCGTTGA
42518162 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
42518177 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:42521981 original size:40 final size:39
Alignment explanation
Indices: 42521891--42522075 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 39
42521881 TCGAATGATG
* * * *
42521891 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
42521931 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
42521971 TTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
**
42522010 TCCGGTTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
42522051 -CCGGGCTATA-TCCCGAAGGCATTTG
1 TCCGGGCTA-AGT-CCGAAGGCATTTG
42522076 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 33 0.27
40 78 0.64
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42522106 original size:79 final size:79
Alignment explanation
Indices: 42521943--42522108 Score: 203
Period size: 79 Copynumber: 2.1 Consensus size: 79
42521933 CGGACTAAGA
** **
42521943 TCCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTA
1 TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTA
*
42522008 AATCCGGTTTAAGT
66 AATCCGGTTTAAAT
* * *
42522022 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATATCCCGAAGGCATTTGAACGAG-TAG
1 TCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTA-AGCCCGAAGGCATTGGAACGAGTTA-
*
42522085 CTATATCCGG-TTAAAT
63 CTAAATCCGGTTTAAAT
42522101 TCCGAAGG
1 TCCGAAGG
42522109 TACGTGATTC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 45 0.61
80 27 0.36
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTA
AATCCGGTTTAAAT
Found at i:42528945 original size:46 final size:46
Alignment explanation
Indices: 42528889--42529058 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
42528879 TTGGGCATCT
*
42528889 GAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
42528935 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* * *
42528982 GAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*
42529028 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
42529059 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 56 0.54
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:42529041 original size:93 final size:93
Alignment explanation
Indices: 42528882--42529053 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
42528872 AGGATATTTG
* * * * *
42528882 GGCATCTGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42528947 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
42528975 GGCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42529040 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
42529054 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:42534905 original size:27 final size:26
Alignment explanation
Indices: 42534874--42534976 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 26
42534864 GTTATTTTAC
42534874 CCTACAAGGGTATTTCGGTAATCCTA
1 CCTACAAGGGTATTTCGGTAATCCTA
*
42534900 CACTACAAGGGTATTTCGATAATCCTA
1 C-CTACAAGGGTATTTCGGTAATCCTA
*
42534927 TCCTACAAGAGTATTTCGGTAATCCTA
1 -CCTACAAGGGTATTTCGGTAATCCTA
* * *
42534954 CCCCACAGGGGTATTTCAGTAAT
1 -CCTACAAGGGTATTTCGGTAAT
42534977 TTTATAAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 65 0.97
28 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (26 bp):
CCTACAAGGGTATTTCGGTAATCCTA
Found at i:42535065 original size:27 final size:26
Alignment explanation
Indices: 42534962--42535185 Score: 130
Period size: 27 Copynumber: 8.3 Consensus size: 26
42534952 TACCCCACAG
* *
42534962 GGGTATTTCAGTAATTTTATAAATTG-
1 GGGTATTTCAGTAATTTCACAAA-TGA
* * * *
42534988 GGATATTTCAGTGATCTT-ACAAGTCA
1 GGGTATTTCAGTAAT-TTCACAAATGA
*
42535014 GGGGTATTTC-GATAATTACACAAATCGA
1 -GGGTATTTCAG-TAATTTCACAAAT-GA
* * *
42535042 GGCTATTTCAGTAATTTCAAAAATTA
1 GGGTATTTCAGTAATTTCACAAATGA
* * * * * *
42535068 GGGTTATTTTAATAATTTTATAACTTGG
1 GGG-TATTTCAGTAATTTCACAA-ATGA
42535096 GGGTATTTCAGTAATTTCACAAATAGA
1 GGGTATTTCAGTAATTTCACAAAT-GA
* * *
42535123 GGGTATTTCAATAATCTCACAAATTA
1 GGGTATTTCAGTAATTTCACAAATGA
* * * *
42535149 GGGGTATTTCAATAATTTTACAACCTGG
1 -GGGTATTTCAGTAATTTCACAA-ATGA
42535177 GGGTATTTC
1 GGGTATTTC
42535186 GAAAATTTTA
Statistics
Matches: 150, Mismatches: 36, Indels: 23
0.72 0.17 0.11
Matches are distributed among these distances:
25 1 0.01
26 23 0.15
27 119 0.79
28 7 0.05
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTCACAAATGA
Found at i:42535153 original size:54 final size:52
Alignment explanation
Indices: 42534960--42535200 Score: 189
Period size: 54 Copynumber: 4.5 Consensus size: 52
42534950 CCTACCCCAC
* * * * * *
42534960 AGGGGTATTTCAGTAATTTTATAAATTGGGATATTTCAGTGATCTT-ACAAGT
1 AGGGGTATTTCAATAATTTCACAAATTGGGGTATTTCAGTAAT-TTCACAAAT
* * * * *
42535012 CAGGGGTATTTCGATAATTACACAAATCGAGGCTATTTCAGTAATTTCAAAAATT
1 -AGGGGTATTTCAATAATTTCACAAATTG-GGGTATTTCAGTAATTTCACAAA-T
* * * * *
42535067 AGGGTTATTTTAATAATTTTATAACTTGGGGGTATTTCAGTAATTTCACAAAT
1 AGGGGTATTTCAATAATTTCACAAATT-GGGGTATTTCAGTAATTTCACAAAT
* * * *
42535120 AGAGGGTATTTCAATAATCTCACAAATTAGGGGTATTTCAATAATTTTACAACCT
1 AG-GGGTATTTCAATAATTTCACAAATT-GGGGTATTTCAGTAATTTCACAA-AT
* *
42535175 GGGGGTATTTCGAA-AATTTTACAAAT
1 AGGGGTATTTC-AATAATTTCACAAAT
42535201 CGAAGGTCTT
Statistics
Matches: 148, Mismatches: 33, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
53 27 0.18
54 115 0.78
55 6 0.04
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (52 bp):
AGGGGTATTTCAATAATTTCACAAATTGGGGTATTTCAGTAATTTCACAAAT
Found at i:42535193 original size:81 final size:81
Alignment explanation
Indices: 42535014--42535200 Score: 250
Period size: 81 Copynumber: 2.3 Consensus size: 81
42535004 TTACAAGTCA
* * * * * *
42535014 GGGGTATTTCGATAATTACACAAATCGAGGCTATTTCAGTAATTTCAAAAATTAGGGTTATTTTA
1 GGGGTATTTCGATAATTTCACAAATAGAGGCTATTTCAATAATCTCAAAAATTAGGGGTATTTCA
* *
42535079 ATAATTTTATAACTTG
66 ATAATTTTACAACCTG
* *
42535095 GGGGTATTTC-AGTAATTTCACAAATAGAGGGTATTTCAATAATCTCACAAATTAGGGGTATTTC
1 GGGGTATTTCGA-TAATTTCACAAATAGAGGCTATTTCAATAATCTCAAAAATTAGGGGTATTTC
42535159 AATAATTTTACAACCTG
65 AATAATTTTACAACCTG
* *
42535176 GGGGTATTTCGAAAATTTTACAAAT
1 GGGGTATTTCGATAATTTCACAAAT
42535201 CGAAGGTCTT
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 1 0.01
81 90 0.98
82 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (81 bp):
GGGGTATTTCGATAATTTCACAAATAGAGGCTATTTCAATAATCTCAAAAATTAGGGGTATTTCA
ATAATTTTACAACCTG
Found at i:42535436 original size:17 final size:18
Alignment explanation
Indices: 42535414--42535450 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
42535404 TTTTATTCGT
*
42535414 TTGGGCCCAC-GAGCCCA
1 TTGGGCCCACACAGCCCA
42535431 TTGGGCCCACACAGCCCA
1 TTGGGCCCACACAGCCCA
42535449 TT
1 TT
42535451 TTGGCCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.19, C:0.41, G:0.24, T:0.16
Consensus pattern (18 bp):
TTGGGCCCACACAGCCCA
Found at i:42547214 original size:43 final size:43
Alignment explanation
Indices: 42547150--42547265 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
42547140 TTATGTAAAA
* *
42547150 AAAAAACGCCGTTAAAGAACATGACCTTTAACGGCGCTTTTAC
1 AAAAAACGCCGCTAAAGAACATGACCTTTAACGGCACTTTTAC
* * * **
42547193 CACAAACGCCGCTAAAGAACATGACATTTAACGGCACTTTTTT
1 AAAAAACGCCGCTAAAGAACATGACCTTTAACGGCACTTTTAC
* *
42547236 AAAAAACGCCACTAAAAAACATGACCTTTA
1 AAAAAACGCCGCTAAAGAACATGACCTTTA
42547266 CTCGCACTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGAACATGACCTTTAACGGCACTTTTAC
Found at i:42556019 original size:14 final size:14
Alignment explanation
Indices: 42556000--42556027 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42555990 TCCTATTTTG
42556000 GTTATTTTTGATTT
1 GTTATTTTTGATTT
42556014 GTTATTTTTGATTT
1 GTTATTTTTGATTT
42556028 TTTGGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (14 bp):
GTTATTTTTGATTT
Found at i:42557904 original size:15 final size:15
Alignment explanation
Indices: 42557886--42557918 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
42557876 TAAGGTGAGT
*
42557886 ATCAACATATATCGC
1 ATCAACATATATCAC
42557901 ATCAACATATATCAC
1 ATCAACATATATCAC
42557916 ATC
1 ATC
42557919 TTATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.27, G:0.03, T:0.27
Consensus pattern (15 bp):
ATCAACATATATCAC
Found at i:42562261 original size:23 final size:22
Alignment explanation
Indices: 42562227--42562279 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
42562217 TTTTTGAGTC
**
42562227 ATTTTGAGTATAGGTTGATAATG
1 ATTTTG-GTATAACTTGATAATG
*
42562250 ATTTTGGTTATAACTTGTTAATG
1 ATTTTGG-TATAACTTGATAATG
*
42562273 AATTTGG
1 ATTTTGG
42562280 CCATATGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (22 bp):
ATTTTGGTATAACTTGATAATG
Found at i:42566479 original size:30 final size:30
Alignment explanation
Indices: 42566445--42566504 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42566435 ATTTAATACG
42566445 AACTTTAAG-AAAATTAAACTTTTGCCCCTA
1 AACTTT-AGCAAAATTAAACTTTTGCCCCTA
* * *
42566475 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGCAAAATTAAACTTTTGCCCCTA
42566505 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAGCAAAATTAAACTTTTGCCCCTA
Found at i:42575610 original size:28 final size:28
Alignment explanation
Indices: 42575578--42575633 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
42575568 ATAACTAAAC
42575578 AATAAACTACATGATTAAATCACCATTG
1 AATAAACTACATGATTAAATCACCATTG
42575606 AATAAACTACATGATTAAATCACCATTG
1 AATAAACTACATGATTAAATCACCATTG
42575634 CTGAATCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (28 bp):
AATAAACTACATGATTAAATCACCATTG
Found at i:42576438 original size:43 final size:43
Alignment explanation
Indices: 42576354--42576482 Score: 136
Period size: 44 Copynumber: 3.0 Consensus size: 43
42576344 ATGTAATAAA
* * *
42576354 ATATCGATGCCACTATCCCAGACAAGGGTCTTACACGAAATCAT
1 ATATCGATGCCAATGTCCCAGAC-ATGGTCTTACACGAAATCAT
* *
42576398 ATA-CGATGCCAATGTCCAAGACATGGTCTTACATGTAAATC-T
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACG-AAATCAT
* * **
42576440 CAAATCGATGCCAACGTCCCAGATGTGGTCTTACACGAAATCA
1 -ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
42576483 CATACTGGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 12 0.17
43 28 0.40
44 30 0.43
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAT
Found at i:42577595 original size:13 final size:13
Alignment explanation
Indices: 42577577--42577601 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42577567 ACAAACGATA
42577577 AAATTTTCACACG
1 AAATTTTCACACG
42577590 AAATTTTCACAC
1 AAATTTTCACAC
42577602 ATATCACATA
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:42582956 original size:49 final size:49
Alignment explanation
Indices: 42582883--42583107 Score: 308
Period size: 49 Copynumber: 4.5 Consensus size: 49
42582873 CTGGTATGCA
42582883 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAT-TCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCT-GGTACACG
* * * ** *
42582932 CAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCTGGTACACG
* * * * *
42582982 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCTGGTACACG
42583033 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
42583082 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
42583108 CGTGACCTCA
Statistics
Matches: 152, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
49 67 0.44
50 45 0.30
51 40 0.26
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
Found at i:42583103 original size:100 final size:99
Alignment explanation
Indices: 42582883--42583114 Score: 324
Period size: 100 Copynumber: 2.3 Consensus size: 99
42582873 CTGGTATGCA
* *
42582883 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGCAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATTCGGTACACACAGTAGCCTGCACTTA
*
42582948 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * *
42582982 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTA-TCAGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATTC-GGTACACACAGTAGCCTGCAC
* ** *
42583046 TTAGTACTACACATGCGACC-AATTATCTGGTACACG
63 TTAGTACTACACACGCGACCTAACCATCTGATACACG
*
42583082 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
42583115 TCACAATAGC
Statistics
Matches: 118, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
99 31 0.26
100 48 0.41
101 39 0.33
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATTCGGTACACACAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:42583796 original size:30 final size:30
Alignment explanation
Indices: 42583762--42583821 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42583752 CTTTAATACG
42583762 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
42583792 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
42583822 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:42585465 original size:46 final size:46
Alignment explanation
Indices: 42585389--42585655 Score: 358
Period size: 46 Copynumber: 5.8 Consensus size: 46
42585379 TGATGTCATA
* * * * *
42585389 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATG
* * **
42585435 GTATCTTTCAACCATGGTCTTATTCATTTTC-TCGTCATATTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCAT-ATCAGGTTGCCATG
42585482 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
42585528 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
42585574 GTATCTTTCAACCATGGTCTTACACATTTCATATTAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
42585620 GTATCTTTCAACCATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA
42585656 TAGAGCACAC
Statistics
Matches: 201, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
46 162 0.81
47 39 0.19
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:42603778 original size:30 final size:30
Alignment explanation
Indices: 42603743--42603806 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
42603733 ATGTTACTTT
42603743 TATATATA-ATTGCTTCT-AAATCTATTTATG
1 TATATATATA-TGCTTCTAAAATCTA-TTATG
* *
42603773 TATATATATATGTTTTTAAAATCTATTATG
1 TATATATATATGCTTCTAAAATCTATTATG
42603803 TATA
1 TATA
42603807 CAACTCATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (30 bp):
TATATATATATGCTTCTAAAATCTATTATG
Found at i:42613894 original size:43 final size:43
Alignment explanation
Indices: 42613801--42613948 Score: 203
Period size: 43 Copynumber: 3.5 Consensus size: 43
42613791 TCGATGCCAC
* * * * *
42613801 TGTCCCAAACAAGGTCTTACACG-TATCAT-A-TACGATGCCAA
1 TGTCCCAAACATGGTCTTACACGTTTTC-TCACTTCGATTCGAA
*
42613842 TGTCCCAAACATGGTCTTACACGTTTTCTCACTTTGATTCGAA
1 TGTCCCAAACATGGTCTTACACGTTTTCTCACTTCGATTCGAA
42613885 TGTCCCAAACATGGTCTTACACGTTTTCTCACTTCGATTCGAA
1 TGTCCCAAACATGGTCTTACACGTTTTCTCACTTCGATTCGAA
*
42613928 TGTCCCAGACATGGTCTTACA
1 TGTCCCAAACATGGTCTTACA
42613949 TGAATCACAC
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
41 23 0.24
42 4 0.04
43 69 0.72
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (43 bp):
TGTCCCAAACATGGTCTTACACGTTTTCTCACTTCGATTCGAA
Found at i:42619419 original size:85 final size:84
Alignment explanation
Indices: 42619259--42619421 Score: 193
Period size: 85 Copynumber: 1.9 Consensus size: 84
42619249 GTCTAAGACA
* * * ** *
42619259 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGA-TTACATATAAGACCACATCTAGGA
42619324 CATCGACATTGTATCTAATT
65 CATCGACATTGTATCTAATT
* * *
42619344 TCGTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAG-TTACATGTAAGACCACATCTAGG
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCG--ATTGAGATTACATATAAGACCACATCTAGG
* *
42619408 ACGTCGGCATTGTA
64 ACATCGACATTGTA
42619422 CTTGCTTATG
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 59 0.91
87 6 0.09
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (84 bp):
TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTACATATAAGACCACATCTAGGAC
ATCGACATTGTATCTAATT
Found at i:42623514 original size:43 final size:42
Alignment explanation
Indices: 42623464--42623562 Score: 137
Period size: 42 Copynumber: 2.3 Consensus size: 42
42623454 TCCCAAACGT
*
42623464 GGTCTTACATGTAATCAAATATCGATGT-CACTGTCCCAGACAG
1 GGTCTTACACGTAATCAAATA-CGATGTCCA-TGTCCCAGACAG
* * *
42623507 GGTCTTACACGAAATCAAATACGATGTCCATGTCTCAGACAT
1 GGTCTTACACGTAATCAAATACGATGTCCATGTCCCAGACAG
42623549 GGTCTTACACGTAA
1 GGTCTTACACGTAA
42623563 ATCTCAAATC
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 29 0.58
43 21 0.42
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGTCCATGTCCCAGACAG
Found at i:42623565 original size:43 final size:44
Alignment explanation
Indices: 42623453--42623617 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 44
42623443 TAATGCTAGC
* * *
42623453 GTCCCAAACGTGGTCTTACATGT-AATCAAATATCGATGTCACT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATGTCACT
*
42623496 GTCCCAGACAGGGTCTTACACG-AAATCAAATA-CGATGTC-CAT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATGTCAC-T
* * *
42623538 GTCTCAGACATGGTCTTACACGTAAATCTCAA-ATCAAT-TCCAAC-
1 GTCCCAGACATGGTCTTACACGTAAATC-AAATATCGATGT-C-ACT
** *
42623582 GTCCCAGATGTGGTCTTACACG-AAATTAAATATCGA
1 GTCCCAGACATGGTCTTACACGTAAATCAAATATCGA
42623618 AATCCTATGT
Statistics
Matches: 99, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
41 1 0.01
42 30 0.30
43 42 0.42
44 25 0.25
46 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATATCGATGTCACT
Found at i:42624966 original size:53 final size:53
Alignment explanation
Indices: 42624879--42624981 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
42624869 AGAATTTGTA
42624879 ATTTATAGTGACATGTCATTGAATGATTTAGGTTGCGTATTAATGCAAGAGTG
1 ATTTATAGTGACATGTCATTGAATGATTTAGGTTGCGTATTAATGCAAGAGTG
* * *
42624932 ATTTATAGTGACATGTCATTGAATTATTTGGGTTGCGTATTGATGCAAGA
1 ATTTATAGTGACATGTCATTGAATGATTTAGGTTGCGTATTAATGCAAGA
42624982 AGGAAAAGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (53 bp):
ATTTATAGTGACATGTCATTGAATGATTTAGGTTGCGTATTAATGCAAGAGTG
Found at i:42630510 original size:48 final size:46
Alignment explanation
Indices: 42630313--42630527 Score: 225
Period size: 46 Copynumber: 4.6 Consensus size: 46
42630303 TGATATGTGT
42630313 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAATATGAAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAATATGAAA
*
42630359 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAATATGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAATATGAAA
* * * * * **
42630405 GCTAATGTAAGACATGTCTGGGACATGCTTCGGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAC-A-ATATGAAA
* * * * * *
42630453 GCCAATGTAAGACATGTTTAGGACATGCATCGGCCTCGCGATAT-ACAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAG-C-CACAATATGA-AA
* * *
42630501 GCTAGTGTAAGACTTATCTGGGACATG
1 GCTAGTGTAAGACATGTCTAGGACATG
42630528 GCGTCAGCTT
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
46 77 0.54
47 1 0.01
48 61 0.43
49 1 0.01
50 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACAATATGAAA
Found at i:42644134 original size:30 final size:30
Alignment explanation
Indices: 42644100--42644169 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
42644090 TAGCCTGTGT
42644100 GCGCTGCTGCTTGCTCCCAACTCCTGCTAC
1 GCGCTGCTGCTTGCTCCCAACTCCTGCTAC
42644130 GCGCTGCTGCTTGCTCCCAACTCCTGCTAC
1 GCGCTGCTGCTTGCTCCCAACTCCTGCTAC
*
42644160 GTGCTGCTGC
1 GCGCTGCTGC
42644170 CTCGCGCACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.09, C:0.41, G:0.23, T:0.27
Consensus pattern (30 bp):
GCGCTGCTGCTTGCTCCCAACTCCTGCTAC
Found at i:42648646 original size:48 final size:48
Alignment explanation
Indices: 42648482--42648650 Score: 166
Period size: 48 Copynumber: 3.6 Consensus size: 48
42648472 TGATATGTGT
* * * **
42648482 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGTGATATACAA
* * * ** *
42648530 GCCAGTGTAAGACATGTTTGGGACATGCATTGA--TATTG--AGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGTGATATAC-A-A
*
42648576 GCTAGTGTAAGACATGTTTGGGACATGCATCGACCTCGTGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGTGATATACAA
* *
42648624 GCTAGTGTAAGACCTATCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
42648651 GCGTCAACTT
Statistics
Matches: 96, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 34 0.35
48 56 0.58
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGTGATATACAA
Found at i:42654272 original size:22 final size:22
Alignment explanation
Indices: 42654247--42654326 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 22
42654237 TCAAACCACC
42654247 ACCAATAGTTTAAGCTAAGCAA
1 ACCAATAGTTTAAGCTAAGCAA
*** *
42654269 ACCAATATGAAACCATAGCTCAAAGCACC
1 ACCAATA-G--TTTA-AGCT--AAGCA-A
42654298 ACCAATAGTTTAAGCTAAGCAA
1 ACCAATAGTTTAAGCTAAGCAA
42654320 ACCAATA
1 ACCAATA
42654327 AAATAACGCT
Statistics
Matches: 43, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
22 14 0.33
23 6 0.14
25 5 0.12
26 5 0.12
28 6 0.14
29 7 0.16
ACGTcount: A:0.46, C:0.24, G:0.11, T:0.19
Consensus pattern (22 bp):
ACCAATAGTTTAAGCTAAGCAA
Found at i:42654280 original size:51 final size:51
Alignment explanation
Indices: 42654222--42654326 Score: 201
Period size: 51 Copynumber: 2.1 Consensus size: 51
42654212 CATAAAAATT
42654222 ATATGAAACCATAGCTCAAACCACCACCAATAGTTTAAGCTAAGCAAACCA
1 ATATGAAACCATAGCTCAAACCACCACCAATAGTTTAAGCTAAGCAAACCA
*
42654273 ATATGAAACCATAGCTCAAAGCACCACCAATAGTTTAAGCTAAGCAAACCA
1 ATATGAAACCATAGCTCAAACCACCACCAATAGTTTAAGCTAAGCAAACCA
42654324 ATA
1 ATA
42654327 AAATAACGCT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.46, C:0.26, G:0.10, T:0.18
Consensus pattern (51 bp):
ATATGAAACCATAGCTCAAACCACCACCAATAGTTTAAGCTAAGCAAACCA
Found at i:42656249 original size:40 final size:40
Alignment explanation
Indices: 42656161--42656377 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
42656151 CGGATGATAA
* * *
42656161 CCGGGCTAAGTCCCGAAGGAATTTGTGCTAG-TGCTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
42656200 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
42656240 CTGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * **
42656280 CCGGGTTAAGTCCCGAAGGCATTTGTGCAACCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
42656320 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
42656360 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
42656378 TACTTGGTTT
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 45 0.29
40 111 0.71
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:42659542 original size:12 final size:12
Alignment explanation
Indices: 42659525--42659557 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
42659515 CCCGTATGCC
42659525 AGGCCATGTGCT
1 AGGCCATGTGCT
42659537 AGGCCATGTGCT
1 AGGCCATGTGCT
42659549 AGGCCATGT
1 AGGCCATGT
42659558 AACTTCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.24, G:0.33, T:0.24
Consensus pattern (12 bp):
AGGCCATGTGCT
Found at i:42665091 original size:40 final size:40
Alignment explanation
Indices: 42665036--42665144 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
42665026 TCTAGTGTAA
* *
42665036 TTCAGTCGGATTAGCTCTTATGAGCTTTTGTATGGTGTGT
1 TTCAGTTGGATTAGCTCTTATGAGCTTTTGTATAGTGTGT
*
42665076 TTCAGTTGGATTAGCTCTTATGAGCTTTTGTCTAGTGTGT
1 TTCAGTTGGATTAGCTCTTATGAGCTTTTGTATAGTGTGT
* *
42665116 TTCGGTTGGATTAGCTCATATGAGCTTTT
1 TTCAGTTGGATTAGCTCTTATGAGCTTTT
42665145 ATCTGGTATG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.16, C:0.13, G:0.26, T:0.46
Consensus pattern (40 bp):
TTCAGTTGGATTAGCTCTTATGAGCTTTTGTATAGTGTGT
Found at i:42668550 original size:27 final size:27
Alignment explanation
Indices: 42668489--42668640 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
42668479 TAAATTGTAC
* *
42668489 AGCACTAAGTGTGCGAGTTGGAATATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
42668517 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
42668544 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
42668571 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
42668599 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
42668626 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42668641 GACTTAATAT
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
27 70 0.62
28 43 0.38
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:42668555 original size:55 final size:55
Alignment explanation
Indices: 42668489--42668640 Score: 225
Period size: 55 Copynumber: 2.8 Consensus size: 55
42668479 TAAATTGTAC
*
42668489 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
42668544 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
42668599 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
42668641 GACTTAATAT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 23 0.26
55 64 0.74
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:42668603 original size:82 final size:82
Alignment explanation
Indices: 42668489--42668640 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
42668479 TAAATTGTAC
* *
42668489 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
42668554 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
42668571 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
42668636 GTGCG
66 GTGCG
42668641 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:42672088 original size:19 final size:19
Alignment explanation
Indices: 42672064--42672100 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
42672054 CTTTATAAGG
42672064 GACTCTATATTGATGGTTA
1 GACTCTATATTGATGGTTA
42672083 GACTCTATATTGATGGTT
1 GACTCTATATTGATGGTT
42672101 GATCTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (19 bp):
GACTCTATATTGATGGTTA
Found at i:42678996 original size:18 final size:18
Alignment explanation
Indices: 42678955--42678996 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
42678945 ATAGTTAAGT
*
42678955 AAAGAAACAAAAGAAATA
1 AAAGAAACAAAAGAAAGA
*
42678973 AAAGAAA-AAAAGAAGGA
1 AAAGAAACAAAAGAAAGA
42678990 AACAGAA
1 AA-AGAA
42678997 TAAGGAACGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (18 bp):
AAAGAAACAAAAGAAAGA
Found at i:42679641 original size:20 final size:19
Alignment explanation
Indices: 42679618--42679655 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
42679608 TTTATATTCC
42679618 GAATTTAATATTTAATTGTT
1 GAATTTAATATTT-ATTGTT
*
42679638 GAATTTATTATTTATTGT
1 GAATTTAATATTTATTGT
42679656 GTAGGTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (19 bp):
GAATTTAATATTTATTGTT
Found at i:42687891 original size:63 final size:65
Alignment explanation
Indices: 42687818--42687968 Score: 189
Period size: 70 Copynumber: 2.2 Consensus size: 65
42687808 AAGACTCAAA
*
42687818 AATTAAAA-TTTTTTATTTCTTTTT-TTTGTTTTACTTGAAAAGATATATTCTCAGTATCGTTCT
1 AATTAAAATTTTTTTATTTCTTTTTGTTTGTTTTACTTGAAAAGATATATTCTCACTATCGTTCT
* * *
42687881 AATTAAAATTTTAGATTTCTTTTTTTTTTTGTTTGTTTTACTTGAAAAGATTTATTCTCACTATC
1 AATTAAAA-TTT---TTT-TATTTCTTTTTGTTTGTTTTACTTGAAAAGATATATTCTCACTATC
42687946 GTTCT
61 GTTCT
42687951 AACTTAAAAGTTTTTTTA
1 AA-TTAAAA-TTTTTTTA
42687969 AAAGGAAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
63 8 0.11
65 2 0.03
67 1 0.01
68 6 0.08
69 9 0.12
70 39 0.53
71 9 0.12
ACGTcount: A:0.27, C:0.09, G:0.08, T:0.56
Consensus pattern (65 bp):
AATTAAAATTTTTTTATTTCTTTTTGTTTGTTTTACTTGAAAAGATATATTCTCACTATCGTTCT
Found at i:42694188 original size:11 final size:10
Alignment explanation
Indices: 42694162--42694227 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 10
42694152 GATATTAGAG
*
42694162 ATATTTTGATG
1 ATATTTT-ATA
42694173 ATATTTTATA
1 ATATTTTATA
42694183 ATTATTTTATTA
1 A-TATTTTA-TA
42694195 ATATTTTAATGA
1 ATATTTT-AT-A
42694207 GATATTTTATTA
1 -ATATTTTA-TA
*
42694219 TTATTTTAT
1 ATATTTTAT
42694228 TTAGTATATA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
10 4 0.09
11 28 0.60
12 7 0.15
13 8 0.17
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (10 bp):
ATATTTTATA
Found at i:42694228 original size:11 final size:11
Alignment explanation
Indices: 42694173--42694228 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
42694163 TATTTTGATG
42694173 ATATTTTA-TA
1 ATATTTTATTA
42694183 ATTATTTTATTA
1 A-TATTTTATTA
*
42694195 ATATTTTAATGA
1 ATATTTT-ATTA
42694207 GATATTTTATTA
1 -ATATTTTATTA
*
42694219 TTATTTTATT
1 ATATTTTATT
42694229 TAGTATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 1 0.03
11 22 0.56
12 9 0.23
13 7 0.18
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (11 bp):
ATATTTTATTA
Found at i:42708772 original size:19 final size:19
Alignment explanation
Indices: 42708744--42708781 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
42708734 GAGTGAAAGG
42708744 AACAAGAAAC-GGGCCAAA
1 AACAAGAAACTGGGCCAAA
42708762 AACAGAGAAACTGGGCCAAA
1 AACA-AGAAACTGGGCCAAA
42708782 GTACAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 8 0.44
ACGTcount: A:0.53, C:0.21, G:0.24, T:0.03
Consensus pattern (19 bp):
AACAAGAAACTGGGCCAAA
Found at i:42711150 original size:22 final size:22
Alignment explanation
Indices: 42711125--42711167 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
42711115 GACTATGCGA
42711125 TCTGAGCTCATGAGT-TATGTGG
1 TCTGAGCTCATGA-TATATGTGG
42711147 TCTGAGCTCATGATATATGTG
1 TCTGAGCTCATGATATATGTG
42711168 ACACATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (22 bp):
TCTGAGCTCATGATATATGTGG
Found at i:42713410 original size:48 final size:47
Alignment explanation
Indices: 42713265--42713581 Score: 211
Period size: 49 Copynumber: 6.7 Consensus size: 47
42713255 ATGGATATGT
* * * *
42713265 GCTAGTGTAAGACATGTCTGGGTCATGCATCAGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAATATGAGA
* * * * * * *
42713311 GCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCAT-TAAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAATATGAGA
*
42713359 GCTAGTGTAAGACATGTATGGGACATGCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-ATATG-AGA
* * * * *
42713407 GCTAGTGTAAGACCTATCTGGGACATGGCATCGG-CTTG-ACATGTG-
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAATATGAGA
* * * * *
42713452 TC-AGTGTAAGACTTGTCTGGGGCATGACATCGACAC-CGATAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATG-CATCGGC-CTCGA-ATATGAGA
* * * *
42713500 GCCAGTGTAAGACCTGTTTGGGACATGCCATCGGCCTCGATATATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATG-CATCGGCCTCGA-ATATGAGA
* *
42713549 G-TCAATGTAAGACCTGTCTGGGACATGGCATCG
1 GCT-AGTGTAAGACATGTCTGGGACAT-GCATCG
42713582 ACTTAGATGT
Statistics
Matches: 213, Mismatches: 40, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 25 0.12
45 2 0.01
46 24 0.11
47 31 0.15
48 57 0.27
49 72 0.34
50 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAATATGAGA
Found at i:42713511 original size:93 final size:94
Alignment explanation
Indices: 42713265--42713534 Score: 279
Period size: 93 Copynumber: 2.9 Consensus size: 94
42713255 ATGGATATGT
* *
42713265 GCTAGTGTAAGACATGTCTGGGTCATGCATCAGCCA-C-AT-TATGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACACCGATATATGAGAGCCAGTGTAAGACC-T
*
42713327 GTTTGGGACATGGCATCAGCATTAAGACGAGA
64 GTTTGGGACATGGCATCGGCATT-AGACGAGA
* * * *
42713359 GCTAGTGTAAGACATGTATGGGACATGCATCGGC-CTCGAGATATGCA-AGCTAGTGTAAGACCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACAC-CGATATATG-AGAGCCAGTGTAAGACCT
* * *
42713422 ATCTGGGACATGGCATCGGC-TT-GAC-ATGT
64 GTTTGGGACATGGCATCGGCATTAGACGA-GA
* * *
42713451 G-TCAGTGTAAGACTTGTCTGGGGCATGACATCGACACCGATAGATGAGAGCCAGTGTAAGACCT
1 GCT-AGTGTAAGACATGTCTGGGACATG-CATCGACACCGATATATGAGAGCCAGTGTAAGACCT
*
42713515 GTTTGGGACATGCCATCGGC
64 GTTTGGGACATGGCATCGGC
42713535 CTCGATATAT
Statistics
Matches: 147, Mismatches: 19, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
91 2 0.01
92 27 0.18
93 47 0.32
94 33 0.22
95 19 0.13
96 18 0.12
97 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACACCGATATATGAGAGCCAGTGTAAGACCTGT
TTGGGACATGGCATCGGCATTAGACGAGA
Found at i:42726159 original size:191 final size:191
Alignment explanation
Indices: 42725816--42726172 Score: 588
Period size: 191 Copynumber: 1.9 Consensus size: 191
42725806 TCCAATAAGT
* *
42725816 GAGTTATAATAATGTCATATTAAGATTTGGTTAGAAAATTTTAACGTTAAATAGTTAATTAATTA
1 GAGTCATAAAAATGTCATATTAAGATTTGGTTAGAAAATTTTAACGTTAAATAGTTAATTAATTA
* * * * *
42725881 AAAAGGACTAAATATTAAAAGTTGTAAATATTAGTTTTTACTATTTAAAGGAGTTAAATAGCTAT
66 AAAAGGACAAAATAGTAAAAGTTGTAAACATTAGTTTCTACTATTTAAAGGAGTTAAATAACTAT
* *
42725946 AGAATAAGGAAGTGGTGGATTATTATGGAAATTAAATATTAGTATTTAATTATTATTTATA
131 AGAATAAGGAAATAGTGGATTATTATGGAAATTAAATATTAGTATTTAATTATTATTTATA
* * *
42726007 GAGTCATAAAAATGTCGTGTTAAGATTTGGTTAGAAAATTTTAACGTTAAATATTTAATTAATTA
1 GAGTCATAAAAATGTCATATTAAGATTTGGTTAGAAAATTTTAACGTTAAATAGTTAATTAATTA
* *
42726072 AAAAGGACAAAATCGTAAAAGTTGTAAACATTAGTTTCTATTATTTAAAGGAGTTAAATAACTAT
66 AAAAGGACAAAATAGTAAAAGTTGTAAACATTAGTTTCTACTATTTAAAGGAGTTAAATAACTAT
42726137 AGAATAAGGAAATAGTGGATTATTATGGAAATTAAA
131 AGAATAAGGAAATAGTGGATTATTATGGAAATTAAA
42726173 CAATCATTTA
Statistics
Matches: 152, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
191 152 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (191 bp):
GAGTCATAAAAATGTCATATTAAGATTTGGTTAGAAAATTTTAACGTTAAATAGTTAATTAATTA
AAAAGGACAAAATAGTAAAAGTTGTAAACATTAGTTTCTACTATTTAAAGGAGTTAAATAACTAT
AGAATAAGGAAATAGTGGATTATTATGGAAATTAAATATTAGTATTTAATTATTATTTATA
Found at i:42730046 original size:37 final size:37
Alignment explanation
Indices: 42729992--42730069 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
42729982 ATCCAACCAA
* *
42729992 AACACGCAAAATTCTCATGAGATCTAATCCAACTGAT
1 AACACGCAAAATGCTCATGAGAGCTAATCCAACTGAT
*
42730029 AACACGCCAAATGCTCATGAGAGCTAATCCAACTGAT
1 AACACGCAAAATGCTCATGAGAGCTAATCCAACTGAT
42730066 AACA
1 AACA
42730070 AGCCTCCGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.21
Consensus pattern (37 bp):
AACACGCAAAATGCTCATGAGAGCTAATCCAACTGAT
Found at i:42742164 original size:51 final size:51
Alignment explanation
Indices: 42742023--42742180 Score: 235
Period size: 51 Copynumber: 3.1 Consensus size: 51
42742013 TTTTAAGAGT
* **
42742023 CACACGCCTATGTGGCTTGGGACATGCCTGTGTGGGCAGAACGTGTGGTCA
1 CACACGCCCATGTGGCTTGGGACATGCCTGTGTGGGCAGGCCGTGTGGTCA
* *
42742074 CACACGCCCATGTGGCTTGAGACATGCCCGTGTGGGCAGGCCGTGTGGTCA
1 CACACGCCCATGTGGCTTGGGACATGCCTGTGTGGGCAGGCCGTGTGGTCA
* * * *
42742125 CACACGCCCATGTAGCTTGGGACATGCCTGTGTGGGCAGGCTGTATAGTCA
1 CACACGCCCATGTGGCTTGGGACATGCCTGTGTGGGCAGGCCGTGTGGTCA
42742176 CACAC
1 CACAC
42742181 ACCCGTGTCT
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 96 1.00
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.22
Consensus pattern (51 bp):
CACACGCCCATGTGGCTTGGGACATGCCTGTGTGGGCAGGCCGTGTGGTCA
Found at i:42744326 original size:12 final size:14
Alignment explanation
Indices: 42744295--42744331 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
42744285 TATTTTATTT
42744295 ATATTAAGATAATTA
1 ATATTAAGATAA-TA
42744310 ATATTAAGAT-A-A
1 ATATTAAGATAATA
42744322 ATATTAAGAT
1 ATATTAAGAT
42744332 TATTTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.50
14 1 0.05
15 10 0.45
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (14 bp):
ATATTAAGATAATA
Found at i:42750743 original size:3 final size:3
Alignment explanation
Indices: 42750735--42750782 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
42750725 TTTATTTCTG
*
42750735 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
42750782 T
1 T
42750783 TTTTTTTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:42750801 original size:11 final size:11
Alignment explanation
Indices: 42750767--42750804 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
42750757 ATTATTATTA
*
42750767 TTATTTTTTTA
1 TTATTTTTTTT
42750778 TTATTTTTTTT
1 TTATTTTTTTT
42750789 TT-TTTTTTATT
1 TTATTTTTT-TT
42750800 TTATT
1 TTATT
42750805 ATATTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 6 0.25
11 16 0.67
12 2 0.08
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (11 bp):
TTATTTTTTTT
Found at i:42750964 original size:21 final size:22
Alignment explanation
Indices: 42750940--42750983 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
42750930 GCCCTAGACT
*
42750940 AGCCCTA-ACCTGCAGCCAAAC
1 AGCCCTACACCTACAGCCAAAC
42750961 AGCCCTACACCTACAGCCAAAC
1 AGCCCTACACCTACAGCCAAAC
42750983 A
1 A
42750984 CCACTTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.36, C:0.43, G:0.11, T:0.09
Consensus pattern (22 bp):
AGCCCTACACCTACAGCCAAAC
Found at i:42752078 original size:18 final size:20
Alignment explanation
Indices: 42752041--42752081 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
42752031 TGTCGTTTTA
*
42752041 GCTGCTGAATTTTTGTTGTT
1 GCTGCTGAATTTTGGTTGTT
42752061 GCTGCTG-A-TTTGGTTGTT
1 GCTGCTGAATTTTGGTTGTT
42752079 GCT
1 GCT
42752082 ATTGTTGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 1 0.05
20 7 0.35
ACGTcount: A:0.07, C:0.12, G:0.29, T:0.51
Consensus pattern (20 bp):
GCTGCTGAATTTTGGTTGTT
Found at i:42756625 original size:44 final size:44
Alignment explanation
Indices: 42756562--42756651 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
42756552 GACATATGCG
42756562 TCGTCGACACAATACCGTTAGACAACTAATCTCAAATAGAGTTA
1 TCGTCGACACAATACCGTTAGACAACTAATCTCAAATAGAGTTA
*
42756606 TCGTCGACACAATACCGTTAGTCAACTAATCTCAAATAGAGTTA
1 TCGTCGACACAATACCGTTAGACAACTAATCTCAAATAGAGTTA
42756650 TC
1 TC
42756652 TCTATTATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (44 bp):
TCGTCGACACAATACCGTTAGACAACTAATCTCAAATAGAGTTA
Found at i:42758662 original size:20 final size:20
Alignment explanation
Indices: 42758637--42758681 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
42758627 CCTTAAATTG
**
42758637 TTTTATTTATAAGGTTATTA
1 TTTTATTTATAAACTTATTA
42758657 TTTTATTTATAAACTTATTA
1 TTTTATTTATAAACTTATTA
42758677 TTTTA
1 TTTTA
42758682 ATAGACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTATTTATAAACTTATTA
Found at i:42761342 original size:2 final size:2
Alignment explanation
Indices: 42761335--42761366 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
42761325 CATTTGATAT
42761335 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
42761367 CCTTAGATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:42762238 original size:77 final size:77
Alignment explanation
Indices: 42762144--42762330 Score: 211
Period size: 79 Copynumber: 2.4 Consensus size: 77
42762134 AGTTTCGCTA
* * *
42762144 CTTCAATGAAGGAAATAATGTTATTTGAGTTAAAGA-AAAAA-AAA-AAGCA-AAAGAAACTTAA
1 CTTCAGTGAAGTAAATAATGATATTTGAGTTAAA-ATAAAAATAAATAA--ATAAAGAAACTTAA
42762205 AAAGTTAGCTGCACCG
63 AAAGTT-GCTGCACCG
*
42762221 CTTCAGTGAAGTAAATAATGATGTTTGAGTTTTAAAATAAAAATAAATAAATAAAGAAACTTAAA
1 CTTCAGTGAAGTAAATAATGATATTTGAG--TTAAAATAAAAATAAATAAATAAAGAAACTTAAA
* *
42762286 TAGTTGCTTCACCG
64 AAGTTGCTGCACCG
* * *
42762300 CGTCAGTGAAATAAATAATGGTATTTGAGTT
1 CTTCAGTGAAGTAAATAATGATATTTGAGTT
42762331 TTACACAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
77 27 0.29
78 1 0.01
79 44 0.47
80 20 0.21
81 2 0.02
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (77 bp):
CTTCAGTGAAGTAAATAATGATATTTGAGTTAAAATAAAAATAAATAAATAAAGAAACTTAAAAA
GTTGCTGCACCG
Found at i:42763986 original size:45 final size:45
Alignment explanation
Indices: 42763936--42764025 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
42763926 CCTCATGACA
42763936 ACATTAAAGTGATTGATGATGCAATAATTGTTTATTCTCCAATTT
1 ACATTAAAGTGATTGATGATGCAATAATTGTTTATTCTCCAATTT
*
42763981 ACATTAAAGTGATTGATGATGCAATAGTTGTTTATTCTCCAATTT
1 ACATTAAAGTGATTGATGATGCAATAATTGTTTATTCTCCAATTT
42764026 TTCTTCTCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (45 bp):
ACATTAAAGTGATTGATGATGCAATAATTGTTTATTCTCCAATTT
Found at i:42770188 original size:18 final size:17
Alignment explanation
Indices: 42770161--42770194 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
42770151 TTCAATTGAT
42770161 AATGAAACCATTAAGTC
1 AATGAAACCATTAAGTC
42770178 AATGTAAACCATTAAGT
1 AATG-AAACCATTAAGT
42770195 TAATCTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (17 bp):
AATGAAACCATTAAGTC
Found at i:42773353 original size:18 final size:17
Alignment explanation
Indices: 42773316--42773366 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
42773306 AAGATAAAAA
42773316 ATATT-ATTTTCTTTACAT
1 ATATTCATTTTCTTT--AT
*
42773334 ATATTCTTTTTACTTTAT
1 ATATTCATTTT-CTTTAT
*
42773352 ATTTTCATTTTCTTT
1 ATATTCATTTTCTTT
42773367 CTTCTTCCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 4 0.14
18 16 0.57
19 4 0.14
20 4 0.14
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTCATTTTCTTTAT
Found at i:42774437 original size:89 final size:89
Alignment explanation
Indices: 42774274--42774494 Score: 261
Period size: 89 Copynumber: 2.4 Consensus size: 89
42774264 TTTAAGTGTG
* * * **
42774274 TAAAAAACCCTCAAACTTTTTGAAAAAAAGTAATTAAGCCATTGTTTTTTTTTTGGCACTCAATT
1 TAAAAAACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCACTGTCCTTTTTTTGGCACTCAATT
*
42774339 GGATACTTGAACTTTCAAAATGCA
66 GGATACTTGAACTATCAAAATGCA
42774363 TCAAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTAAGTCC-CTG-CCTTTTTTT-GCACTCA
1 T-AAAAA-ACCCTCAAACTTTTTCAAAAAAAGCAATTAAG-CCACTGTCCTTTTTTTGGCACTCA
42774425 ATTAGG-TACTTGAACTATCAAAATGCA
63 ATT-GGATACTTGAACTATCAAAATGCA
****
42774452 TAAAAAAAGCCCTCAAACTTAAAAAAAAAGAAGCAATTAAGCC
1 T-AAAAAA-CCCTCAAACTTTTTCAAAAA-AAGCAATTAAGCC
42774495 CCTAATTTTT
Statistics
Matches: 115, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
88 1 0.01
89 55 0.48
90 25 0.22
91 32 0.28
92 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (89 bp):
TAAAAAACCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCACTGTCCTTTTTTTGGCACTCAATT
GGATACTTGAACTATCAAAATGCA
Found at i:42774504 original size:89 final size:87
Alignment explanation
Indices: 42774321--42774551 Score: 243
Period size: 89 Copynumber: 2.6 Consensus size: 87
42774311 GCCATTGTTT
* * ***
42774321 TTTTTTTGGCACTCAATTGGATACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTTTT
1 TTTTTTT-GCACTCAATTGG-TACTTGAACTATCAAAATGCATAAAAAAG-CCCTCAAACTTAAA
* * **
42774386 CAAAAAAAGCAATTAAGTCCCTGCC
63 AAAAAAAAGCAATTAAGCCCCTGAA
42774411 TTTTTTTGCACTCAATTAGGTACTTGAACTATCAAAATGCATAAAAAAAGCCCTCAAACTTAAAA
1 TTTTTTTGCACTCAATT-GGTACTTGAACTATCAAAATGCAT-AAAAAAGCCCTCAAACTTAAAA
42774476 AAAAAGAAGCAATTAAGCCCCT-AA
64 AAAAA-AAGCAATTAAGCCCCTGAA
* * * * *
42774500 -TTTTTTCCACTCTATTGAGTACTTGAATTGTC-AAATACATCAAAAAAGCCCT
1 TTTTTTTGCACTCAATTG-GTACTTGAACTATCAAAATGCAT-AAAAAAGCCCT
42774552 TTGATTGTTA
Statistics
Matches: 122, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
87 19 0.16
88 26 0.21
89 47 0.39
90 30 0.25
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (87 bp):
TTTTTTTGCACTCAATTGGTACTTGAACTATCAAAATGCATAAAAAAGCCCTCAAACTTAAAAAA
AAAAAGCAATTAAGCCCCTGAA
Found at i:42774677 original size:10 final size:9
Alignment explanation
Indices: 42774664--42774794 Score: 50
Period size: 10 Copynumber: 13.8 Consensus size: 9
42774654 AATATTAAAA
42774664 ATAAAAATCT
1 ATAAAAAT-T
*
42774674 ATAAAAGTT
1 ATAAAAATT
*
42774683 ATAAAATTT
1 ATAAAAATT
**
42774692 ATTAAATTTT
1 A-TAAAAATT
42774702 AATAAAAA-T
1 -ATAAAAATT
42774711 ATAAAAATAT
1 ATAAAAAT-T
* **
42774721 TTAAATTTT
1 ATAAAAATT
*
42774730 CCTAAAAATT
1 -ATAAAAATT
* *
42774740 AGAAATAAAT
1 ATAAA-AATT
42774750 ATAAAAATCGT
1 ATAAAAAT--T
*
42774761 AAAAAAATT
1 ATAAAAATT
42774770 ATAAAAAATT
1 AT-AAAAATT
*
42774780 GT-AAAATT
1 ATAAAAATT
*
42774788 TTAAAAA
1 ATAAAAA
42774795 AAATCATAAA
Statistics
Matches: 91, Mismatches: 20, Indels: 21
0.69 0.15 0.16
Matches are distributed among these distances:
8 14 0.15
9 23 0.25
10 45 0.49
11 9 0.10
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:42774721 original size:27 final size:28
Alignment explanation
Indices: 42774693--42774806 Score: 79
Period size: 30 Copynumber: 3.9 Consensus size: 28
42774683 ATAAAATTTA
42774693 TTAAATTTTAATAAAAATATAAAAATAT
1 TTAAATTTTAATAAAAATATAAAAATAT
** *
42774721 TTAAATTTTCCTAAAAATTAGAAATAAATAT
1 TTAAATTTTAATAAAAA-TA-TAA-AAATAT
** **
42774752 AAAAATCGTAA-AAAAATTATAAAAA-AT
1 TTAAATTTTAATAAAAA-TATAAAAATAT
*
42774779 TGTAAAATTTTAAAAAAAATCATAAAAA
1 T-T-AAATTTTAATAAAAAT-ATAAAAA
42774807 AATTATAGAG
Statistics
Matches: 65, Mismatches: 14, Indels: 12
0.71 0.15 0.13
Matches are distributed among these distances:
27 2 0.03
28 18 0.28
29 12 0.18
30 22 0.34
31 11 0.17
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (28 bp):
TTAAATTTTAATAAAAATATAAAAATAT
Found at i:42774772 original size:20 final size:20
Alignment explanation
Indices: 42774749--42774813 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
42774739 TAGAAATAAA
42774749 TATAAAAATCGTAAAAAAAT
1 TATAAAAATCGTAAAAAAAT
* **
42774769 TATAAAAAATTGT-AAAATTT
1 TAT-AAAAATCGTAAAAAAAT
* *
42774789 TAAAAAAAATCATAAAAAAAT
1 T-ATAAAAATCGTAAAAAAAT
42774810 TATA
1 TATA
42774814 GAGTGCATAA
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (20 bp):
TATAAAAATCGTAAAAAAAT
Found at i:42774795 original size:10 final size:10
Alignment explanation
Indices: 42774733--42774813 Score: 51
Period size: 10 Copynumber: 8.0 Consensus size: 10
42774723 AAATTTTCCT
*
42774733 AAAAATTAGA
1 AAAAATTATA
42774743 AATAAA-TAT-
1 AA-AAATTATA
42774752 AAAAATCGTA-A
1 AAAAAT--TATA
42774763 AAAAATTATA
1 AAAAATTATA
*
42774773 AAAAATTGTA
1 AAAAATTATA
** *
42774783 AAATTTTAAA
1 AAAAATTATA
*
42774793 AAAAATCATAA
1 AAAAATTAT-A
42774804 AAAAATTATA
1 AAAAATTATA
42774814 GAGTGCATAA
Statistics
Matches: 53, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 26 0.49
11 20 0.38
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:42774992 original size:9 final size:9
Alignment explanation
Indices: 42774978--42775115 Score: 54
Period size: 9 Copynumber: 15.2 Consensus size: 9
42774968 TTTTGGTACA
42774978 ATAATTTTT
1 ATAATTTTT
42774987 ATAA-TTTT
1 ATAATTTTT
42774995 -T---TTTT
1 ATAATTTTT
*
42775000 ATAAATTTT
1 ATAATTTTT
*
42775009 ATATTTCTTT
1 ATAATT-TTT
* *
42775019 ACATTTTTT
1 ATAATTTTT
42775028 ATAATTTTT
1 ATAATTTTT
* *
42775037 CCTATATTTCT
1 -ATA-ATTTTT
*
42775048 ATATGTTTTT
1 ATA-ATTTTT
42775058 ATATATTTTT
1 ATA-ATTTTT
**
42775068 ATAAAATTT
1 ATAATTTTT
*
42775077 ACAATTTTT
1 ATAATTTTT
*
42775086 AGTATTTTATT
1 A-TAATTT-TT
* *
42775097 A-AAATTTA
1 ATAATTTTT
42775105 ATAATTTTT
1 ATAATTTTT
42775114 AT
1 AT
42775116 TGATTATTTT
Statistics
Matches: 96, Mismatches: 23, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
5 4 0.04
6 1 0.01
7 1 0.01
8 6 0.06
9 43 0.45
10 33 0.34
11 8 0.08
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:42775019 original size:10 final size:9
Alignment explanation
Indices: 42774994--42775070 Score: 57
Period size: 10 Copynumber: 8.0 Consensus size: 9
42774984 TTTATAATTT
42774994 TTTTTTATA
1 TTTTTTATA
**
42775003 AATTTTATA
1 TTTTTTATA
*
42775012 TTTCTTTACA
1 TTT-TTTATA
42775022 TTTTTTATAA
1 TTTTTTAT-A
42775032 TTTTTCCTATA
1 TTTTT--TATA
*
42775043 -TTTCTATA
1 TTTTTTATA
42775051 TGTTTTTATA
1 T-TTTTTATA
42775061 TATTTTTATA
1 T-TTTTTATA
42775071 AAATTTACAA
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
8 4 0.08
9 12 0.23
10 33 0.62
11 1 0.02
12 3 0.06
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTTTATA
Found at i:42775057 original size:31 final size:31
Alignment explanation
Indices: 42775008--42775067 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
42774998 TTATAAATTT
*
42775008 TATATTTCTTTACATTTTT-TATAATTTTTCC
1 TATATTTCTATACATTTTTATAT-ATTTTTCC
**
42775039 TATATTTCTATATGTTTTTATATATTTTT
1 TATATTTCTATACATTTTTATATATTTTT
42775068 ATAAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.88
32 3 0.12
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (31 bp):
TATATTTCTATACATTTTTATATATTTTTCC
Found at i:42775085 original size:28 final size:29
Alignment explanation
Indices: 42775053--42775115 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
42775043 TTTCTATATG
42775053 TTTTTATATATTTT-TATAAAATTT-ACAA
1 TTTTTATATATTTTAT-TAAAATTTAACAA
* *
42775081 TTTTTA-GTATTTTATTAAAATTTAATAA
1 TTTTTATATATTTTATTAAAATTTAACAA
42775109 TTTTTAT
1 TTTTTAT
42775116 TGATTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTTTATATATTTTATTAAAATTTAACAA
Found at i:42778475 original size:44 final size:44
Alignment explanation
Indices: 42778412--42778497 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
42778402 CCAAAACATG
* * *
42778412 TGTCATATATATCATGAACTCAGACTACAACTCATGAGTTCAAA
1 TGTCACATATATCATGAACTCAAACCACAACTCATGAGTTCAAA
*
42778456 TGTCACATATATCATGAACTCAAACCACTACTCATGAGTTCA
1 TGTCACATATATCATGAACTCAAACCACAACTCATGAGTTCA
42778498 GATCACATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.29
Consensus pattern (44 bp):
TGTCACATATATCATGAACTCAAACCACAACTCATGAGTTCAAA
Found at i:42780101 original size:43 final size:43
Alignment explanation
Indices: 42779937--42780108 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 43
42779927 CATAGGAATC
* *
42779937 CGATATATGATTTCATGTAAGACCTTGTCTGGGAC-GTTGGCAT
1 CGATATATGATTACATGTAAGACCTCGTCTGGGACAG-TGGCAT
* * * *
42779980 CGATTTGA-GATTTACGTGTAAGACCAT-GTCTGAGACATTGGCAT
1 CGATAT-ATGA-TTACATGTAAGACC-TCGTCTGGGACAGTGGCAT
* * *
42780024 CG-TATATGATTTCGTGTAAGGCC-CTGTCTGGGACAGTGGCAT
1 CGATATATGATTACATGTAAGACCTC-GTCTGGGACAGTGGCAT
* * *
42780066 CGATATTTGATTACATGTAAGACCTCGTCTAGGACATTGGCAT
1 CGATATATGATTACATGTAAGACCTCGTCTGGGACAGTGGCAT
42780109 TGTACGAGCT
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 30 0.29
43 43 0.41
44 30 0.29
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATATGATTACATGTAAGACCTCGTCTGGGACAGTGGCAT
Found at i:42780123 original size:86 final size:86
Alignment explanation
Indices: 42779943--42780108 Score: 207
Period size: 86 Copynumber: 1.9 Consensus size: 86
42779933 AATCCGATAT
* * *
42779943 ATGATTTCATGTAAGACCTTGTCTGGGACGTTGGCATCGATTTGAGATTTACGTGTAAGACCATG
1 ATGATTTCGTGTAAGACCCTGTCTGGGACGTTGGCATCGATTTGAGATTTACATGTAAGACCATG
*
42780008 TCTGAGACATTGGCATCGTAT
66 TCTGAGACATTGGCATCGTAG
* *
42780029 ATGATTTCGTGTAAGGCCCTGTCTGGGACAG-TGGCATCGATATT-TGA-TTACATGTAAGACC-
1 ATGATTTCGTGTAAGACCCTGTCTGGGAC-GTTGGCATCGAT-TTGAGATTTACATGTAAGACCA
42780090 TCGTCT-AGGACATTGGCAT
64 T-GTCTGA-GACATTGGCAT
42780109 TGTACGAGCT
Statistics
Matches: 71, Mismatches: 5, Indels: 9
0.84 0.06 0.11
Matches are distributed among these distances:
84 2 0.03
85 28 0.39
86 38 0.54
87 3 0.04
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (86 bp):
ATGATTTCGTGTAAGACCCTGTCTGGGACGTTGGCATCGATTTGAGATTTACATGTAAGACCATG
TCTGAGACATTGGCATCGTAG
Done.