Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 99 of 344
Found at i:33280778 original size:108 final size:106
Alignment explanation
Indices: 33280508--33280779 Score: 271
Period size: 108 Copynumber: 2.5 Consensus size: 106
33280498 CGTTAGATGT
* * * * *
33280508 GTCTATCCTAATCTTTTTAAGGTTAGTTTAGACAAGTCTATCCCAACCTGTTTTAAAGGTTGCTT
1 GTCTATCTTAATCTTTTTAAGGTT-GTTTAGAC-GGTCTATCTCAACCTTTTTTAAAAGTTGCTT
* * * * *
33280573 TAGACATGTCTATTTTAACCTTTTTAAGGTTATTTTAGACAAG
64 TAAAAAGGTCTATTTCAACCTTTTTAAGGTTATCTTAGACAAG
* * * * **
33280616 GTTTAT-TCCAA-CTTTTCTAAGGTTGTTTTAGACGGCCTATCTTAATTTTTTTTAAAAGTTGCT
1 GTCTATCT-TAATCTTTT-TAAGGTTG-TTTAGACGGTCTATCTCAACCTTTTTTAAAAGTTGCT
* * *
33280679 TTAAATAAGGTCTATTTCAACTTTTTTAAGGTTGTCTTAGAC-GG
63 TTAAA-AAGGTCTATTTCAACCTTTTTAAGGTTATCTTAGACAAG
*
33280723 GTCTATCTTAATCTTTTTAAGGTTGTTTCAGACGGGTTTATCTCAACCTTTTTTAAA
1 GTCTATCTTAATCTTTTTAAGGTTGTTT-AGAC-GGTCTATCTCAACCTTTTTTAAA
33280780 TGTCGGCATT
Statistics
Matches: 130, Mismatches: 26, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
106 3 0.02
107 52 0.40
108 75 0.58
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (106 bp):
GTCTATCTTAATCTTTTTAAGGTTGTTTAGACGGTCTATCTCAACCTTTTTTAAAAGTTGCTTTA
AAAAGGTCTATTTCAACCTTTTTAAGGTTATCTTAGACAAG
Found at i:33282679 original size:27 final size:27
Alignment explanation
Indices: 33282631--33282734 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
33282621 GCGAGGCTGC
* *
33282631 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
33282658 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
33282684 C-GATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
33282710 CAGATAATCGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
33282735 GACACTTCCT
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
25 5 0.07
26 21 0.31
27 39 0.57
28 3 0.04
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:33282901 original size:28 final size:26
Alignment explanation
Indices: 33282840--33282913 Score: 76
Period size: 28 Copynumber: 2.8 Consensus size: 26
33282830 AAATTAACCC
* *
33282840 TAGGGGTATAACGGTAATTTTACACC
1 TAGGGGTATAACAGTAATTTTACACA
* *
33282866 TAGGGGTATAGCAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTT--ACACA
* *
33282894 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
33282914 AGCTGCTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 19 0.49
28 20 0.51
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTACACA
Found at i:33284388 original size:26 final size:26
Alignment explanation
Indices: 33284357--33284464 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
33284347 TGAAATGCCC
*
33284357 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
33284383 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
33284409 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
33284435 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33284461 ATCA
1 ATCA
33284465 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:33285958 original size:21 final size:21
Alignment explanation
Indices: 33285934--33286001 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
33285924 TGTAACTCGG
33285934 TCACATGGGCATGTG-CTCCCT
1 TCACATGGGCATGTGCCT-CCT
* * *
33285955 TCACATGGTCGTGTGCCTCTT
1 TCACATGGGCATGTGCCTCCT
*
33285976 TCACATGGGCATGTGCCTTCT
1 TCACATGGGCATGTGCCTCCT
33285997 TCACA
1 TCACA
33286002 CAACCTAGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 37 0.95
22 2 0.05
ACGTcount: A:0.15, C:0.31, G:0.22, T:0.32
Consensus pattern (21 bp):
TCACATGGGCATGTGCCTCCT
Found at i:33289223 original size:12 final size:12
Alignment explanation
Indices: 33289206--33289234 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33289196 GTTATATTTT
33289206 TAAAAAATTAAA
1 TAAAAAATTAAA
33289218 TAAAAAATTAAA
1 TAAAAAATTAAA
33289230 -AAAAA
1 TAAAAA
33289235 TCAAATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
TAAAAAATTAAA
Found at i:33289482 original size:6 final size:6
Alignment explanation
Indices: 33289422--33289446 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
33289412 AATATTTTAA
33289422 TTAATT TTAATT TTAATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT T
33289447 AGATTAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:33290034 original size:12 final size:12
Alignment explanation
Indices: 33290017--33290049 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
33290007 TATTTTTTAG
33290017 TTATTTACTCAC
1 TTATTTACTCAC
*
33290029 TTATTTATTCAC
1 TTATTTACTCAC
33290041 TTATTTACT
1 TTATTTACT
33290050 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:33295199 original size:66 final size:66
Alignment explanation
Indices: 33295093--33295225 Score: 187
Period size: 66 Copynumber: 2.0 Consensus size: 66
33295083 TTACTAATAA
* * *
33295093 AGTTCCTGTCACTCACAACTCACAACAAGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCT
1 AGTTCCTGTCAATCACAACTCACAACAAGCGAATAATGCTCAAACAATAGTACAAATCAATTTCT
33295158 C
66 C
* * **
33295159 AGTTCCTGTCAATCACAGCGT-ACAACAGGCGAATAATGCTCAAACAATAGTACAAATTTATTTC
1 AGTTCCTGTCAATCACAAC-TCACAACAAGCGAATAATGCTCAAACAATAGTACAAATCAATTTC
33295223 TC
65 TC
33295225 A
1 A
33295226 CATTTCAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 58 0.98
67 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (66 bp):
AGTTCCTGTCAATCACAACTCACAACAAGCGAATAATGCTCAAACAATAGTACAAATCAATTTCT
C
Found at i:33298461 original size:5 final size:5
Alignment explanation
Indices: 33298451--33298477 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
33298441 AATCTCAAGC
33298451 AAACA AAACA AAACA AAACA AAACA AA
1 AAACA AAACA AAACA AAACA AAACA AA
33298478 CTAAATAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:33298500 original size:11 final size:10
Alignment explanation
Indices: 33298455--33298517 Score: 60
Period size: 10 Copynumber: 6.4 Consensus size: 10
33298445 TCAAGCAAAC
33298455 AAAAC-AAAA
1 AAAACTAAAA
33298464 CAAAAC-AAAA
1 -AAAACTAAAA
*
33298474 CAAACT-AAA
1 AAAACTAAAA
*
33298483 TAAACTAGAAA
1 AAAACTA-AAA
33298494 AAAACTAAAA
1 AAAACTAAAA
*
33298504 CAAACTAAAA
1 AAAACTAAAA
33298514 AAAA
1 AAAA
33298518 AGAAATAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 12 0.27
10 24 0.53
11 9 0.20
ACGTcount: A:0.76, C:0.14, G:0.02, T:0.08
Consensus pattern (10 bp):
AAAACTAAAA
Found at i:33298500 original size:20 final size:20
Alignment explanation
Indices: 33298455--33298517 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
33298445 TCAAGCAAAC
33298455 AAAAC-AAAACAAAAC-AAAA
1 AAAACTAAAAC-AAACTAAAA
* *
33298474 CAAACT-AAATAAACTAGAAA
1 AAAACTAAAACAAACTA-AAA
33298494 AAAACTAAAACAAACTAAAA
1 AAAACTAAAACAAACTAAAA
33298514 AAAA
1 AAAA
33298518 AGAAATAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 4 0.11
19 8 0.22
20 15 0.42
21 9 0.25
ACGTcount: A:0.76, C:0.14, G:0.02, T:0.08
Consensus pattern (20 bp):
AAAACTAAAACAAACTAAAA
Found at i:33299348 original size:20 final size:19
Alignment explanation
Indices: 33299293--33299377 Score: 64
Period size: 20 Copynumber: 4.3 Consensus size: 19
33299283 GATGCAAAAT
**
33299293 AAGGGCACAGATGTGCAGTT
1 AAGGGCACAGATGTGCA-AA
*
33299313 AAGGGCACCA-AAGTGCAAA
1 AAGGGCA-CAGATGTGCAAA
*
33299332 AAGGGACACAGATGTGCAAGC
1 AAGGG-CACAGATGTGCAA-A
* *
33299353 ATGGGCACCGATGTGCAAA
1 AAGGGCACAGATGTGCAAA
33299372 CAAGGG
1 -AAGGG
33299378 TGCATATGTT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
19 7 0.14
20 38 0.75
21 6 0.12
ACGTcount: A:0.36, C:0.19, G:0.33, T:0.12
Consensus pattern (19 bp):
AAGGGCACAGATGTGCAAA
Found at i:33299359 original size:40 final size:40
Alignment explanation
Indices: 33299293--33299377 Score: 102
Period size: 40 Copynumber: 2.1 Consensus size: 40
33299283 GATGCAAAAT
*
33299293 AAGGGCACAGATGTGCAGTTAAGGGCACCAAAGTGCAAA-
1 AAGGGCACAGATGTGCAGTCAAGGGCACCAAAGTGCAAAC
* * *
33299332 AAGGGACACAGATGTGCAAG-CATGGGCACCGATGTGCAAAC
1 AAGGG-CACAGATGTGC-AGTCAAGGGCACCAAAGTGCAAAC
33299373 AAGGG
1 AAGGG
33299378 TGCATATGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 5 0.13
40 27 0.69
41 7 0.18
ACGTcount: A:0.36, C:0.19, G:0.33, T:0.12
Consensus pattern (40 bp):
AAGGGCACAGATGTGCAGTCAAGGGCACCAAAGTGCAAAC
Found at i:33299436 original size:20 final size:20
Alignment explanation
Indices: 33299315--33299453 Score: 84
Period size: 20 Copynumber: 7.0 Consensus size: 20
33299305 GTGCAGTTAA
* * *
33299315 GGGCACCAAAGTGCAAAAAG
1 GGGCACCGATGTGCAAACAG
* * * *
33299335 GGACACAGATGTGCAAGCAT
1 GGGCACCGATGTGCAAACAG
33299355 GGGCACCGATGTGCAAACAAG
1 GGGCACCGATGTGCAAAC-AG
* * *
33299376 GGTGCA--TATGTTCAATCAG
1 GG-GCACCGATGTGCAAACAG
** * *
33299395 GGGCACATATATGCAAATAG
1 GGGCACCGATGTGCAAACAG
* *
33299415 GGGTACCGATGTGCAAGCAG
1 GGGCACCGATGTGCAAACAG
* *
33299435 GGGCATCGATGTGAAAACA
1 GGGCACCGATGTGCAAACA
33299454 TAAATAATTG
Statistics
Matches: 87, Mismatches: 28, Indels: 8
0.71 0.23 0.07
Matches are distributed among these distances:
18 3 0.03
19 4 0.05
20 74 0.85
21 3 0.03
22 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.16
Consensus pattern (20 bp):
GGGCACCGATGTGCAAACAG
Found at i:33299436 original size:40 final size:40
Alignment explanation
Indices: 33299326--33299439 Score: 104
Period size: 40 Copynumber: 2.9 Consensus size: 40
33299316 GGCACCAAAG
* * * *
33299326 TGCAAA-AAGGGACACAGATGTGCAAGCATGGGCACCGATG
1 TGCAAACAAGGG-TACAGATGTGCAAGCAGGGGCACAGATA
* * * * *
33299366 TGCAAACAAGGGTGCATATGTTCAATCAGGGGCACATATA
1 TGCAAACAAGGGTACAGATGTGCAAGCAGGGGCACAGATA
* * *
33299406 TGCAAATAGGGGTACCGATGTGCAAGCAGGGGCA
1 TGCAAACAAGGGTACAGATGTGCAAGCAGGGGCA
33299440 TCGATGTGAA
Statistics
Matches: 57, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
40 52 0.91
41 5 0.09
ACGTcount: A:0.33, C:0.18, G:0.32, T:0.17
Consensus pattern (40 bp):
TGCAAACAAGGGTACAGATGTGCAAGCAGGGGCACAGATA
Found at i:33302146 original size:27 final size:27
Alignment explanation
Indices: 33302115--33302168 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
33302105 TATTATTTTG
33302115 TTATTTTAATGTCTATGGGATTATAGT
1 TTATTTTAATGTCTATGGGATTATAGT
33302142 TTATTTTAATGTCTATGGGATTATAGT
1 TTATTTTAATGTCTATGGGATTATAGT
33302169 CAGGTTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.52
Consensus pattern (27 bp):
TTATTTTAATGTCTATGGGATTATAGT
Found at i:33311920 original size:53 final size:53
Alignment explanation
Indices: 33311850--33312058 Score: 211
Period size: 53 Copynumber: 3.9 Consensus size: 53
33311840 CTTTCCTTTT
* * *
33311850 TAAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * ** * *
33311903 TGAACTCACCATTGCCATGCCTTGGTATGGTCTTACATGGGATCTTTGCCTTA
1 TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
** * * * * * *
33311956 TCATAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTG
1 T-A-AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* *
33312011 TAAAACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 T-AAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
33312059 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 33, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 46 0.38
54 36 0.30
55 39 0.32
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (53 bp):
TAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:33313957 original size:15 final size:14
Alignment explanation
Indices: 33313938--33313992 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
33313928 ATTTTCTTGT
*
33313938 TTTGGATTTCTTTA
1 TTTGGATTTCTATA
33313952 TGTTGGATTTCTATA
1 T-TTGGATTTCTATA
* *
33313967 TTCTGGATTTCTCTG
1 TT-TGGATTTCTATA
33313982 TTATGGATTTC
1 TT-TGGATTTC
33313993 CTTATATTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 33 0.94
ACGTcount: A:0.15, C:0.11, G:0.18, T:0.56
Consensus pattern (14 bp):
TTTGGATTTCTATA
Found at i:33318139 original size:20 final size:18
Alignment explanation
Indices: 33318116--33318159 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
33318106 ACAGAGAGTT
33318116 ACACGGGCGTGTCAAGAGCC
1 ACACGGGCGTGT-AAGA-CC
* *
33318136 ACACAGGCGTGTGAGACC
1 ACACGGGCGTGTAAGACC
33318154 ACACGG
1 ACACGG
33318160 CCTACCCACA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 7 0.33
19 3 0.14
20 11 0.52
ACGTcount: A:0.27, C:0.30, G:0.34, T:0.09
Consensus pattern (18 bp):
ACACGGGCGTGTAAGACC
Found at i:33321107 original size:47 final size:47
Alignment explanation
Indices: 33321056--33321346 Score: 384
Period size: 47 Copynumber: 6.1 Consensus size: 47
33321046 TTAGGATTTT
* *
33321056 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
33321103 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
33321150 ATGTGATGAATGTGAACCTGTATATATATATTCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCATAT-GT-GTGATAAGGCCGAATGGCCA
* *
33321203 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
33321250 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
33321297 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGTCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
33321344 ATG
1 ATG
33321347 CGAAACGTGT
Statistics
Matches: 217, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
47 169 0.78
48 2 0.01
49 5 0.02
51 5 0.02
52 2 0.01
53 34 0.16
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:33321143 original size:25 final size:25
Alignment explanation
Indices: 33321068--33321143 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
33321058 GTGATGGATG
33321068 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
* * * *
33321093 CG-A-ATG-GCCA-ATGTGATGAATG-
1 TGAACATGCG-TATGTGTGAT-AAGGC
33321115 TGAACATGCGTATGTGTGATAAGGC
1 TGAACATGCGTATGTGTGATAAGGC
33321140 TGAA
1 TGAA
33321144 TGGCCAATGT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 8 0.22
23 8 0.22
24 8 0.22
25 12 0.33
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (25 bp):
TGAACATGCGTATGTGTGATAAGGC
Found at i:33321203 original size:100 final size:94
Alignment explanation
Indices: 33321056--33321346 Score: 393
Period size: 100 Copynumber: 3.0 Consensus size: 94
33321046 TTAGGATTTT
* * * *
33321056 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATACATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
*
33321121 TGCGTATGTGTGATAAGGCTGAATGGCCA
66 TGCGTATGTGTGATAAGGCCGAATGGCCA
* *
33321150 ATGTGATGAATGTGAACCTGTATATATATATTCGTGATAAGGCCGAATGGCCAATGTGATGGATG
1 ATGTGATGAATGTGAA-C---ATACATATA-T-GTGATAAGGCCGAATGGCCAATGTGATGAATG
33321215 TGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
60 TGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
33321250 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATACATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
** * * * *
33321315 TGAATATATGTGGTAAGGTCGAATGGCTA
66 TGCGTATGTGTGATAAGGCCGAATGGCCA
33321344 ATG
1 ATG
33321347 CGAAACGTGT
Statistics
Matches: 174, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
94 77 0.44
95 2 0.01
96 7 0.04
98 5 0.03
99 2 0.01
100 81 0.47
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.27
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATACATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:33321219 original size:147 final size:147
Alignment explanation
Indices: 33321056--33321323 Score: 482
Period size: 147 Copynumber: 1.8 Consensus size: 147
33321046 TTAGGATTTT
33321056 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
* * * * * *
33321121 TGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACCTGTATATATATATTCGTG
66 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATATATTCGTG
33321186 ATAAGGCCGAATGGCCA
131 ATAAGGCCGAATGGCCA
33321203 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
33321268 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATAT
66 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATAT
33321324 GTGGTAAGGT
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
147 115 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (147 bp):
ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATATATTCGTG
ATAAGGCCGAATGGCCA
Found at i:33321409 original size:46 final size:46
Alignment explanation
Indices: 33321320--33321410 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
33321310 GAACATGAAT
* * * * *
33321320 ATATGTGGTAAGGTCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
33321366 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
33321411 TGTATATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:33321736 original size:37 final size:37
Alignment explanation
Indices: 33321554--33321735 Score: 310
Period size: 37 Copynumber: 4.9 Consensus size: 37
33321544 GGAAATATAT
33321554 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
33321591 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
33321628 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
33321665 TCCGAGTAAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
33321702 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
33321736 TCGTCTGAGC
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 137 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:33327104 original size:21 final size:21
Alignment explanation
Indices: 33327071--33327121 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
33327061 TACTCGTCGG
* *
33327071 ATTTGTGGTCCTAAAACCACT
1 ATTTCTGGCCCTAAAACCACT
33327092 ATTTCTGGCCCTAAAACCACT
1 ATTTCTGGCCCTAAAACCACT
33327113 ATTTCTGGC
1 ATTTCTGGC
33327122 ACCAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.33
Consensus pattern (21 bp):
ATTTCTGGCCCTAAAACCACT
Found at i:33330434 original size:20 final size:20
Alignment explanation
Indices: 33330402--33330539 Score: 116
Period size: 20 Copynumber: 6.9 Consensus size: 20
33330392 GTGCAGTTAT
33330402 GGCACCAAA-GTGCAAACAGG
1 GGCA-CAAATGTGCAAACAGG
*
33330422 CGCACAAATGTGCAAACAGG
1 GGCACAAATGTGCAAACAGG
* **
33330442 GGCACGAATGTGCAAGTAGG
1 GGCACAAATGTGCAAACAGG
** * *
33330462 GGCACTGATGTGAAAATAGG
1 GGCACAAATGTGCAAACAGG
* *
33330482 GGCACGAATGTGCAAACAAG
1 GGCACAAATGTGCAAACAGG
** * *
33330502 GGCACCGATATGCAAGCAGG
1 GGCACAAATGTGCAAACAGG
* *
33330522 GGCACAGATTTGCAAACA
1 GGCACAAATGTGCAAACA
33330540 TAAATAATTG
Statistics
Matches: 95, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
19 4 0.04
20 91 0.96
ACGTcount: A:0.36, C:0.20, G:0.31, T:0.12
Consensus pattern (20 bp):
GGCACAAATGTGCAAACAGG
Found at i:33333214 original size:42 final size:42
Alignment explanation
Indices: 33333115--33333216 Score: 145
Period size: 42 Copynumber: 2.4 Consensus size: 42
33333105 GGGTACAAGG
* *
33333115 CAGACACGGCTGTGTGAGGGTCTCACACGCTTGTGTGCCCAC
1 CAGACATGGCTGTGTGAGGGTCTCACACGCTCGTGTGCCCAC
*
33333157 CAGACAT-GATCGTGTGAGGGTCTCACACG-TCCGTGTGCCCAC
1 CAGACATGGCT-GTGTGAGGGTCTCACACGCT-CGTGTGCCCAC
33333199 CAGACATGGCTGTGTGAG
1 CAGACATGGCTGTGTGAG
33333217 ATCTCTAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
41 3 0.06
42 48 0.91
43 2 0.04
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.22
Consensus pattern (42 bp):
CAGACATGGCTGTGTGAGGGTCTCACACGCTCGTGTGCCCAC
Found at i:33333835 original size:10 final size:10
Alignment explanation
Indices: 33333817--33333847 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
33333807 GAAACCCAAC
33333817 AAAAA-TAAT
1 AAAAAGTAAT
33333826 AAAAAGTAAT
1 AAAAAGTAAT
33333836 AAAAAGTAAT
1 AAAAAGTAAT
33333846 AA
1 AA
33333848 TAATAGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (10 bp):
AAAAAGTAAT
Found at i:33335975 original size:45 final size:45
Alignment explanation
Indices: 33335911--33336086 Score: 239
Period size: 45 Copynumber: 3.9 Consensus size: 45
33335901 TTGGCGTTAA
33335911 AAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTAT-ATCAG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAAC-ATGAT-AG
* * * *
33335956 AAATGAATAAGATCATAGTTGAAAAACACTATGGCAACATGAAAA
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACATGATAG
* * * *
33336001 AAATAAATAAGACCATAGTTTAAATACACTATGGCAACATGATGG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACATGATAG
*
33336046 AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACATG
33336087 TCGGAAAGAA
Statistics
Matches: 114, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
45 111 0.97
46 3 0.03
ACGTcount: A:0.47, C:0.14, G:0.17, T:0.22
Consensus pattern (45 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATGGCAACATGATAG
Found at i:33336114 original size:45 final size:45
Alignment explanation
Indices: 33335911--33336116 Score: 195
Period size: 45 Copynumber: 4.6 Consensus size: 45
33335901 TTGGCGTTAA
* *
33335911 AAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACTAT-ATCAG
1 AAATGAATAAGACCATAGCTGAAAGACACTATGGCAAC-ATGAT-GG
* * * ***
33335956 AAATGAATAAGATCATAGTTGAAAAACACTATGGCAACATGAAAA
1 AAATGAATAAGACCATAGCTGAAAGACACTATGGCAACATGATGG
* * * *
33336001 AAATAAATAAGACCATAGTTTAAATACACTATGGCAACATGATGG
1 AAATGAATAAGACCATAGCTGAAAGACACTATGGCAACATGATGG
* *
33336046 AAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATG-TCGG
1 AAATGAATAAGACCATAGCTGAAAGACACTATGGCAACATGAT-GG
* * *
33336091 AAA-GAAATAAGATCGTGGCTGAAAGA
1 AAATG-AATAAGACCATAGCTGAAAGA
33336117 TGTTATGGCA
Statistics
Matches: 138, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
44 2 0.01
45 133 0.96
46 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (45 bp):
AAATGAATAAGACCATAGCTGAAAGACACTATGGCAACATGATGG
Found at i:33344684 original size:63 final size:63
Alignment explanation
Indices: 33344539--33344702 Score: 163
Period size: 63 Copynumber: 2.6 Consensus size: 63
33344529 GCCACAACGG
* *
33344539 CGTGCAGCTTGTCTACGATA-TGAGTGGCTTGGCCACAAAGTTATTGAGTGGCTTCTCCACAA
1 CGTGCAGCTTGTCTACGATATTGAGTGACTTGGCCACAAAGTTATTGAGTGGCTTCTCAACAA
* ** * * * * * *
33344601 CGTACAGCTCATTTATGATATTGAGTTACTTGGTCATAATGTTATTGAGT-GCTT-TGACAACAA
1 CGTGCAGCTTGTCTACGATATTGAGTGACTTGGCCACAAAGTTATTGAGTGGCTTCT--CAACAA
* * *
33344664 TGTGCAGCTTGTCTACGATATTGAGTGGCTTGACCACAA
1 CGTGCAGCTTGTCTACGATATTGAGTGACTTGGCCACAA
33344703 CGTGGTGTGT
Statistics
Matches: 77, Mismatches: 22, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
61 1 0.01
62 19 0.25
63 57 0.74
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (63 bp):
CGTGCAGCTTGTCTACGATATTGAGTGACTTGGCCACAAAGTTATTGAGTGGCTTCTCAACAA
Found at i:33347706 original size:6 final size:7
Alignment explanation
Indices: 33347659--33347723 Score: 53
Period size: 8 Copynumber: 8.6 Consensus size: 7
33347649 AACAACCTAC
33347659 AAATTAA
1 AAATTAA
33347666 AAA--AA
1 AAATTAA
33347671 AAATTAAA
1 AAATT-AA
33347679 CAAATAATAA
1 -AAAT--TAA
33347689 TAAATTAGA
1 -AAATTA-A
33347698 AAATTAA
1 AAATTAA
33347705 AAATTAA
1 AAATTAA
33347712 AGAATTAA
1 A-AATTAA
33347720 AAAT
1 AAAT
33347724 AATGTATCTA
Statistics
Matches: 49, Mismatches: 1, Indels: 16
0.74 0.02 0.24
Matches are distributed among these distances:
5 5 0.10
7 15 0.31
8 17 0.35
9 5 0.10
10 6 0.12
11 1 0.02
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.25
Consensus pattern (7 bp):
AAATTAA
Found at i:33347710 original size:15 final size:15
Alignment explanation
Indices: 33347690--33347723 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33347680 AAATAATAAT
33347690 AAATTAGAA-AATTAA
1 AAATTA-AAGAATTAA
33347705 AAATTAAAGAATTAA
1 AAATTAAAGAATTAA
33347720 AAAT
1 AAAT
33347724 AATGTATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AAATTAAAGAATTAA
Found at i:33348137 original size:9 final size:9
Alignment explanation
Indices: 33348123--33348152 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
33348113 AATAAACAAA
33348123 CAACTAAAC
1 CAACTAAAC
33348132 CAACTAAAC
1 CAACTAAAC
*
33348141 CAGCTAAAC
1 CAACTAAAC
33348150 CAA
1 CAA
33348153 TTAGGAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.53, C:0.33, G:0.03, T:0.10
Consensus pattern (9 bp):
CAACTAAAC
Found at i:33351824 original size:3 final size:3
Alignment explanation
Indices: 33351816--33351897 Score: 164
Period size: 3 Copynumber: 27.3 Consensus size: 3
33351806 TTGCTTAGAT
33351816 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
33351864 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
33351898 TAGTTGAATT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:33356887 original size:23 final size:23
Alignment explanation
Indices: 33356860--33356903 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
33356850 TTTCGAATTT
33356860 AAAACATTT-TGATAATTTAAATA
1 AAAACATTTATGA-AATTTAAATA
33356883 AAAACATTTATGAAATTTAAA
1 AAAACATTTATGAAATTTAAA
33356904 ATCATCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (23 bp):
AAAACATTTATGAAATTTAAATA
Found at i:33359282 original size:3 final size:3
Alignment explanation
Indices: 33359211--33359273 Score: 83
Period size: 3 Copynumber: 21.0 Consensus size: 3
33359201 CTTTGCTATC
*
33359211 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATCT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
* *
33359257 -TT ACT ATT ATT AGT ATT
1 ATT ATT ATT ATT ATT ATT
33359274 GGTATTATTG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 1 0.02
3 51 0.98
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:33359479 original size:35 final size:36
Alignment explanation
Indices: 33359402--33359479 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 36
33359392 AATTGGTTTA
*
33359402 ATATATACGTATACTCATATTTCTTTTTTATATATAT
1 ATATATACATATAC-CATATTTCTTTTTTATATATAT
*
33359439 CTATATACATATA-CATATTT-TATTTTTATA-AGTAT
1 ATATATACATATACCATATTTCT-TTTTTATATA-TAT
33359474 ATATAT
1 ATATAT
33359480 TTATATGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
34 2 0.06
35 23 0.64
37 11 0.31
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATACATATACCATATTTCTTTTTTATATATAT
Found at i:33370543 original size:20 final size:19
Alignment explanation
Indices: 33370504--33370543 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
33370494 AAATAGTGAG
*
33370504 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGGATA
*
33370523 AATTCTATTTTCTAGGGATA
1 AATT-TATTTTCTAAGGATA
33370543 A
1 A
33370544 CAATTCTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGGATA
Found at i:33375774 original size:75 final size:75
Alignment explanation
Indices: 33375639--33375908 Score: 393
Period size: 75 Copynumber: 3.6 Consensus size: 75
33375629 TATCATATTT
* * * * * *
33375639 TTTTGCCATCAATTTCCTTGTCTTTGTGTT-TTT-TT-TGTTAATTTGATTGTTTAATTGTCATC
1 TTTTGCCATCAATTCCCTTTTCTTTGTTTTGTTTATTCTATTTATTTGATTGTTTAATCGTCATC
*
33375701 ATTGCCTCTG
66 ATTACCTCTG
*
33375711 TTTTGCCATCAATTCCCTTTTCTTTGTTTTGTTTATTCTGTTTATTTGATTGTTTAATCGTCATC
1 TTTTGCCATCAATTCCCTTTTCTTTGTTTTGTTTATTCTATTTATTTGATTGTTTAATCGTCATC
*
33375776 ATTACCTTTG
66 ATTACCTCTG
*
33375786 TTTTGCCATCAATTTCCTTTTCTTTGTTTTGTTTATTCTATTTATTTGATTGTTTAATCGTCATC
1 TTTTGCCATCAATTCCCTTTTCTTTGTTTTGTTTATTCTATTTATTTGATTGTTTAATCGTCATC
33375851 ATTACCTCTG
66 ATTACCTCTG
* * *
33375861 TTTTTCCATCAAATCCCTTTTCTTTCTTTTGTTTATTTCTATTTATTT
1 TTTTGCCATCAATTCCCTTTTCTTTGTTTTGTTTA-TTCTATTTATTT
33375909 TATTTTATTG
Statistics
Matches: 180, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
72 27 0.15
73 3 0.02
74 2 0.01
75 136 0.76
76 12 0.07
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.59
Consensus pattern (75 bp):
TTTTGCCATCAATTCCCTTTTCTTTGTTTTGTTTATTCTATTTATTTGATTGTTTAATCGTCATC
ATTACCTCTG
Found at i:33375912 original size:15 final size:15
Alignment explanation
Indices: 33375892--33375933 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
33375882 CTTTCTTTTG
33375892 TTTATTTCTATT-TAT
1 TTTATTT-TATTGTAT
33375907 TTTATTTTATTGTAT
1 TTTATTTTATTGTAT
*
33375922 TGTATTTT-TTGT
1 TTTATTTTATTGT
33375934 TCAATCATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (15 bp):
TTTATTTTATTGTAT
Found at i:33381295 original size:46 final size:46
Alignment explanation
Indices: 33381242--33381336 Score: 145
Period size: 46 Copynumber: 2.1 Consensus size: 46
33381232 AAAACATATG
* *
33381242 TGTATGAGAATTTGAATATTGTTGAGCTCATATATGTGTTTCTTGA
1 TGTATGAGAATTTGAATATTATTAAGCTCATATATGTGTTTCTTGA
* * *
33381288 TGTATGAGAGTTTGAATATTATTAAGCTCATGTATGTTTTTCTTGA
1 TGTATGAGAATTTGAATATTATTAAGCTCATATATGTGTTTCTTGA
33381334 TGT
1 TGT
33381337 TTATATGAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.25, C:0.06, G:0.21, T:0.47
Consensus pattern (46 bp):
TGTATGAGAATTTGAATATTATTAAGCTCATATATGTGTTTCTTGA
Found at i:33387123 original size:46 final size:46
Alignment explanation
Indices: 33387056--33387230 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
33387046 TGTAACCCGC
*
33387056 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
* * * *
33387102 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-ATTTGCAT
* * * * ** * *
33387152 --TTCA-CGAACTCGGACTCAACTCAACGAGTTTTGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
33387195 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
33387231 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 59 0.58
47 26 0.26
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTTGCAT
Found at i:33387177 original size:93 final size:93
Alignment explanation
Indices: 33387064--33387234 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
33387054 GCCCATAAGT
* * * *
33387064 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
33387129 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGCTCGGATGCCTAGTTACATTTCAC
* **
33387157 GAACTCGGACTCAACTCAACGAGTTTTGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
33387222 CGAGCTCGGATGC
66 CGAGCTCGGATGC
33387235 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATTTCAC
Found at i:33387250 original size:46 final size:45
Alignment explanation
Indices: 33387061--33387250 Score: 113
Period size: 46 Copynumber: 4.1 Consensus size: 45
33387051 CCCGCCCATA
** * *
33387061 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCA--T
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATG-CT-CAACCATCT
* *
33387106 AGGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTT
1 A-GTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATCT
* * * * * * * *
33387154 CA-CGAACTCGGACTCAACTCAACGAGTTTTGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAG-CTCG-GATGCTCAACCATCT
33387200 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCAT-CT
33387246 AGTGA
1 AGTGA
33387251 CATGTCACTT
Statistics
Matches: 111, Mismatches: 19, Indels: 29
0.70 0.12 0.18
Matches are distributed among these distances:
43 1 0.01
44 10 0.09
45 4 0.04
46 60 0.54
47 26 0.23
48 4 0.04
49 5 0.05
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCT
Found at i:33389665 original size:30 final size:31
Alignment explanation
Indices: 33389630--33389708 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
33389620 AAGAAAACCA
* *
33389630 AATAAAGAAATCCAAGATAGAGA-AACCTGG
1 AATAAAGAAATCCAAGATAAAGAGAACCAGG
*
33389660 AATAAAGAAATCC-AGAATAAAGAGATCCAGG
1 AATAAAGAAATCCAAG-ATAAAGAGAACCAGG
*
33389691 -ATAAAGAAACCCAAGATA
1 AATAAAGAAATCCAAGATA
33389709 CGATACTATG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
29 2 0.05
30 33 0.79
31 7 0.17
ACGTcount: A:0.56, C:0.14, G:0.18, T:0.13
Consensus pattern (31 bp):
AATAAAGAAATCCAAGATAAAGAGAACCAGG
Found at i:33389708 original size:15 final size:15
Alignment explanation
Indices: 33389620--33389708 Score: 76
Period size: 15 Copynumber: 6.0 Consensus size: 15
33389610 CAAAGATAAC
*
33389620 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
33389634 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
* **
33389649 GAGAAA-CCTGGAATA
1 AAGAAATCCAAG-ATA
33389664 AAGAAATCC-AGAATA
1 AAGAAATCCAAG-ATA
* *
33389679 AAGAGATCCAGGATA
1 AAGAAATCCAAGATA
*
33389694 AAGAAACCCAAGATA
1 AAGAAATCCAAGATA
33389709 CGATACTATG
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
14 13 0.22
15 44 0.73
16 3 0.05
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:33391833 original size:37 final size:37
Alignment explanation
Indices: 33391790--33391897 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
33391780 GCTCGGACGT
** *
33391790 AATCTCCACACAAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
33391827 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
33391864 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
33391898 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:33392112 original size:47 final size:47
Alignment explanation
Indices: 33392060--33392245 Score: 264
Period size: 47 Copynumber: 4.0 Consensus size: 47
33392050 TTTCACACTA
* * * ** * *
33392060 GCCATTCGGCTTTACCGCATATATGCATTTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
33392107 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
33392154 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
33392201 GCCATTCGGCCTCATTACATATATGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACAT
33392246 AAAATCCTAA
Statistics
Matches: 125, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 125 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:33396334 original size:40 final size:40
Alignment explanation
Indices: 33396302--33396582 Score: 382
Period size: 40 Copynumber: 7.0 Consensus size: 40
33396292 CCAGCATGAT
* * * *
33396302 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
33396342 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
33396382 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
33396422 TGCTCTTTGGGATTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
33396462 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
33396502 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
33396542 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
33396582 T
1 T
33396583 CCCCTGTTTC
Statistics
Matches: 208, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 208 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:33396421 original size:80 final size:79
Alignment explanation
Indices: 33396302--33396582 Score: 454
Period size: 80 Copynumber: 3.5 Consensus size: 79
33396292 CCAGCATGAT
* * * * * * * *
33396302 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGC-CGGATA
33396367 TATCACTAGCACGAA
65 TATCACTAGCACGAA
*
33396382 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTTGGGATTTAGCCTGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCC-GGATA
33396447 TATCACTAGCACGAA
65 TATCACTAGCACGAA
33396462 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAG-CCGGATA
33396527 TATCACTAGCACGAA
65 TATCACTAGCACGAA
33396542 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAAT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAAT
33396583 CCCCTGTTTC
Statistics
Matches: 189, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
79 1 0.01
80 186 0.98
81 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (79 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCGGATAT
ATCACTAGCACGAA
Found at i:33397776 original size:93 final size:93
Alignment explanation
Indices: 33397617--33397788 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
33397607 CGCCCATAAG
* * * *
33397617 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
33397682 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* *
33397710 CGAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33397775 ACGAGCTCGGATGC
66 ACGAGCTCGGATGC
33397789 TCAACCATCC
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:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:33397785 original size:46 final size:46
Alignment explanation
Indices: 33397610--33397785 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
33397600 TGTAACCCGC
* *
33397610 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * * *
33397656 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * * * *
33397706 --TTCA-CGAACTCAGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
33397749 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
33397786 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.58
47 27 0.26
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:33397804 original size:46 final size:45
Alignment explanation
Indices: 33397618--33397804 Score: 107
Period size: 46 Copynumber: 4.0 Consensus size: 45
33397608 GCCCATAAGC
** * *
33397618 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCAT-C-TA-GT
* * *
33397664 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTTCA-C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATCT-AGT
* * * * * * *
33397711 GAACTCAGACTCAACTCAATGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCTCAACCATCTAGT
33397757 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCAT-CTAGT
33397803 GA
1 GA
33397805 CATGTCAGTT
Statistics
Matches: 108, Mismatches: 19, Indels: 28
0.70 0.12 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 58 0.54
47 29 0.27
48 1 0.01
49 5 0.05
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCTAGT
Found at i:33399979 original size:30 final size:30
Alignment explanation
Indices: 33399945--33400006 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
33399935 TCTTTAATAC
* *
33399945 AAACTTTTGCAAAATTACATTTTTGCCCCT
1 AAACTTTTACAAAATTACACTTTTGCCCCT
*
33399975 AAACTTTTACATAATTACACTTTTGCCCCT
1 AAACTTTTACAAAATTACACTTTTGCCCCT
33400005 AA
1 AA
33400007 GCTCGGGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTTACAAAATTACACTTTTGCCCCT
Found at i:33403702 original size:6 final size:6
Alignment explanation
Indices: 33403691--33403717 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
33403681 GGTTTTCTTC
33403691 AAAATG AAAATG AAAATG AAAATG AAA
1 AAAATG AAAATG AAAATG AAAATG AAA
33403718 TTAGAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:33403782 original size:13 final size:13
Alignment explanation
Indices: 33403761--33403795 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
33403751 ATTTTCTCCC
33403761 AAATGAAAAAGAA
1 AAATGAAAAAGAA
*
33403774 AAATTAAAAAG-A
1 AAATGAAAAAGAA
33403786 AAATGAAAAA
1 AAATGAAAAA
33403796 TGAATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (13 bp):
AAATGAAAAAGAA
Found at i:33408456 original size:39 final size:39
Alignment explanation
Indices: 33408411--33408687 Score: 493
Period size: 39 Copynumber: 7.1 Consensus size: 39
33408401 ATGCAAGACA
33408411 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
33408450 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
33408489 CTGGAAATGTATTCGGGCTAAAGTCCCGCAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
33408528 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
33408567 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
33408606 CTGGAAATGTATCAGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
33408645 CTGGAAATGTGTCCGGGCTAAAGAT-CCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAG-TCCCGCAGGCTTCGTG
33408684 CTGG
1 CTGG
33408688 TGCTGGTAAT
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 227 1.00
40 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:33413643 original size:75 final size:75
Alignment explanation
Indices: 33413488--33413665 Score: 196
Period size: 75 Copynumber: 2.4 Consensus size: 75
33413478 GTGGTATCGC
** * * * * *
33413488 AATATCCTCTTTGGGTATTACGATATCTACCCTCCAAGGAAAATCTCCAAATTTAAATATTTCCT
1 AATATCCTCTTTGGGTATCGCGATATCCACCCTCCAAAGAAAACCTCCAAATTTAAATAATGCCT
*
33413553 AAGACATTAT
66 AAGACATCAT
* * * *
33413563 GATATCCTCTTTGGGTATCGCGATATCCACCCTCCAAAGAAGACC-CTCAAGTTTGAATAATGCC
1 AATATCCTCTTTGGGTATCGCGATATCCACCCTCCAAAGAAAACCTC-CAAATTTAAATAATGCC
* *
33413627 TGAGATATCAT
65 TAAGACATCAT
*
33413638 AATATCCTCTTCTGGGTATCGCAATATC
1 AATATCCTCTT-TGGGTATCGCGATATC
33413666 ACTTTCATCA
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
74 1 0.01
75 69 0.81
76 15 0.18
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (75 bp):
AATATCCTCTTTGGGTATCGCGATATCCACCCTCCAAAGAAAACCTCCAAATTTAAATAATGCCT
AAGACATCAT
Found at i:33415504 original size:17 final size:17
Alignment explanation
Indices: 33415469--33415501 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33415459 TTAAGATAAG
*
33415469 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
33415486 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
33415502 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:33415929 original size:9 final size:9
Alignment explanation
Indices: 33415909--33415939 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
33415899 AAAATATCAT
33415909 ATTAATTTTA
1 ATTAA-TTTA
33415919 ATTAATTTA
1 ATTAATTTA
33415928 ATTAATTTA
1 ATTAATTTA
33415937 ATT
1 ATT
33415940 TTACTTGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
ATTAATTTA
Found at i:33419074 original size:66 final size:66
Alignment explanation
Indices: 33418964--33419101 Score: 226
Period size: 66 Copynumber: 2.1 Consensus size: 66
33418954 GTCTCACAAC
*
33418964 TAAT-GGAATTTGGATTCAAATTGAAGTCTAAGAAATCATCTAAATAAAGATTAGGTTTGTTGGG
1 TAATGGGAATTTGGATTCAAATTGAAGTCTAAGAAATCATCTAAATAAAGATTAGGTTAGTTGGG
33419028 A
66 A
* *
33419029 TAATGGGAATTTGGATTCAAATTGAAGTCTAAGAAATC-TGTTAAATAAGGATTAGGTTAGTTGG
1 TAATGGGAATTTGGATTCAAATTGAAGTCTAAGAAATCAT-CTAAATAAAGATTAGGTTAGTTGG
33419093 GA
65 GA
33419095 TAATGGG
1 TAATGGG
33419102 TATGTCTTTT
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
65 5 0.07
66 63 0.93
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (66 bp):
TAATGGGAATTTGGATTCAAATTGAAGTCTAAGAAATCATCTAAATAAAGATTAGGTTAGTTGGG
A
Found at i:33419141 original size:22 final size:21
Alignment explanation
Indices: 33419116--33419161 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
33419106 TCTTTTTTTA
* *
33419116 TTTTATTTTATCTTATTTTTGT
1 TTTTATTCTAT-TTACTTTTGT
*
33419138 TTTTATTCTATTTCCTTTTGT
1 TTTTATTCTATTTACTTTTGT
33419159 TTT
1 TTT
33419162 GAAATTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.11, C:0.09, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTATTCTATTTACTTTTGT
Found at i:33420098 original size:21 final size:21
Alignment explanation
Indices: 33420074--33420117 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
33420064 ACCTTTTTTA
*
33420074 AAGTTAAAAGTCAAAACCATT
1 AAGTTAAAAGACAAAACCATT
33420095 AAGTTAAAAGACAAAACCATT
1 AAGTTAAAAGACAAAACCATT
33420116 AA
1 AA
33420118 ATTATTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.57, C:0.14, G:0.09, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGACAAAACCATT
Found at i:33423152 original size:44 final size:44
Alignment explanation
Indices: 33422924--33423141 Score: 289
Period size: 44 Copynumber: 4.8 Consensus size: 44
33422914 GCGATGTGTG
*
33422924 TGTGCTAGTGTAAGACATTTCTGGGACATGGCATCGGCATTA-AGACGA
1 TGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGC--TACA-A-GA
* * *
33422972 -GAGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCT-CAAGA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATC-GGCTACAAGA
*
33423015 TGTAAGCTAGTGTAAGACATGTCTGGGAAATGCATCGGCTACAAGA
1 TGT--GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGA
*
33423061 TGTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCTACAAGA
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGA
33423105 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
33423142 ATGGATATGT
Statistics
Matches: 153, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
43 2 0.01
44 77 0.50
45 5 0.03
46 42 0.27
47 27 0.18
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (44 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGA
Found at i:33423152 original size:88 final size:89
Alignment explanation
Indices: 33422924--33423143 Score: 295
Period size: 90 Copynumber: 2.4 Consensus size: 89
33422914 GCGATGTGTG
* *
33422924 TGTGCTAGTGTAAGACATTTCTGGGACATGGCATCGGCATTAAGACGA-GAGCTAGTGTAAGACA
1 TGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCA-TAAGA-GATGTGCTAGTGTAAGACA
*
33422988 TGTTTGGGACATGCATCAGCCTCAAGA
63 TGTCTGGGACATGCATCAGCCTCAAGA
*
33423015 TGTAAGCTAGTGTAAGACATGTCTGGGAAATGCATCGGC-TACA-AGATGTGCTAGTGTAAGACA
1 TGT--GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATA-AGAGATGTGCTAGTGTAAGACA
* *
33423078 TGTCTGGGACATGCAT-TGGCTACAAGA
63 TGTCTGGGACATGCATCAGCCT-CAAGA
33423105 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT
1 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCAT
33423144 GGATATGTGT
Statistics
Matches: 116, Mismatches: 7, Indels: 14
0.85 0.05 0.10
Matches are distributed among these distances:
88 33 0.28
89 6 0.05
90 41 0.35
91 4 0.03
92 8 0.07
93 24 0.21
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (89 bp):
TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATAAGAGATGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGCCTCAAGA
Found at i:33425792 original size:31 final size:30
Alignment explanation
Indices: 33425757--33425818 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
33425747 TCCTTAACTC
*
33425757 AAACTTTGGCAAAATTACAATTTTTGCCCCT
1 AAACTTTGGCAAAATTAC-ACTTTTGCCCCT
* * *
33425788 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
33425818 A
1 A
33425819 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:33427962 original size:40 final size:40
Alignment explanation
Indices: 33427726--33427981 Score: 322
Period size: 40 Copynumber: 6.4 Consensus size: 40
33427716 GATGATAACG
* * *
33427726 GGGCTAAGTCCCGAAGACATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
33427766 GGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* * *
33427806 GAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
33427846 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * **
33427886 GGGCTAAGTCCCGAAGACATTTGTGTGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
33427926 GGGCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
33427966 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
33427982 TACTTGGTTT
Statistics
Matches: 191, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
39 15 0.08
40 176 0.92
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:33435899 original size:17 final size:18
Alignment explanation
Indices: 33435867--33435900 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33435857 GATGGGTTGA
*
33435867 AATGGGCTGTGTGGGCCT
1 AATGGGCTGCGTGGGCCT
33435885 AATGGGCT-CGTGGGCC
1 AATGGGCTGCGTGGGCC
33435901 CATACAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.12, C:0.21, G:0.44, T:0.24
Consensus pattern (18 bp):
AATGGGCTGCGTGGGCCT
Found at i:33436151 original size:27 final size:27
Alignment explanation
Indices: 33436113--33436297 Score: 176
Period size: 27 Copynumber: 6.9 Consensus size: 27
33436103 TAAGACCTCG
*
33436113 ATTTGTAAAATTACCGAAATACCCCTA
1 ATTTGGAAAATTACCGAAATACCCCTA
* * *
33436140 ATTTGGAAAATTACCCAAATACCTCAA
1 ATTTGGAAAATTACCGAAATACCCCTA
* **
33436167 ATTTGTAAAATTATTGAAATACCCCTA
1 ATTTGGAAAATTACCGAAATACCCCTA
*
33436194 ATTTGGAAAATTACCGAAATACCCCTG
1 ATTTGGAAAATTACCGAAATACCCCTA
* * * *
33436221 ATTTGTG-AAATTATCGAAACACCCATG
1 ATTTG-GAAAATTACCGAAATACCCCTA
** * *
33436248 GGTTGTAAAATTACCAAAATACCCCTA
1 ATTTGGAAAATTACCGAAATACCCCTA
* *
33436275 ATTTGTG-AAATTATCAAAATACC
1 ATTTG-GAAAATTACCGAAATACC
33436298 TCCGATTGGT
Statistics
Matches: 126, Mismatches: 29, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
27 125 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (27 bp):
ATTTGGAAAATTACCGAAATACCCCTA
Found at i:33436188 original size:54 final size:54
Alignment explanation
Indices: 33436113--33436297 Score: 226
Period size: 54 Copynumber: 3.4 Consensus size: 54
33436103 TAAGACCTCG
* * * *
33436113 ATTTGTAAAATTACCGAAATACCCCTAATTTGGAAAATTACCCAAATACCTCAA
1 ATTTGTAAAATTATCGAAATACCCCTAATTTGGAAAATTACCAAAATACCCCTA
* * *
33436167 ATTTGTAAAATTATTGAAATACCCCTAATTTGGAAAATTACCGAAATACCCCTG
1 ATTTGTAAAATTATCGAAATACCCCTAATTTGGAAAATTACCAAAATACCCCTA
* * * *** *
33436221 ATTTGTGAAATTATCGAAACACCCATGGGTTGTAAAATTACCAAAATACCCCTA
1 ATTTGTAAAATTATCGAAATACCCCTAATTTGGAAAATTACCAAAATACCCCTA
* *
33436275 ATTTGTGAAATTATCAAAATACC
1 ATTTGTAAAATTATCGAAATACC
33436298 TCCGATTGGT
Statistics
Matches: 113, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 113 1.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (54 bp):
ATTTGTAAAATTATCGAAATACCCCTAATTTGGAAAATTACCAAAATACCCCTA
Found at i:33436254 original size:81 final size:81
Alignment explanation
Indices: 33436113--33436297 Score: 205
Period size: 81 Copynumber: 2.3 Consensus size: 81
33436103 TAAGACCTCG
* * *
33436113 ATTTGTAAAATTACCGAAATACCCCTAATTTGGAAAATTACCCAAATACCTCAAATTTGTAAAAT
1 ATTTGGAAAATTACCGAAATACCCCTAATTTGGAAAATTACCCAAACACCTCAAAGTTGTAAAAT
***
33436178 TATTGAAATACCCCTA
66 TACCAAAATACCCCTA
* * * **
33436194 ATTTGGAAAATTACCGAAATACCCCTGATTTGTG-AAATTATCGAAACACC-CATGGGTTGTAAA
1 ATTTGGAAAATTACCGAAATACCCCTAATTTG-GAAAATTACCCAAACACCTCA-AAGTTGTAAA
33436257 ATTACCAAAATACCCCTA
64 ATTACCAAAATACCCCTA
* *
33436275 ATTTGTG-AAATTATCAAAATACC
1 ATTTG-GAAAATTACCGAAATACC
33436298 TCCGATTGGT
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 2 0.02
81 84 0.95
82 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (81 bp):
ATTTGGAAAATTACCGAAATACCCCTAATTTGGAAAATTACCCAAACACCTCAAAGTTGTAAAAT
TACCAAAATACCCCTA
Found at i:33436335 original size:27 final size:27
Alignment explanation
Indices: 33436305--33436450 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
33436295 ACCTCCGATT
* *
33436305 GGTAAAATGACGGTAATACCTCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
33436332 GGTAAAATAACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * *
33436359 GGTAAAATGGCCGTAATGCCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
* **
33436386 GGTAAAATGATCGTAATTGCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * *
33436413 GGTAAACTGACCGTAACACCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
33436440 GGTAAAATGAC
1 GGTAAAATGAC
33436451 AATTATGCCC
Statistics
Matches: 100, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:33436702 original size:26 final size:26
Alignment explanation
Indices: 33436673--33436751 Score: 113
Period size: 26 Copynumber: 3.0 Consensus size: 26
33436663 CCACATTTAC
* * *
33436673 TATTTCTGGAAGCTATGCTGCATTAT
1 TATTACTGGCAGCTTTGCTGCATTAT
*
33436699 TATTACTGGCAGCTTTGTTGCATTAT
1 TATTACTGGCAGCTTTGCTGCATTAT
*
33436725 TATTACTGGCAGCTTTGCTGCAATAT
1 TATTACTGGCAGCTTTGCTGCATTAT
33436751 T
1 T
33436752 GGTGTGCTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (26 bp):
TATTACTGGCAGCTTTGCTGCATTAT
Found at i:33436924 original size:33 final size:33
Alignment explanation
Indices: 33436887--33436990 Score: 127
Period size: 33 Copynumber: 3.1 Consensus size: 33
33436877 TAGGCGCACA
* *
33436887 CTGTTACTGTATAGGGTTAAAGCCTAGACTGTT
1 CTGTTACTGTATAGGGCTAAGGCCTAGACTGTT
* * *
33436920 CTGTTACTGTATAAGGCTAAGGCCCAGACTGTA
1 CTGTTACTGTATAGGGCTAAGGCCTAGACTGTT
* * *
33436953 CTGATACTGGATAGGGCTCAGGCCTAGACTGTT
1 CTGTTACTGTATAGGGCTAAGGCCTAGACTGTT
33436986 ACTGT
1 -CTGT
33436991 ATACATTGTT
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
33 55 0.95
34 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (33 bp):
CTGTTACTGTATAGGGCTAAGGCCTAGACTGTT
Found at i:33445311 original size:93 final size:92
Alignment explanation
Indices: 33445188--33445359 Score: 238
Period size: 93 Copynumber: 1.9 Consensus size: 92
33445178 AGGATATTTG
* * * * *
33445188 GGCATCCGAGTTGTTGAGTAGAGTCTGAGTTCACTTACGAATGCGAATGTCTGAGCTTGTTGAGT
1 GGCATCCGAGTCGTTGAGTAGAGTCTGAGTTCACTTACGAATGCGAACGCCCGAGCTCGTTGAGT
33445253 TGAGTCCGAGTTCGTGAGATGTAATTA
66 TGAGTCCGAGTTCGTGAGATGTAATTA
* * *
33445280 GGCATCCGAGCTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGAG-TCGTTGAGTAGAGTCT-GAGTTCACTTACGAATGCGAACGCCCGAGCTCGTTGA
*
33445344 GTTGAGTCTGAGTTCG
64 GTTGAGTCCGAGTTCG
33445360 CTTATGGGCA
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
92 11 0.16
93 58 0.84
ACGTcount: A:0.20, C:0.17, G:0.31, T:0.31
Consensus pattern (92 bp):
GGCATCCGAGTCGTTGAGTAGAGTCTGAGTTCACTTACGAATGCGAACGCCCGAGCTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAATTA
Found at i:33452135 original size:14 final size:15
Alignment explanation
Indices: 33452106--33452143 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
33452096 CTCAACATTT
*
33452106 TAATATCTCACAATA
1 TAATATTTCACAATA
33452121 TAATATTTC-CAATA
1 TAATATTTCACAATA
33452135 TAA-ATTTCA
1 TAATATTTCA
33452144 TGTGGAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 5 0.24
14 8 0.38
15 8 0.38
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATATTTCACAATA
Found at i:33453987 original size:47 final size:47
Alignment explanation
Indices: 33453928--33454022 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 47
33453918 TGTCTGAAGA
* * * *
33453928 AAGACACTTTAAAATGCTATACTAAGTAAAACATAATTAATAGACTT
1 AAGACACATTAAAATGCTATACTAAATAAAACACAATTAATAAACTT
* *
33453975 AAGACACATTAAAATGCTATACTAAATAAGACACAATTAGTAAACTT
1 AAGACACATTAAAATGCTATACTAAATAAAACACAATTAATAAACTT
33454022 A
1 A
33454023 TGAAAAATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (47 bp):
AAGACACATTAAAATGCTATACTAAATAAAACACAATTAATAAACTT
Found at i:33454033 original size:47 final size:47
Alignment explanation
Indices: 33453936--33454034 Score: 126
Period size: 47 Copynumber: 2.1 Consensus size: 47
33453926 GAAAGACACT
* * * * *
33453936 TTAAAATGCTATACTAAGTAAAACATAATTAATAGACTTAAGACACA
1 TTAAAATGCTATACTAAATAAAACACAATTAATAAACTTAAGAAAAA
* * *
33453983 TTAAAATGCTATACTAAATAAGACACAATTAGTAAACTTATGAAAAA
1 TTAAAATGCTATACTAAATAAAACACAATTAATAAACTTAAGAAAAA
33454030 TTAAA
1 TTAAA
33454035 GATGTTCAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (47 bp):
TTAAAATGCTATACTAAATAAAACACAATTAATAAACTTAAGAAAAA
Found at i:33459041 original size:19 final size:19
Alignment explanation
Indices: 33459017--33459054 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
33459007 AATCTGAATG
33459017 TATTTAATGTGTTTGATTT
1 TATTTAATGTGTTTGATTT
*
33459036 TATTTAATGTGTTTTATTT
1 TATTTAATGTGTTTGATTT
33459055 AGTTCAGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (19 bp):
TATTTAATGTGTTTGATTT
Found at i:33462769 original size:19 final size:19
Alignment explanation
Indices: 33462726--33462769 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
33462716 TCTCTCTTTC
33462726 ATATAATATATTATTAAAT
1 ATATAATATATTATTAAAT
* *
33462745 AAATAATATA-TATTATCAT
1 ATATAATATATTATTA-AAT
33462764 ATATAA
1 ATATAA
33462770 AAATAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATAATATATTATTAAAT
Found at i:33462783 original size:32 final size:33
Alignment explanation
Indices: 33462742--33462816 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 33
33462732 TATATTATTA
33462742 AATAAATAATATATATTATCATATATAAA-AAT
1 AATAAATAATATATATTATCATATATAAATAAT
* * *
33462774 AATAAATAATTTATATTATTATGTATAAATAAT
1 AATAAATAATATATATTATCATATATAAATAAT
33462807 ATATAAATAA
1 A-ATAAATAA
33462817 ATTTAAACTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 26 0.68
33 4 0.11
34 8 0.21
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (33 bp):
AATAAATAATATATATTATCATATATAAATAAT
Found at i:33470563 original size:21 final size:23
Alignment explanation
Indices: 33470539--33470581 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
33470529 TTTTAAAACA
*
33470539 TTTAAA-ATTATTTTT-ATATTT
1 TTTAAAGAATATTTTTAATATTT
33470560 TTTAAAGAATATTTTTAATATT
1 TTTAAAGAATATTTTTAATATT
33470582 ATGAAATACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTAAAGAATATTTTTAATATTT
Found at i:33470669 original size:26 final size:26
Alignment explanation
Indices: 33470608--33470691 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
33470598 TAGAAAAAGT
* * *
33470608 TAATAACATTAATAATTAAAATTC-T-
1 TAATAAAATTAATAAAT-AAATACATA
*
33470633 TAATAAAATTAATAAGTAAATACATA
1 TAATAAAATTAATAAATAAATACATA
*
33470659 TAATAAAATTAATAAATAAATACACA
1 TAATAAAATTAATAAATAAATACATA
33470685 TAATAAA
1 TAATAAA
33470692 TCAATTAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
24 5 0.10
25 16 0.31
26 31 0.60
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (26 bp):
TAATAAAATTAATAAATAAATACATA
Found at i:33470700 original size:26 final size:26
Alignment explanation
Indices: 33470633--33470705 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
33470623 TTAAAATTCT
* * *
33470633 TAATAAAATTAATAAGTAAATACATA
1 TAATAAAATCAATAAATAAATACACA
*
33470659 TAATAAAATTAATAAATAAATACACA
1 TAATAAAATCAATAAATAAATACACA
33470685 TAAT-AAATCAATTAAA-AAATA
1 TAATAAAATCAA-TAAATAAATA
33470706 ACTTATAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 11 0.26
26 32 0.74
ACGTcount: A:0.64, C:0.05, G:0.01, T:0.29
Consensus pattern (26 bp):
TAATAAAATCAATAAATAAATACACA
Found at i:33472623 original size:27 final size:27
Alignment explanation
Indices: 33472607--33472689 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 27
33472597 AGCGTGAATA
*
33472607 GTTGAGCCTATCTGACAGGTGCGACTG
1 GTTGAGCCTATCTGACAGGCGCGACTG
*
33472634 GTTGAGCCTATTTGACAGGCGCGACTG
1 GTTGAGCCTATCTGACAGGCGCGACTG
* * *
33472661 GTTGAGCCTATCTCAGAGGCGCGATTG
1 GTTGAGCCTATCTGACAGGCGCGACTG
33472688 GT
1 GT
33472690 GGGACCCACA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.18, C:0.22, G:0.34, T:0.27
Consensus pattern (27 bp):
GTTGAGCCTATCTGACAGGCGCGACTG
Found at i:33472779 original size:24 final size:24
Alignment explanation
Indices: 33472751--33472796 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
33472741 AAAATCAAAT
33472751 GAGCAACAAACACAAAATTTAGTA
1 GAGCAACAAACACAAAATTTAGTA
**
33472775 GAGCAACAGTCACAAAATTTAG
1 GAGCAACAAACACAAAATTTAG
33472797 CAGAACGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (24 bp):
GAGCAACAAACACAAAATTTAGTA
Found at i:33478091 original size:23 final size:22
Alignment explanation
Indices: 33478040--33478091 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
33478030 CCTCGTCTTT
*
33478040 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
33478062 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
33478085 TTCTTTT
1 TTCTTTT
33478092 TCAAATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:33483191 original size:60 final size:60
Alignment explanation
Indices: 33483118--33483236 Score: 177
Period size: 60 Copynumber: 2.0 Consensus size: 60
33483108 ATATTAAACT
* *
33483118 AAACACAACAATTTAT-ACAATAATCCTAAATTAATAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAAC-ATAATCCTAAATTAATAACAAATTAATTTTAAAATAATTAC
* * *
33483178 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAATTTAATTTTAAATTAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTAATAACAAATTAATTTTAAAATAATTA
33483237 TAAAAAAAAC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
60 51 0.96
61 2 0.04
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTAATAACAAATTAATTTTAAAATAATTAC
Found at i:33483446 original size:20 final size:21
Alignment explanation
Indices: 33483401--33483446 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
33483391 AATACATTAC
*
33483401 CTTTTTTTTCTTTCTTATTCT
1 CTTTTTCTTCTTTCTTATTCT
*
33483422 TTTTTTCTTC-TTCTT-TCTCT
1 CTTTTTCTTCTTTCTTAT-TCT
33483442 CTTTT
1 CTTTT
33483447 CTTTCTCTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 12 0.57
21 8 0.38
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (21 bp):
CTTTTTCTTCTTTCTTATTCT
Found at i:33483450 original size:13 final size:14
Alignment explanation
Indices: 33483407--33483457 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
33483397 TTACCTTTTT
*
33483407 TTTCTTTCTTATTC
1 TTTCTCTCTTATTC
* * *
33483421 TTTTTTTCTTCTTC
1 TTTCTCTCTTATTC
33483435 TTTCTCTCTT-TTC
1 TTTCTCTCTTATTC
33483448 TTTCTCTCTT
1 TTTCTCTCTT
33483458 CCAGTGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
13 13 0.39
14 20 0.61
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTCTCTCTTATTC
Found at i:33485542 original size:54 final size:53
Alignment explanation
Indices: 33485482--33485956 Score: 418
Period size: 54 Copynumber: 8.8 Consensus size: 53
33485472 TCAACAACTA
* * * *
33485482 CAAGATTCTAGAAATCTTGTAAGTATAAGGTTGGGATCTTAAATCAATGAGCTG
1 CAAGATTC-AAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * *
33485536 CAAGATTCGAAAAATCTTGTAAGTATAAGGCTGCAATCTTAAATCGGTGAGCCG
1 CAAGATTC-AAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * *
33485590 CAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGTTGAGCCA
1 CAAGATTCA-AAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * *
33485644 CAAGATTAAAAAAATCTTGTAAGTATTAGGTTGCGATCTTAAATTGGAT-A-CTCG
1 CAAGATT-CAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAA-TCGATGAGC-CG
* * * *
33485698 CAATATTCAGAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATTGGTGAGCCG
1 CAAGATTCA-AAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * * * *** *
33485752 CGAGATTCACAAAATCTTATAAGTATAAGGTTGTGATCTTAAATTGGCAAACCG
1 CAAGATTCA-AAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * * * * *
33485806 TAAGATACAGAAAATCCTATAAGTATAAGGTCGCGATATTAAATC-A-GCAAGCCG
1 CAAGATTCA-AAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATG--AGCCG
* * * ** **
33485860 TAAGATTCGAAAAATGTTGTAAGTATAAGGTTGCAATCTTAAATCGACAATTCG
1 CAAGATTC-AAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
* * * * *
33485914 TAAGATTCAAAAAATCTTATAACTACAAGGTTGTGATCTTAAA
1 CAAGATTC-AAAAATCTTGTAAGTATAAGGTTGCGATCTTAAA
33485957 CCAGTGAACT
Statistics
Matches: 347, Mismatches: 62, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
53 6 0.02
54 334 0.96
55 7 0.02
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.30
Consensus pattern (53 bp):
CAAGATTCAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCGATGAGCCG
Found at i:33485628 original size:108 final size:107
Alignment explanation
Indices: 33485464--33485963 Score: 495
Period size: 108 Copynumber: 4.6 Consensus size: 107
33485454 GAAAGTTACG
** ** *
33485464 ATCTTAAATCAACAACTACAAGATTCTAG-AAATCTTGTAAGTATAAGGTTGGGATCTTAAATCA
1 ATCTTAAATCGGCAACCGCAAGATTC-AGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCA
* * *
33485528 ATGAGCTGCAAGATTCGAAAAATCTTGTAAGTATAAGGCTGCA
65 GTGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCA
* * *
33485571 ATCTTAAATCGGTGAGCCGCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAAT-T
1 ATCTTAAATCGG-CAACCGCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCA
* ** * *
33485635 GTTGAGCCACAAGATTAAAAAAATCTTGTAAGTATTAGGTTGCG
65 G-TGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCA
* * * *
33485679 ATCTTAAATTGG-ATACTCGCAATATTCAGAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATT
1 ATCTTAAATCGGCA-AC-CGCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATC
* * * **
33485743 GGTGAGCCGCGAGATTC-ACAAAATCTTATAAGTATAAGGTTGTG
64 AGTGAGCCGCAAGATTCGA-AAAATCTTGTAAGTATAAGGTTGCA
* * * * * * *
33485787 ATCTTAAATTGGCAAACCGTAAGATACAGAAAATCCTATAAGTATAAGGTCGCGATATTAAATCA
1 ATCTTAAATCGGC-AACCGCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCA
** * *
33485852 GCAAGCCGTAAGATTCGAAAAATGTTGTAAGTATAAGGTTGCA
65 GTGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCA
* * * * * * * * *
33485895 ATCTTAAATCGACAATTCGTAAGATTCAAAAAATCTTATAACTACAAGGTTGTGATCTTAAACCA
1 ATCTTAAATCGGCAA-CCGCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCA
33485960 GTGA
65 GTGA
33485964 ACTGATTAGG
Statistics
Matches: 323, Mismatches: 59, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
106 1 0.00
107 16 0.05
108 301 0.93
109 4 0.01
110 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (107 bp):
ATCTTAAATCGGCAACCGCAAGATTCAGAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATCAG
TGAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCA
Found at i:33485749 original size:162 final size:162
Alignment explanation
Indices: 33485493--33485956 Score: 513
Period size: 162 Copynumber: 2.9 Consensus size: 162
33485483 AAGATTCTAG
*
33485493 AAATCTTGTAAGTATAAGGTTGGGATCTTAAATCAATGAGCTGCAAGATTCGAAAAATCTTGTAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATCAATGAGCTGCAAGATTCGAAAAATCTTGTAA
* *
33485558 GTATAAGGCTGCAATCTTAAATCGGTGAGCCGCAAGATTCAGAAAATCTTGTAAGTATAAGGTTG
66 GTATAAGGCTGCAATCTTAAATCGGTGAGCCGCAAGATTCACAAAATCTTATAAGTATAAGGTTG
33485623 CGATCTTAAATTGTTGAGCCACAAGATTAAAA
131 CGATCTTAAATTGTTGAGCCACAAGATTAAAA
* ** *
33485655 AAATCTTGTAAGTATTAGGTTGCGATCTTAAATTGGAT-A-CTCGCAATATTC-AGAAAATCTTG
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAA-TCAATGAGCT-GCAAGATTCGA-AAAATCTTG
* * *
33485717 TAAGTATAAGGCTGCGATCTTAAATTGGTGAGCCGCGAGATTCACAAAATCTTATAAGTATAAGG
63 TAAGTATAAGGCTGCAATCTTAAATCGGTGAGCCGCAAGATTCACAAAATCTTATAAGTATAAGG
* *** * ** *
33485782 TTGTGATCTTAAATTGGCAAACCGTAAGA-TACAGA
128 TTGCGATCTTAAATTGTTGAGCCACAAGATTA-AAA
* * * * *** * * *
33485817 AAATCCTATAAGTATAAGGTCGCGATATTAAATCAGCAAGCCGTAAGATTCGAAAAATGTTGTAA
1 AAATCTTGTAAGTATAAGGTTGCGATCTTAAATCAATGAGCTGCAAGATTCGAAAAATCTTGTAA
* *** ** * * * *
33485882 GTATAAGGTTGCAATCTTAAATCGACAATTCGTAAGATTCAAAAAATCTTATAACTACAAGGTTG
66 GTATAAGGCTGCAATCTTAAATCGGTGAGCCGCAAGATTCACAAAATCTTATAAGTATAAGGTTG
*
33485947 TGATCTTAAA
131 CGATCTTAAA
33485957 CCAGTGAACT
Statistics
Matches: 251, Mismatches: 44, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
161 6 0.02
162 240 0.96
163 5 0.02
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (162 bp):
AAATCTTGTAAGTATAAGGTTGCGATCTTAAATCAATGAGCTGCAAGATTCGAAAAATCTTGTAA
GTATAAGGCTGCAATCTTAAATCGGTGAGCCGCAAGATTCACAAAATCTTATAAGTATAAGGTTG
CGATCTTAAATTGTTGAGCCACAAGATTAAAA
Found at i:33487318 original size:20 final size:22
Alignment explanation
Indices: 33487289--33487332 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
33487279 TCTTATTTCA
*
33487289 TTTTTCTGTTTA-T-ATGGATT
1 TTTTTATGTTTATTCATGGATT
33487309 TTTTTATGTTTATTCATGGATT
1 TTTTTATGTTTATTCATGGATT
33487331 TT
1 TT
33487333 CTTTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 1 0.05
22 9 0.43
ACGTcount: A:0.16, C:0.05, G:0.14, T:0.66
Consensus pattern (22 bp):
TTTTTATGTTTATTCATGGATT
Found at i:33488254 original size:56 final size:51
Alignment explanation
Indices: 33488153--33488255 Score: 125
Period size: 56 Copynumber: 1.9 Consensus size: 51
33488143 ACATATATTA
* * *
33488153 TTTATTTTAACTATTATACATATTACTTATTTTGAATTTTTTTATATTTCT
1 TTTATTTTAACTATTATACATATTACTTATTTTAAAATTTCTTATATTTCT
*
33488204 TTTATTTTAAACTATTATACGTGTATATTATTTATTTTAAAATTTCTTATAT
1 TTTATTTT-AACTATTATAC----ATATTACTTATTTTAAAATTTCTTATAT
33488256 GTTATTTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
51 8 0.19
52 11 0.26
56 24 0.56
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (51 bp):
TTTATTTTAACTATTATACATATTACTTATTTTAAAATTTCTTATATTTCT
Found at i:33488613 original size:22 final size:24
Alignment explanation
Indices: 33488582--33488639 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
33488572 ATTTTTTATG
* *
33488582 TATTACTTATTTAAAATTG-TTTC
1 TATTATTTATTTAAAATGGTTTTC
*
33488605 -ATTATTTATTTTAAATGGTTTTC
1 TATTATTTATTTAAAATGGTTTTC
*
33488628 TGTTATTTATTT
1 TATTATTTATTT
33488640 CATTCTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 15 0.52
23 4 0.14
24 10 0.34
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (24 bp):
TATTATTTATTTAAAATGGTTTTC
Found at i:33500707 original size:28 final size:27
Alignment explanation
Indices: 33500650--33500801 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
33500640 TAAATTGTGC
* *
33500650 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
33500677 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
33500705 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
33500732 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
33500760 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
33500787 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
33500802 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:33500715 original size:55 final size:55
Alignment explanation
Indices: 33500650--33500801 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
33500640 TAAATTGTGC
* *
33500650 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
33500705 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
33500760 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
33500802 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:33520687 original size:27 final size:27
Alignment explanation
Indices: 33520657--33520833 Score: 165
Period size: 27 Copynumber: 6.5 Consensus size: 27
33520647 AAATTGTACA
*
33520657 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
** * *
33520684 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
33520711 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
*
33520738 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
* * * *
33520766 GCACTAAGTGTGCGATTTTATTACGTA
1 GCACTAAGTGTGCGATTTGACTATGTT
* * * * *
33520793 GCACTAAGTGTGTGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTT
*
33520820 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
33520834 GGCTCAACAT
Statistics
Matches: 125, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:33520824 original size:82 final size:81
Alignment explanation
Indices: 33520653--33520833 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
33520643 GATTAAATTG
* * *
33520653 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
33520718 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** * *
33520734 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTTATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* * **
33520798 AAGTGTGTGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
33520816 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
33520834 GGCTCAACAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:33528680 original size:27 final size:27
Alignment explanation
Indices: 33528650--33528826 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 27
33528640 AAATTGTACA
*
33528650 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTT
** * *
33528677 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGATTTGACTATGTT
* * **
33528704 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTT
*
33528731 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTT
* * *
33528759 GCACTAAGTGTGCGATTCT-ATTACGTA
1 GCACTAAGTGTGCGATT-TGACTATGTT
* * * * *
33528786 GCACTAAGTGTGTGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTT
*
33528813 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
33528827 GGCTCAACAT
Statistics
Matches: 125, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 100 0.80
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTT
Found at i:33537580 original size:40 final size:40
Alignment explanation
Indices: 33537323--33537576 Score: 393
Period size: 40 Copynumber: 6.3 Consensus size: 40
33537313 ATGATAACCA
* * *
33537323 GGCTAAGTCCCGAAGGCGTTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCG
* * *
33537363 AGCTAAGTCCCGAAGGCCTTTGTGAGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
33537403 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
33537443 GGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* * *
33537483 GGCTAAGTCCCAAAAGCATTTGTGCGAGTTACTATATTCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
33537523 GGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
33537563 GGCTAAGTCCCGAA
1 GGCTAAGTCCCGAA
33537577 AGCAAACCGG
Statistics
Matches: 198, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 197 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:33545445 original size:40 final size:40
Alignment explanation
Indices: 33545390--33545636 Score: 340
Period size: 40 Copynumber: 6.2 Consensus size: 40
33545380 CGGATGATAA
* * *
33545390 CCGGGCTAAGTCCCGAAGGCGTTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
33545430 CCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
33545470 CC-GGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
33545509 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
33545549 CCGGGCTATGTCCCGAAAGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
33545589 CCGGGCTAAGTCCCGAAGACAATTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
33545629 CC-GGCTAA
1 CCGGGCTAA
33545637 ATTTCGAAGG
Statistics
Matches: 187, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 45 0.24
40 141 0.75
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:33545524 original size:79 final size:79
Alignment explanation
Indices: 33545393--33545636 Score: 332
Period size: 79 Copynumber: 3.1 Consensus size: 79
33545383 ATGATAACCG
* * *
33545393 GGCTAAGTCCCGAAGGCGTTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTG
33545457 AGAGTTACTATATCC
65 AGAGTTACTATATCC
* *
33545472 GGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGA
33545537 GAGTTACTATATCC
66 GAGTTACTATATCC
* * * * * *
33545551 GGGCTATGTCCCGAAAGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGACAATTGAG
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
33545616 CA-AG-TAGCTATATCC
65 -AGAGTTA-CTATATCC
33545631 GGCTAA
1 GGCTAA
33545637 ATTTCGAAGG
Statistics
Matches: 147, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
79 79 0.54
80 68 0.46
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGA
GAGTTACTATATCC
Found at i:33545635 original size:119 final size:119
Alignment explanation
Indices: 33545390--33545636 Score: 356
Period size: 119 Copynumber: 2.1 Consensus size: 119
33545380 CGGATGATAA
* * *
33545390 CCGGGCTAAGTCCCGAAGGCGTTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAAGCATTTG
* * * *
33545455 TGAGAGTTACTATATCCGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAT
66 TGAGAGTTACTATAACCGGCTAAGTCCCGAAGACAATTGAGCAAGTTACTATAT
* *
33545509 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTATGTCCCGAAAGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCCCGAAAGCATTT
*
33545573 GTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGACAATTGAGCAAG-TAGCTATAT
65 GTGAGAGTTACTATAACC-GGCTAAGTCCCGAAGACAATTGAGCAAGTTA-CTATAT
33545629 CC-GGCTAA
1 CCGGGCTAA
33545637 ATTTCGAAGG
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
118 2 0.02
119 80 0.70
120 33 0.29
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAAGCATTTG
TGAGAGTTACTATAACCGGCTAAGTCCCGAAGACAATTGAGCAAGTTACTATAT
Found at i:33565297 original size:40 final size:40
Alignment explanation
Indices: 33565260--33565485 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
33565250 GCTACTCGTT
* *
33565260 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
33565300 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
33565340 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
33565380 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
33565420 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
33565461 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33565486 CATCATTGAA
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 152 0.90
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:33565469 original size:120 final size:120
Alignment explanation
Indices: 33565260--33565485 Score: 289
Period size: 120 Copynumber: 1.9 Consensus size: 120
33565250 GCTACTCGTT
33565260 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
33565325 ATTTAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
66 ATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* * * **
33565380 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* * * * *
33565442 CGGATATGGTCACTTAGCACAAA-GCCTTTGGGACTTAGCCCGGA
63 CGGATATAGTAACTCA-CACAAATGCCTTCGGGACTTAACCCGGA
33565486 CATCATTGAA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
119 6 0.07
120 77 0.85
121 8 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:33573393 original size:40 final size:40
Alignment explanation
Indices: 33573356--33573621 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
33573346 GCTACTCGTT
* *
33573356 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
33573396 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33573436 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
33573476 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
33573516 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
33573556 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
33573597 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33573622 CATCATTCAA
Statistics
Matches: 209, Mismatches: 13, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
39 3 0.01
40 193 0.92
41 13 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:33575335 original size:43 final size:43
Alignment explanation
Indices: 33575233--33575335 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
33575223 GGTGTAATTT
* * ** *
33575233 CATGTAATACCATGTCTGGGACATTGGCATCGATATGAGATTA
1 CATGTAAGACCATATCTGGGACAGAGGCATCGATATGAGATAA
* * * *
33575276 CGTGTAAGACCCTATCTGGGACAGAGGCATCGGTATGTGATAA
1 CATGTAAGACCATATCTGGGACAGAGGCATCGATATGAGATAA
*
33575319 CATGTAAGACTATATCT
1 CATGTAAGACCATATCT
33575336 AGGATATGGC
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (43 bp):
CATGTAAGACCATATCTGGGACAGAGGCATCGATATGAGATAA
Found at i:33582355 original size:37 final size:37
Alignment explanation
Indices: 33582305--33582383 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
33582295 TTATTACGAA
* *
33582305 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
33582342 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
33582379 GTCTT
1 GTCTT
33582384 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:33582580 original size:47 final size:47
Alignment explanation
Indices: 33582502--33582716 Score: 313
Period size: 47 Copynumber: 4.6 Consensus size: 47
33582492 CCCTTCGGGA
* ** * * * * *
33582502 CTTATCACATTTATGGACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
33582549 CCTGTCACATATATACGCCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33582596 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33582643 CTTATCACATATATACACTTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33582690 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
33582717 ACCAACCCTT
Statistics
Matches: 150, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 150 1.00
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33583062 original size:39 final size:39
Alignment explanation
Indices: 33582941--33583072 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 39
33582931 GCTACTCGTT
*
33582941 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGATT-TAGTAACTCGCA
* * *
33582981 CAAATGCCTTCGAGACATAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCG-GGCATAGCCCGGATTTAGTAACTCGCA
* * *
33583021 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGATTTAGTAACTCGCA
33583060 CAAATGCCTTCGG
1 CAAATGCCTTCGG
33583073 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 34 0.43
40 43 0.54
41 3 0.04
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGATTTAGTAACTCGCA
Found at i:33592740 original size:18 final size:18
Alignment explanation
Indices: 33592697--33592741 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
33592687 AGCCCATTAC
* *
33592697 AGTAACAATAAATAGTGT
1 AGTAACAGTAAATAATGT
*
33592715 AGTAACAGTAATTAATGT
1 AGTAACAGTAAATAATGT
33592733 AGTAACAGT
1 AGTAACAGT
33592742 TTAAACAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.07, G:0.18, T:0.29
Consensus pattern (18 bp):
AGTAACAGTAAATAATGT
Found at i:33593101 original size:27 final size:27
Alignment explanation
Indices: 33593083--33593157 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
33593073 GGAAAAATAT
* *
33593083 TCATCTTACTATATAAGGGCAAAACAA
1 TCATCTTACCACATAAGGGCAAAACAA
* *
33593110 TCATTTTACCACATAAGGGCAAAACAG
1 TCATCTTACCACATAAGGGCAAAACAA
* *
33593137 TTATTTTACCACATAAGGGCA
1 TCATCTTACCACATAAGGGCA
33593158 TAGTCATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (27 bp):
TCATCTTACCACATAAGGGCAAAACAA
Found at i:33602802 original size:30 final size:30
Alignment explanation
Indices: 33602768--33602831 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
33602758 GAGGCAGGCA
*
33602768 TGTGTAGTACACAGCCTGACCACACGGGCG
1 TGTGTAGTACACAGCCTGACCACACGGACG
*
33602798 TGTGTAGTACACGGCCTGACCACACGGACG
1 TGTGTAGTACACAGCCTGACCACACGGACG
33602828 TGTG
1 TGTG
33602832 AGCCTTGTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.22, C:0.28, G:0.31, T:0.19
Consensus pattern (30 bp):
TGTGTAGTACACAGCCTGACCACACGGACG
Found at i:33608328 original size:40 final size:40
Alignment explanation
Indices: 33608271--33608568 Score: 385
Period size: 40 Copynumber: 7.5 Consensus size: 40
33608261 CGGATGATAA
* *
33608271 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
33608311 CTGGGCTAAGTCCCGAAGGCA-TTGTTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATA-T
33608351 CCGGGCTAAGTCCCGAAGGCA-TTGTTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATA-T
*
33608391 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
33608431 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
33608471 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
33608511 CCGGGCTAAGTCCCGAAGGTATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
33608551 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
33608569 TACTTGGTTT
Statistics
Matches: 238, Mismatches: 16, Indels: 9
0.90 0.06 0.03
Matches are distributed among these distances:
39 19 0.08
40 215 0.90
41 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:33616913 original size:40 final size:40
Alignment explanation
Indices: 33616678--33616914 Score: 320
Period size: 40 Copynumber: 5.9 Consensus size: 40
33616668 ATGATAACCA
* *
33616678 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT-CG
*
33616718 GGCTAAGTCCCGAAGGCA-TTGTTACGAGTTACTA-ATTTCG
1 GGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATA-TTCG
*
33616758 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTCG
**
33616798 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATACCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTCG
**
33616838 GGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATTCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTCG
* *
33616878 GGCTAAGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
33616915 CCGGTTAAAT
Statistics
Matches: 179, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
39 5 0.03
40 168 0.94
41 6 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTCG
Done.