Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 148 of 438
Found at i:44378871 original size:79 final size:79
Alignment explanation
Indices: 44378709--44378896 Score: 222
Period size: 79 Copynumber: 2.4 Consensus size: 79
44378699 TAACCACTCG
* *
44378709 CACAAGGCCTTCGGGTCTTAGCCCGGATATGATCACTAGCATAAATGCCTTCGGGACTTAGCCCG
1 CACAAAGCCTTCGGGTCTTAGCCCGGATATGATAACTAGCATAAATGCCTTCGGGACTTAGCCCG
*
44378774 GATATAGTCGCTAG
66 GATATAGTCGCTAA
* * * *
44378788 CACAAATGCCTTCGGGTTTTGGCCC-GATAT-AGTAACTCGCATAAATGCCTTC-GGATCTTAGT
1 CACAAA-GCCTTCGGGTCTTAGCCCGGATATGA-TAACTAGCATAAATGCCTTCGGGA-CTTAGC
*
44378850 CCGGATATAGTAC-TTAA
63 CCGGATATAGT-CGCTAA
* *
44378867 CACAAAACCTTCGGGACTTAGCCCGGATAT
1 CACAAAGCCTTCGGGTCTTAGCCCGGATAT
44378897 CATTCGAATA
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
78 18 0.20
79 57 0.62
80 17 0.18
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (79 bp):
CACAAAGCCTTCGGGTCTTAGCCCGGATATGATAACTAGCATAAATGCCTTCGGGACTTAGCCCG
GATATAGTCGCTAA
Found at i:44384628 original size:44 final size:44
Alignment explanation
Indices: 44384563--44384648 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
44384553 TTGATATCTC
* *
44384563 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
* * *
44384607 AAAGTCCATGTTTATAACATGGCATTTAAGGAGGAATTGACG
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACG
44384649 ATTAAGGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
Found at i:44384845 original size:47 final size:47
Alignment explanation
Indices: 44384786--44384902 Score: 180
Period size: 47 Copynumber: 2.5 Consensus size: 47
44384776 GCATTGGCAC
*
44384786 TAAGACAAGGATACCATGTAAGACCACGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCACGTTTGGAACATGACATTTGG
*
44384833 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCACGTTTGGAACATGACATTTGG
* * **
44384880 TAAGATAAAGATATTATGTAAGA
1 TAAGACAAGGATACCATGTAAGA
44384903 ACATCCCAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCACGTTTGGAACATGACATTTGG
Found at i:44385010 original size:55 final size:54
Alignment explanation
Indices: 44384914--44385082 Score: 220
Period size: 55 Copynumber: 3.1 Consensus size: 54
44384904 CATCCCAATG
* * *
44384914 CATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGA
1 CATGGCATTGATGAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
* *
44384968 CATGGCATTGATGAGTTACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCAATG-
1 CATGGCATTGATGAGTT-CTATAAGGC-AAGGATACCATGTAAGACCATGTCAA-GA
*
44385023 CATGGCATTTG-TGAGTTC-ATAAGGCAAGGATACCACGTAAGACCATGTCAAGA
1 CATGGCA-TTGATGAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
44385076 CATGGCA
1 CATGGCA
44385083 ATGGTAAGTT
Statistics
Matches: 101, Mismatches: 8, Indels: 13
0.83 0.07 0.11
Matches are distributed among these distances:
52 5 0.05
53 32 0.32
54 17 0.17
55 39 0.39
56 8 0.08
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
CATGGCATTGATGAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
Found at i:44385068 original size:53 final size:54
Alignment explanation
Indices: 44384895--44385082 Score: 215
Period size: 55 Copynumber: 3.5 Consensus size: 54
44384885 TAAAGATATT
* * * * *
44384895 ATGTAAGAACATCCCAATG-CATGGCATTGATAAGTTCTATAAGGCAAGGAAATC
1 ATGTAAGACCATGCCAA-GACATGGCATTGATGAGTTCTATAAGGCAAGGATACC
* *
44384949 ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCCC
1 ATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGATACC
44385004 ATGTAAGACCATGCCAATG-CATGGCATTTG-TGAGTTC-ATAAGGCAAGGATACC
1 ATGTAAGACCATGCCAA-GACATGGCA-TTGATGAGTTCTATAAGGCAAGGATACC
* *
44385057 ACGTAAGACCATGTCAAGACATGGCA
1 ATGTAAGACCATGCCAAGACATGGCA
44385083 ATGGTAAGTT
Statistics
Matches: 116, Mismatches: 11, Indels: 15
0.82 0.08 0.11
Matches are distributed among these distances:
52 5 0.04
53 33 0.28
54 31 0.27
55 39 0.34
56 8 0.07
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (54 bp):
ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATACC
Found at i:44393496 original size:29 final size:29
Alignment explanation
Indices: 44393463--44393594 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
44393453 GTGACGAGAT
44393463 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
44393492 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
44393521 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
44393550 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44393579 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
44393595 GGCTTAAATT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:44401510 original size:29 final size:29
Alignment explanation
Indices: 44401477--44401608 Score: 174
Period size: 29 Copynumber: 4.6 Consensus size: 29
44401467 GTGACGAGAT
44401477 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
44401506 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44401535 TGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
44401564 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
44401593 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
44401609 GGCTTAAATT
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:44404629 original size:46 final size:46
Alignment explanation
Indices: 44404579--44404753 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
44404569 TGGTTGAGCA
44404579 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
44404625 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT-G
* * *
44404669 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
44404717 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44404754 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 7 0.06
44 1 0.01
45 4 0.04
46 89 0.82
47 2 0.02
48 1 0.01
49 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:44404732 original size:92 final size:92
Alignment explanation
Indices: 44404575--44404746 Score: 292
Period size: 92 Copynumber: 1.9 Consensus size: 92
44404565 AGGATGGTTG
* *
44404575 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAG
44404640 TTGAGTCCGAGTTCGTGAGATGTAACT
66 TTGAGTCCGAGTTCGTGAGATGTAACT
* *
44404667 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG-CCTGAGCTCGTTGA
1 AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCC-GAACTCGTTGA
44404731 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
44404747 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
91 2 0.03
92 73 0.97
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (92 bp):
AGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACT
Found at i:44416178 original size:14 final size:14
Alignment explanation
Indices: 44416159--44416202 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
44416149 CATAACTTAT
44416159 ATTATATACATATA
1 ATTATATACATATA
* *
44416173 ATTATATACATTTT
1 ATTATATACATATA
44416187 ATTATTATAACATATA
1 ATTA-TAT-ACATATA
44416203 TATATATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 16 0.67
15 3 0.12
16 5 0.21
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:44424382 original size:2 final size:2
Alignment explanation
Indices: 44424375--44424406 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
44424365 ACTAGAACAG
44424375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44424407 GTGGCGAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44427729 original size:46 final size:48
Alignment explanation
Indices: 44427672--44427811 Score: 157
Period size: 46 Copynumber: 3.0 Consensus size: 48
44427662 ATGGTTGAGC
*
44427672 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAACAGG
* * *
44427719 -TCTGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCAAC-AGG
*
44427764 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGC-AACA
44427812 CCCGTGCTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
42 2 0.03
43 7 0.09
45 2 0.03
46 27 0.36
47 27 0.36
50 5 0.07
51 5 0.07
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAACAGG
Found at i:44427829 original size:93 final size:93
Alignment explanation
Indices: 44427670--44427840 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
44427660 GGATGGTTGA
*** * *
44427670 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACACCCGAACTCATTGAGT
*
44427735 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGCCCGAGTTCGTGAGATGTAACTAG
* * **
44427763 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGTGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACACCCGAACTCATTGAGT
*
44427828 TGGGCCCGAGTTC
66 TGAGCCCGAGTTC
44427841 ACTTAGGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACACCCGAACTCATTGAGT
TGAGCCCGAGTTCGTGAGATGTAACTAG
Found at i:44428106 original size:19 final size:20
Alignment explanation
Indices: 44428069--44428106 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44428059 ATAAGGTGGT
44428069 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
44428089 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
44428107 TGGTGATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:44431377 original size:40 final size:40
Alignment explanation
Indices: 44431309--44431471 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
44431299 CGGGATTTAA
** *
44431309 CCGGATATAAC-ACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
44431348 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
44431388 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
44431428 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
44431468 CCGG
1 CCGG
44431472 TATCATTCAA
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
39 9 0.09
40 93 0.89
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:44431431 original size:80 final size:79
Alignment explanation
Indices: 44431295--44431471 Score: 205
Period size: 80 Copynumber: 2.2 Consensus size: 79
44431285 GAATCACGTA
* * * **
44431295 CCTTCGGGATTTA-ACCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
* *
44431359 AACTTGCACAATTG
66 AACTAGCACAAATG
* ** *
44431373 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAAC-ACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* *
44431437 ATCACTAGCATAAATG
64 ATAACTAGCACAAATG
44431453 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
44431472 TATCATTCAA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 11 0.13
79 11 0.13
80 58 0.71
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATG
Found at i:44439442 original size:79 final size:79
Alignment explanation
Indices: 44439283--44439458 Score: 196
Period size: 79 Copynumber: 2.2 Consensus size: 79
44439273 GAATCACGTA
* * **
44439283 CCTTCGGGATTTA-ACCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGAATTTGGT
1 CCTTCGGGATTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGAATATAAT
* *
44439347 AACTTGCACAATTG
66 AACTAGCACAAATG
** * *
44439361 CCTTCGGG-TTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGATTTAGCCCGGATATAAC-ACAAGCAC-AATTGCCTTCGGGTCTTAACCCGAATATA
* *
44439424 ATCACTAGCATAAATG
64 ATAACTAGCACAAATG
*
44439440 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGATTTAGCCCGG
44439459 GTATCATTCA
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
77 4 0.05
78 19 0.23
79 47 0.58
80 11 0.14
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CCTTCGGGATTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGAATATAAT
AACTAGCACAAATG
Found at i:44439458 original size:40 final size:39
Alignment explanation
Indices: 44439283--44439458 Score: 151
Period size: 40 Copynumber: 4.5 Consensus size: 39
44439273 GAATCACGTA
* * * *
44439283 CCTTCGGGATTTA-ACCGGATATAACACAAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAACACTAGCACAAATG
* * * * * * *
44439321 CCTTCGGGTCTTAACCCGAATTTGGTA-ACTTGCACAATTG
1 CCTTCGGGACTTAGCCCGGATAT--AACACTAGCACAAATG
* * *
44439361 CCTTCGGG-TTTAGCCCGGATATAACAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAAC-ACTAGCACAAATG
* *
44439400 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAA-CACTAGCACAAATG
44439440 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
44439459 GTATCATTCA
Statistics
Matches: 110, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
37 1 0.01
38 11 0.10
39 34 0.31
40 62 0.56
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACTAGCACAAATG
Found at i:44446163 original size:93 final size:93
Alignment explanation
Indices: 44446004--44446174 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
44445994 GGATGGTTGA
* *
44446004 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
44446069 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCTGAGTTCGTGAGATGTAACTAG
* *
44446097 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
44446162 TGAGTCTGAGTTC
66 TGAGTCTGAGTTC
44446175 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAGATGTAACTAG
Found at i:44446177 original size:46 final size:46
Alignment explanation
Indices: 44446008--44446179 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
44445998 GGTTGAGCAT
* * *
44446008 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * *
44446054 CCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
44446099 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
44446147 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44446180 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 58 0.56
47 27 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:44446440 original size:19 final size:20
Alignment explanation
Indices: 44446403--44446440 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
44446393 ATAAGGTGGT
44446403 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
44446423 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
44446441 TGGTGATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:44451655 original size:40 final size:40
Alignment explanation
Indices: 44451577--44451760 Score: 219
Period size: 40 Copynumber: 4.5 Consensus size: 40
44451567 ACCCAAGTAT
* * *
44451577 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCAGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* * **
44451616 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCAGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
44451656 CTTCAGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCAGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
* *
44451699 CTTCAGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCAGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
*
44451739 CTTTAGGACTTAGCCCGGATAT
1 CTTCAGGACTTAGCCCGGATAT
44451761 CATCGAATAA
Statistics
Matches: 125, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 12 0.10
40 77 0.62
41 1 0.01
43 35 0.28
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCAGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:44451738 original size:83 final size:83
Alignment explanation
Indices: 44451602--44451756 Score: 247
Period size: 83 Copynumber: 1.9 Consensus size: 83
44451592 GGATATAGCA
* * * **
44451602 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGCCTTCAGGACTT
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCAGGACTT
44451667 AGCCCGGGTATAGCAACT
66 AGCCCGGGTATAGCAACT
* *
44451685 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTTAGGACTT
1 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCAGGACTT
44451750 AGCCCGG
66 AGCCCGG
44451757 ATATCATCGA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 65 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (83 bp):
ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCAGGACTT
AGCCCGGGTATAGCAACT
Found at i:44455977 original size:27 final size:27
Alignment explanation
Indices: 44455929--44455980 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
44455919 GCGAGGCTGC
*
44455929 TAGATATTGTGACGAAGTCACCAGATA
1 TAGATATTGTGACGAAGCCACCAGATA
* * *
44455956 TAGATATTGTGGCTAGGCCACCAGA
1 TAGATATTGTGACGAAGCCACCAGA
44455981 ACATATATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (27 bp):
TAGATATTGTGACGAAGCCACCAGATA
Found at i:44463590 original size:37 final size:37
Alignment explanation
Indices: 44463540--44463630 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
44463530 TTATTACGAA
44463540 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
44463577 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
44463614 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
44463631 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:44463800 original size:47 final size:48
Alignment explanation
Indices: 44463670--44463867 Score: 364
Period size: 47 Copynumber: 4.2 Consensus size: 48
44463660 TGTTACAACA
*
44463670 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
44463718 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
44463766 TTCACATTAGCC-TTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
44463813 TTCACATTAG-CATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
44463860 TTCACATT
1 TTCACATT
44463868 CATCACATCG
Statistics
Matches: 147, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
46 1 0.01
47 87 0.59
48 59 0.40
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:44463914 original size:18 final size:18
Alignment explanation
Indices: 44463883--44463918 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44463873 CATCGGCCAT
*
44463883 TAGGCCTTATCACATATA
1 TAGGCCTTACCACATATA
*
44463901 TAGGCTTTACCACATATA
1 TAGGCCTTACCACATATA
44463919 CATATCACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
TAGGCCTTACCACATATA
Found at i:44463999 original size:123 final size:122
Alignment explanation
Indices: 44463781--44464025 Score: 472
Period size: 123 Copynumber: 2.0 Consensus size: 122
44463771 ATTAGCCTTC
44463781 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCATTCGGCTTTACCACATATACA
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCATTCGGCTTTACCACATATACA
44463846 TATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 TATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
44463903 GGCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAG-CATTCGGCTTTACCACATATAC
44463968 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
65 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
44464026 TACACCTTCA
Statistics
Matches: 121, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
122 41 0.34
123 80 0.66
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.33
Consensus pattern (122 bp):
GGCTTTACCACATATACATATCACACATATATTTCACATTAGCATTCGGCTTTACCACATATACA
TATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:44464038 original size:49 final size:49
Alignment explanation
Indices: 44463982--44464270 Score: 483
Period size: 49 Copynumber: 5.9 Consensus size: 49
44463972 CACACATATG
*
44463982 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
44464031 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
44464078 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
44464127 TTTCCCATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
44464176 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACAC
*
44464227 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
44464271 CATCTCATAC
Statistics
Matches: 226, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
47 44 0.19
49 134 0.59
51 48 0.21
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:44464089 original size:96 final size:96
Alignment explanation
Indices: 44463982--44464272 Score: 483
Period size: 96 Copynumber: 3.0 Consensus size: 96
44463972 CACACATATG
* *
44463982 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
44464047 TCGGCCATTAGGCCTTATCACATATATACTC
66 TTGGCCATTAGGCCTTATCACATATATACAC
* *
44464078 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCCCATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
44464143 TTGGCCATTAGGCCTTATCACATATATATACAC
66 TTGGCCATTAGGCCTTATCAC--ATATATACAC
44464176 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACACTTTCACATTCATCA
*
44464241 CATTGGCCATTAGGCCGTATCACATATATACA
64 CATTGGCCATTAGGCCTTATCACATATATACA
44464273 TCTCATACAT
Statistics
Matches: 182, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
96 81 0.45
98 55 0.30
100 46 0.25
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATACAC
Found at i:44464136 original size:145 final size:146
Alignment explanation
Indices: 44463982--44464270 Score: 481
Period size: 145 Copynumber: 2.0 Consensus size: 146
44463972 CACACATATG
44463982 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
* *
44464047 TCGGCCATTAGGCCTTATCAC-ATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTA
66 TCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTAGGCCGTA
*
44464111 TCACATGTATATACAC
131 TCACATATATATACAC
* * *
44464127 TTTCCCATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
44464192 TTGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTAGGCC
66 TCGGCCATTAGGCCTTATCAC--A-ATATATACACTTTCACATTCATCACATTGGCCATTAGGCC
44464257 GTATCACATATATA
128 GTATCACATATATA
44464271 CATCTCATAC
Statistics
Matches: 133, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
145 82 0.62
149 51 0.38
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (146 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATTGGCCATTAGGCCGTA
TCACATATATATACAC
Found at i:44473236 original size:37 final size:37
Alignment explanation
Indices: 44473195--44473273 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
44473185 TTGATGTCGA
* *
44473195 ATTTGTGGTCCCGAGACCACTATTTCGACTAGGCCCT
1 ATTTGTGGTCCCAAAACCACTATTTCGACTAGGCCCT
*
44473232 ATTTGTGGTCCTAAAACCACTATTTCGACTAGGCCCT
1 ATTTGTGGTCCCAAAACCACTATTTCGACTAGGCCCT
44473269 ATTTG
1 ATTTG
44473274 GGATGTTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (37 bp):
ATTTGTGGTCCCAAAACCACTATTTCGACTAGGCCCT
Found at i:44474363 original size:27 final size:27
Alignment explanation
Indices: 44474315--44474367 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
44474305 CATTCTACCA
* *
44474315 TACAGGGGTATTACGGTCATTTTACAC
1 TACAAGGGTATTACAGTCATTTTACAC
* *
44474342 TACAAGGGTATTTCAGTGATTTTACA
1 TACAAGGGTATTACAGTCATTTTACA
44474368 AAACGAGGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (27 bp):
TACAAGGGTATTACAGTCATTTTACAC
Found at i:44478358 original size:28 final size:28
Alignment explanation
Indices: 44478312--44478377 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
44478302 CCATCACAGA
* * * * *
44478312 AACAGTATCAGGTGGGCCTTAGCCCATT
1 AACAGAATCAGATGAGCCTAAGCCCAAT
*
44478340 AACAGAATCAGATGAGCCTAAGCTCAAT
1 AACAGAATCAGATGAGCCTAAGCCCAAT
44478368 -ACAGAATCAG
1 AACAGAATCAG
44478378 TATCAGATGC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 10 0.31
28 22 0.69
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (28 bp):
AACAGAATCAGATGAGCCTAAGCCCAAT
Found at i:44491954 original size:17 final size:17
Alignment explanation
Indices: 44491932--44491964 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44491922 ATCTTACCTC
44491932 ATAAGGGCAAAACAGTT
1 ATAAGGGCAAAACAGTT
44491949 ATAAGGGCAAAACAGT
1 ATAAGGGCAAAACAGT
44491965 CATTTTACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.15
Consensus pattern (17 bp):
ATAAGGGCAAAACAGTT
Found at i:44491987 original size:27 final size:26
Alignment explanation
Indices: 44491949--44492000 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
44491939 CAAAACAGTT
*
44491949 ATAAGGGCAAAACAGTCATTTTACCTC
1 ATAAGAGCAAAACAGT-ATTTTACCTC
44491976 ATAAGAGCAAAACAGTATTTTACCT
1 ATAAGAGCAAAACAGTATTTTACCT
44492001 TATTAGGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.27
Consensus pattern (26 bp):
ATAAGAGCAAAACAGTATTTTACCTC
Found at i:44492013 original size:26 final size:27
Alignment explanation
Indices: 44491947--44492022 Score: 100
Period size: 26 Copynumber: 2.9 Consensus size: 27
44491937 GGCAAAACAG
44491947 TTATAAGGGCAAAACAGTCATTTTACC
1 TTATAAGGGCAAAACAGTCATTTTACC
* *
44491974 TCATAAGAGCAAAACAGT-ATTTTACC
1 TTATAAGGGCAAAACAGTCATTTTACC
* * *
44492000 TTATTAGGGAAAAACATTCATTT
1 TTATAAGGGCAAAACAGTCATTT
44492023 ATAAAACTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
27 20 0.49
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (27 bp):
TTATAAGGGCAAAACAGTCATTTTACC
Found at i:44500926 original size:21 final size:21
Alignment explanation
Indices: 44500900--44500940 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
44500890 TGTGTAGTAG
44500900 ATGGGATGAAAAAAATTGTTA
1 ATGGGATGAAAAAAATTGTTA
44500921 ATGGGATGAAAAAAATTGTT
1 ATGGGATGAAAAAAATTGTT
44500941 CCTTCCCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (21 bp):
ATGGGATGAAAAAAATTGTTA
Found at i:44502964 original size:40 final size:40
Alignment explanation
Indices: 44502920--44503060 Score: 212
Period size: 40 Copynumber: 3.5 Consensus size: 40
44502910 CAAGCACAAT
* * * **
44502920 TGCCTTTGGGTCTTAGCCCGGATATAA-CAACTCGCACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAATC-ACTAGCATAAA
*
44502960 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
44503000 TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
44503040 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
44503061 GTATCATTCA
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 94 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
Found at i:44503939 original size:2 final size:2
Alignment explanation
Indices: 44503932--44503957 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44503922 ATGTGCAAAC
44503932 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
44503958 GCTAGAGCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44511159 original size:40 final size:40
Alignment explanation
Indices: 44511115--44511255 Score: 214
Period size: 40 Copynumber: 3.5 Consensus size: 40
44511105 CACAAGCAAC
* **
44511115 TGCCTTCGGGTCTTAGCCCGGATATAA-CAACTCA-CACGAA
1 TGCCTTCGGGACTTAGCCCGGATATAATC-ACT-AGCATAAA
*
44511155 TGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
44511195 TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
44511235 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
44511256 GTATCATTCA
Statistics
Matches: 96, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
39 1 0.01
40 94 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
Found at i:44512137 original size:2 final size:2
Alignment explanation
Indices: 44512130--44512161 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
44512120 ATGTGCAAAC
44512130 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44512162 GCTAGAGCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44518501 original size:79 final size:81
Alignment explanation
Indices: 44518400--44518584 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
44518390 ACGACTCGCT
** * * *
44518400 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCC-TCCGGATCCTAACCC
* *
44518463 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* * **
44518480 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCATGAATGCCTCCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTCCGGATCCTAACCCGG
*
44518544 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
44518560 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44518585 CATCATTTGA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 5 0.06
79 50 0.56
80 34 0.38
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTCCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:44518584 original size:40 final size:39
Alignment explanation
Indices: 44518393--44518584 Score: 145
Period size: 40 Copynumber: 4.8 Consensus size: 39
44518383 GGATATAACG
* ** * *
44518393 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
44518433 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
44518473 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * * * *
44518512 ACTCGCATGAATGCC-TCCGGATCCTAGTCCGGATATAGTC
1 ACTCGCA-CAAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
44518552 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
44518585 CATCATTTGA
Statistics
Matches: 117, Mismatches: 28, Indels: 14
0.74 0.18 0.09
Matches are distributed among these distances:
38 4 0.03
39 26 0.22
40 76 0.65
41 11 0.09
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:44524915 original size:28 final size:27
Alignment explanation
Indices: 44524852--44524921 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
44524842 ATAGTGAGTC
44524852 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
44524879 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
44524907 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44524922 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:44532896 original size:28 final size:27
Alignment explanation
Indices: 44532833--44532902 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
44532823 ATAGTGAGTC
44532833 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
44532860 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
44532888 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44532903 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:44540390 original size:22 final size:23
Alignment explanation
Indices: 44540364--44540408 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
44540354 ATGTTTTAAA
* *
44540364 TGATTTAAT-TTTGTATGAATTG
1 TGATTGAATCTTTGGATGAATTG
*
44540386 TGATTGAATCTTTGGATGTATTG
1 TGATTGAATCTTTGGATGAATTG
44540409 GAAAAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.24, C:0.02, G:0.22, T:0.51
Consensus pattern (23 bp):
TGATTGAATCTTTGGATGAATTG
Found at i:44548615 original size:93 final size:93
Alignment explanation
Indices: 44548503--44548674 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44548493 GCCCATAAGT
* *
44548503 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44548568 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
44548596 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44548661 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
44548675 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44548670 original size:46 final size:46
Alignment explanation
Indices: 44548495--44548670 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
44548485 TGTAACCCGC
* * *
44548495 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
44548541 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
44548591 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
44548634 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44548671 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:44551095 original size:30 final size:30
Alignment explanation
Indices: 44551051--44551139 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
44551041 CAAAGATAAC
*
44551051 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
44551080 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
44551110 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
44551140 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:44551099 original size:15 final size:14
Alignment explanation
Indices: 44551051--44551133 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
44551041 CAAAGATAAC
*
44551051 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
44551065 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
44551080 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
44551095 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
44551110 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
44551125 AAGAAACCC
1 AAGAAACCC
44551134 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:44551139 original size:15 final size:15
Alignment explanation
Indices: 44551062--44551139 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
44551052 AGAAAACCGA
44551062 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
44551077 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
44551091 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
44551106 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
44551122 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
44551137 ATA
1 ATA
44551140 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:44554239 original size:93 final size:93
Alignment explanation
Indices: 44554127--44554298 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44554117 GCCCATAAGT
* *
44554127 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44554192 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
44554220 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44554285 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
44554299 CAATATCCAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44554294 original size:46 final size:46
Alignment explanation
Indices: 44554119--44554294 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
44554109 TGTAACCCGC
* * *
44554119 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
44554165 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
44554215 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
44554258 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44554295 TGCCCAATAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:44556718 original size:30 final size:30
Alignment explanation
Indices: 44556674--44556762 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
44556664 CAAAGATAAC
44556674 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
44556703 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
44556733 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
44556763 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:44556722 original size:15 final size:15
Alignment explanation
Indices: 44556674--44556753 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
44556664 CAAAGATAAC
*
44556674 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
44556688 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
44556703 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
44556718 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
44556733 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
44556748 AAGAAA
1 AAGAAA
44556754 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:44556762 original size:15 final size:15
Alignment explanation
Indices: 44556685--44556762 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
44556675 AGAAAACCGA
44556685 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
44556700 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
44556714 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
44556729 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
44556745 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
44556760 ATA
1 ATA
44556763 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:44559822 original size:93 final size:93
Alignment explanation
Indices: 44559710--44559881 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
44559700 GCCCATAAGT
* *
44559710 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44559775 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
44559803 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44559868 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
44559882 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44559877 original size:46 final size:46
Alignment explanation
Indices: 44559702--44559877 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
44559692 TGTAACCCGC
* * *
44559702 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
44559748 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
44559798 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
44559841 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44559878 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:44563152 original size:45 final size:45
Alignment explanation
Indices: 44562998--44563158 Score: 216
Period size: 45 Copynumber: 3.6 Consensus size: 45
44562988 CTAGGAATTT
* *
44562998 AGAAATTCGAACTCGTTGAGTTGGTCCGAGTTCGTGATATATGTG
1 AGAAATCCGAACTCGTTGAGTTGGTCCAAGTTCGTGATATATGTG
* * * *
44563043 AAAAATCCAAACTTGTTGAGTTGGTCCAAGTTAGTGATATATGTG
1 AGAAATCCGAACTCGTTGAGTTGGTCCAAGTTCGTGATATATGTG
44563088 AGAAATCCGAAC-CTGTTGAGTTGGTCCAAGTTCGTGATATATGTG
1 AGAAATCCGAACTC-GTTGAGTTGGTCCAAGTTCGTGATATATGTG
** * *
44563133 AGGCATCCGAGCTCATTGAGTTGGTC
1 AGAAATCCGAACTCGTTGAGTTGGTC
44563159 TGAGTTCATT
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
45 99 0.99
46 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (45 bp):
AGAAATCCGAACTCGTTGAGTTGGTCCAAGTTCGTGATATATGTG
Found at i:44565695 original size:40 final size:39
Alignment explanation
Indices: 44565530--44565713 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
44565520 GAAATTGATG
* * *
44565530 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
44565570 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
44565610 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
44565650 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
44565689 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
44565714 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:44565738 original size:80 final size:81
Alignment explanation
Indices: 44565570--44565758 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
44565560 GCTGGAAATT
* * * *
44565570 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
44565635 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
44565651 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
44565714 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
44565730 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
44565759 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:44570640 original size:31 final size:31
Alignment explanation
Indices: 44570589--44570668 Score: 101
Period size: 31 Copynumber: 2.5 Consensus size: 31
44570579 TCAAACATAT
44570589 ACTGGGCC-ATAGCCCTTTTCATA-TTTCATAAC
1 ACTGGGCCGA-AG-CCTTTTCA-AGTTTCATAAC
**
44570621 ACTGGGCCGAAGCCTTTTCAAGTTTCATATT
1 ACTGGGCCGAAGCCTTTTCAAGTTTCATAAC
44570652 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
44570669 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 1 0.02
31 32 0.73
32 10 0.23
33 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCAAGTTTCATAAC
Found at i:44570987 original size:24 final size:23
Alignment explanation
Indices: 44570883--44571047 Score: 278
Period size: 23 Copynumber: 7.1 Consensus size: 23
44570873 CCTAGCCTCT
*
44570883 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
44570906 TTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
44570928 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
44570951 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
44570974 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
44570998 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
44571022 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
44571045 TTT
1 TTT
44571048 TGCACTTCCT
Statistics
Matches: 137, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
22 21 0.15
23 70 0.51
24 46 0.34
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:44571049 original size:47 final size:46
Alignment explanation
Indices: 44570883--44571047 Score: 278
Period size: 47 Copynumber: 3.6 Consensus size: 46
44570873 CCTAGCCTCT
*
44570883 TTTAATAACTGGGGCAAAAGCCCTTTAATAACT-GGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
44570928 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
* *
44570974 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
44571022 TTTAATAACTGGGGCATAAGCCCTTT
1 TTTAATAACTGGGGCATAAGCCCTTT
44571048 TGCACTTCCT
Statistics
Matches: 113, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
45 32 0.28
46 15 0.13
47 44 0.39
48 22 0.19
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
Found at i:44571122 original size:20 final size:20
Alignment explanation
Indices: 44571094--44571157 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
44571084 GCATTTATGA
*
44571094 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
44571114 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
44571134 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
44571154 ACAT
1 ACAT
44571158 CATGTTTATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:44571129 original size:11 final size:11
Alignment explanation
Indices: 44571099--44571153 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
44571089 TATGAACATC
44571099 TCATGTGCATA
1 TCATGTGCATA
*
44571110 TCA--TACATA
1 TCATGTGCATA
44571119 TCATGTGCATA
1 TCATGTGCATA
* *
44571130 TCA--TACATG
1 TCATGTGCATA
44571139 TCATGTGCATA
1 TCATGTGCATA
44571150 TCAT
1 TCAT
44571154 ACATCATGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:44578749 original size:31 final size:31
Alignment explanation
Indices: 44578698--44578777 Score: 101
Period size: 31 Copynumber: 2.5 Consensus size: 31
44578688 TCAAACATAT
44578698 ACTGGGCC-ATAGCCCTTTTCATA-TTTCATAAC
1 ACTGGGCCGA-AG-CCTTTTCA-AGTTTCATAAC
**
44578730 ACTGGGCCGAAGCCTTTTCAAGTTTCATATT
1 ACTGGGCCGAAGCCTTTTCAAGTTTCATAAC
44578761 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
44578778 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
30 1 0.02
31 32 0.73
32 10 0.23
33 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCAAGTTTCATAAC
Found at i:44579038 original size:23 final size:24
Alignment explanation
Indices: 44578971--44579179 Score: 308
Period size: 24 Copynumber: 9.0 Consensus size: 24
44578961 GCTTTATCAT
*
44578971 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
44578996 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44579020 ATAACTGGGGCA-AAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44579042 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44579065 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
44579088 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
44579112 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
44579136 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44579159 ATAA-T-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
44579180 GCACTTCCTC
Statistics
Matches: 176, Mismatches: 4, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
21 12 0.07
22 20 0.11
23 65 0.37
24 67 0.38
25 12 0.07
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:44579045 original size:46 final size:46
Alignment explanation
Indices: 44578992--44579178 Score: 299
Period size: 46 Copynumber: 4.1 Consensus size: 46
44578982 CCTAGCCTCT
*
44578992 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCA-AAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
44579038 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
*
44579084 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
*
44579131 TTTTGATAACTGGGGCATAAGCCCTTTAATAA-T-GGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
44579176 TTT
1 TTT
44579179 TGCACTTCCT
Statistics
Matches: 134, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
44 3 0.02
45 28 0.21
46 52 0.39
47 29 0.22
48 22 0.16
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
Found at i:44582454 original size:2 final size:2
Alignment explanation
Indices: 44582447--44582473 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44582437 ATTTAACTTT
44582447 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
44582474 TAACATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44597127 original size:46 final size:45
Alignment explanation
Indices: 44597075--44597278 Score: 197
Period size: 46 Copynumber: 4.5 Consensus size: 45
44597065 GTCGATGCCG
* * *
44597075 TGTCCCAGACAGGTCTTACACTGA-CACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCT---CGTAGCCGACGCA
44597121 TGTCCCAGACATGTCTTACACT-AGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCCGACGCA
* *
44597165 TGTCCCAGACATGTCTGACACTG-GCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGAGC-A-CATCTCGTA-GCCGACGCA
* * * *
44597211 TGTCCCAGACATGTCTTACACTG-GCTC-TCATACTGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATC-T-C-GTAGCCGACGCA
44597257 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
44597279 AGCCCTCGTC
Statistics
Matches: 139, Mismatches: 9, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.04
44 33 0.24
45 4 0.03
46 97 0.70
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCCGACGCA
Found at i:44602801 original size:29 final size:29
Alignment explanation
Indices: 44602768--44602841 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
44602758 GTGACGAGAT
44602768 TGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
44602797 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
44602826 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44602842 AGCTCGAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:44602857 original size:29 final size:29
Alignment explanation
Indices: 44602825--44602900 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
44602815 CTGGAAATAT
* *
44602825 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * * *
44602854 ATGGCACTATGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
44602883 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
44602901 AATCGAGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:44602858 original size:58 final size:58
Alignment explanation
Indices: 44602768--44602900 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 58
44602758 GTGACGAGAT
* * * * *
44602768 TGGCACTAAGTGTGCGTGCTGGAAAAATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCT-GAAATCACA
*** * * * *
44602826 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTATGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCTGAAATCACA
44602884 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
44602901 AATCGAGTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
57 4 0.06
58 58 0.94
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:44610532 original size:29 final size:29
Alignment explanation
Indices: 44610499--44610572 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
44610489 GTGACGAGAT
44610499 TGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
44610528 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
44610557 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44610573 AGCTCGAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:44610588 original size:29 final size:29
Alignment explanation
Indices: 44610556--44610631 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
44610546 CTGGAAATAT
* *
44610556 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * * *
44610585 ATGGCACTATGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
44610614 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
44610632 AATCGAGTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:44610589 original size:58 final size:58
Alignment explanation
Indices: 44610499--44610631 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 58
44610489 GTGACGAGAT
* * * * *
44610499 TGGCACTAAGTGTGCGTGCTGGAAAAATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCT-GAAATCACA
*** * * * *
44610557 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTATGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCTGAAATCACA
44610615 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
44610632 AATCGAGTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
57 4 0.06
58 58 0.94
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.24
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAAACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:44625900 original size:26 final size:26
Alignment explanation
Indices: 44625856--44625953 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
44625846 CCTCTTTAAT
*
44625856 AACTAGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
44625881 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
44625907 AACTGGGGCATAAGCCATTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
44625933 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
44625954 GCACTTCCTC
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 9 0.14
26 56 0.86
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:44625938 original size:52 final size:51
Alignment explanation
Indices: 44625856--44625953 Score: 169
Period size: 52 Copynumber: 1.9 Consensus size: 51
44625846 CCTCTTTAAT
*
44625856 AACTAGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCATTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
*
44625907 AACTGGGGCATAAGCCATTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AACTAGGGCA-AAGCCATTTTCAATAAACTGGGGCATAAGCCCTTTT
44625954 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 9 0.20
52 35 0.80
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (51 bp):
AACTAGGGCAAAGCCATTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
Found at i:44626027 original size:20 final size:20
Alignment explanation
Indices: 44626002--44626068 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
44625992 TTATGAATTC
*
44626002 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
44626022 ATCATGTGCATATCATACCT
1 ATCATGTGCATATCATACAT
*
44626042 ATCATGTGCACATCATATCA-
1 ATCATGTGCATATCATA-CAT
44626062 ATCATGT
1 ATCATGT
44626069 ATCAAATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 41 0.98
21 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:44631773 original size:20 final size:21
Alignment explanation
Indices: 44631743--44631784 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
44631733 AACCACCTAA
*
44631743 TTTTCATTTTACGTGATTAAG
1 TTTTCATTTTACGCGATTAAG
*
44631764 TTTT-ATTTTATGCGATTAAG
1 TTTTCATTTTACGCGATTAAG
44631784 T
1 T
44631785 CCTTTTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (21 bp):
TTTTCATTTTACGCGATTAAG
Found at i:44641681 original size:14 final size:14
Alignment explanation
Indices: 44641662--44641707 Score: 74
Period size: 14 Copynumber: 3.1 Consensus size: 14
44641652 ATGCCATGAA
44641662 GTGAGATTATGTAT
1 GTGAGATTATGTAT
44641676 GTGAGATTATGTAT
1 GTGAGATTATGTAT
44641690 GTGAGTGATTATGTAT
1 GTGA--GATTATGTAT
44641706 GT
1 GT
44641708 CGTGTGTGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 18 0.60
16 12 0.40
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.43
Consensus pattern (14 bp):
GTGAGATTATGTAT
Found at i:44644087 original size:29 final size:30
Alignment explanation
Indices: 44644041--44644098 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
44644031 CCTAGTAGCC
* *
44644041 CACATTTTTCAACTTTTCACACATTAAATCA
1 CACATTTTTCAACATTTCACA-AATAAATCA
44644072 CACA-TTTTC-ACATTTCACAAATAAATC
1 CACATTTTTCAACATTTCACAAATAAATC
44644099 CCTATTTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.28
29 9 0.36
30 5 0.20
31 4 0.16
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (30 bp):
CACATTTTTCAACATTTCACAAATAAATCA
Found at i:44654039 original size:40 final size:40
Alignment explanation
Indices: 44653938--44654191 Score: 376
Period size: 40 Copynumber: 6.5 Consensus size: 40
44653928 CGGATGATAA
* *
44653938 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44653977 TCGGGCTAA--CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
44654015 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44654054 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
44654094 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44654134 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
44654174 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44654192 TACTTGGTTT
Statistics
Matches: 201, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
37 24 0.12
38 10 0.05
39 63 0.31
40 104 0.52
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44654172 original size:119 final size:116
Alignment explanation
Indices: 44653937--44654191 Score: 370
Period size: 119 Copynumber: 2.2 Consensus size: 116
44653927 TCGGATGATA
* **
44653937 ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCGGGCTAACCCGAAGGCATTTGTG
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCGGGCTAACCCGAAGGCATTTGTG
* * *
44654002 CGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
66 CGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTAT
*
44654053 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-AACCGGGCTAA--CCCGAAGGCATTT
44654118 GTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTAT
63 GTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTA-CTAT
* *
44654172 ATCC-GGCTAAATTCCGAAGG
1 A-CCGGGCTAAGTCCCGAAGG
44654192 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
116 36 0.29
117 9 0.07
118 2 0.02
119 76 0.61
120 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (116 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCGGGCTAACCCGAAGGCATTTGTG
CGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTAT
Found at i:44654180 original size:79 final size:80
Alignment explanation
Indices: 44653938--44654191 Score: 376
Period size: 79 Copynumber: 3.2 Consensus size: 80
44653928 CGGATGATAA
* * **
44653938 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCGGGCTAA--CCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
44654000 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
44654015 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-ACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
*
44654079 TGCGAGTTACTATAA
66 TGCGAGTTACTATAT
44654094 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* *
44654159 AGCAAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
* *
44654174 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
44654192 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 10, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
77 43 0.27
79 82 0.51
80 37 0.23
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:44662067 original size:40 final size:38
Alignment explanation
Indices: 44662001--44662148 Score: 151
Period size: 40 Copynumber: 3.8 Consensus size: 38
44661991 GAAATGAATG
* * *
44662001 ATATCC-GGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG--ATT
* *
44662040 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTGG-CT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGATT
44662077 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G--ATT
* *
44662117 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
44662149 ACATGCTTAT
Statistics
Matches: 93, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
36 4 0.04
37 29 0.31
39 6 0.06
40 52 0.56
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGATT
Found at i:44662162 original size:40 final size:39
Alignment explanation
Indices: 44662038--44662164 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
44662028 ATGCTGGAAA
* *
44662038 TTATATCCGGGTTAAGACCCGAAGGCAATTGTG-C-TGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCAT-GC
* *
44662076 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCATG-C
*
44662114 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-CATGC
44662155 TTATATCCGG
1 TTATATCCGG
44662165 TTATATTCCG
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
37 30 0.41
38 1 0.01
40 40 0.54
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCCATGC
Found at i:44666665 original size:29 final size:28
Alignment explanation
Indices: 44666633--44666735 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
44666623 GGGACGAGAT
* *
44666633 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
44666662 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
44666691 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
44666720 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44666736 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:44670642 original size:12 final size:13
Alignment explanation
Indices: 44670614--44670644 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
44670604 ATTTTAAACA
44670614 TTTTAAGATATGT
1 TTTTAAGATATGT
*
44670627 TTTTAAGTTATGT
1 TTTTAAGATATGT
44670640 TTTTA
1 TTTTA
44670645 TGAACCATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (13 bp):
TTTTAAGATATGT
Found at i:44673110 original size:49 final size:49
Alignment explanation
Indices: 44673038--44673225 Score: 234
Period size: 49 Copynumber: 3.8 Consensus size: 49
44673028 TGAGGTCACG
*
44673038 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTTGCA
* * * * * *
44673087 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGTGAT-CA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTG-GTTGCA
* * *
44673136 CGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTTGCA
**
44673187 TGTGTAGTACTAAGTGCAGGCTACTACACGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
44673226 GCTTCGGCTA
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 75 0.65
50 3 0.03
51 38 0.33
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTTGCA
Found at i:44673206 original size:100 final size:100
Alignment explanation
Indices: 44673033--44673212 Score: 324
Period size: 100 Copynumber: 1.8 Consensus size: 100
44673023 TATTGTGAGG
* * *
44673033 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
44673098 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
*
44673133 TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
44673198 AAGTGCAGGCTACTA
66 AAGTGCAGGCTACTA
44673213 CACGTACCAG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 76 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
Found at i:44674937 original size:24 final size:24
Alignment explanation
Indices: 44674910--44674955 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
44674900 TTGCTTGATC
44674910 TTATATTCTAAGATTTATCTTTTG
1 TTATATTCTAAGATTTATCTTTTG
44674934 TTATATTCTAAGATTTATCTTT
1 TTATATTCTAAGATTTATCTTT
44674956 CTAATCTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.07, T:0.59
Consensus pattern (24 bp):
TTATATTCTAAGATTTATCTTTTG
Found at i:44680326 original size:25 final size:26
Alignment explanation
Indices: 44680297--44680356 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 26
44680287 TTAATTAATA
44680297 TAAAATATTA-ATAATTCAAT-AAAT
1 TAAAATATTAGATAATTCAATAAAAT
*
44680321 TGAAAA-ATTAGATAATTGAATAAAAT
1 T-AAAATATTAGATAATTCAATAAAAT
44680347 TAAAAT-TTAG
1 TAAAATATTAG
44680357 GAGAAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 5 0.16
25 21 0.68
26 5 0.16
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (26 bp):
TAAAATATTAGATAATTCAATAAAAT
Found at i:44694086 original size:20 final size:20
Alignment explanation
Indices: 44694061--44694098 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
44694051 CACTTTCACA
*
44694061 TTCATCACATTGGCCATTCG
1 TTCATCACATCGGCCATTCG
44694081 TTCATCACATCGGCCATT
1 TTCATCACATCGGCCATT
44694099 AGGCCTTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (20 bp):
TTCATCACATCGGCCATTCG
Found at i:44694135 original size:49 final size:49
Alignment explanation
Indices: 44694081--44694215 Score: 252
Period size: 49 Copynumber: 2.8 Consensus size: 49
44694071 TGGCCATTCG
44694081 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
1 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
*
44694130 TTCATCACATCGGCCATTAGGCCTTACCACATATATACACACTTTCACA
1 TTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
*
44694179 TTCATCACATCGGCCATTAGGCCTTGTCACATATATA
1 TTCATCACATCGGCCATTAGGCCTTATCACATATATA
44694216 TATCTCATAC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 83 1.00
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (49 bp):
TTCATCACATCGGCCATTAGGCCTTATCACATATATACACACTTTCACA
Found at i:44698098 original size:40 final size:40
Alignment explanation
Indices: 44698049--44698318 Score: 418
Period size: 40 Copynumber: 6.8 Consensus size: 40
44698039 CCAGCATGAT
* * *
44698049 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
44698089 TGCTCTTCGGGACTTAGTCCGGTTGCATTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
44698129 TGCTCTTCGGAACTTAGTCCGGATACATTACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
44698169 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
44698209 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
44698249 TGCTCTTC-GAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * *
44698288 TGCTCTT-GGGATTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
44698319 CTCAATTCTC
Statistics
Matches: 216, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 57 0.26
40 159 0.74
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:44700510 original size:25 final size:25
Alignment explanation
Indices: 44700482--44700560 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
44700472 ACTCGGCCCT
*
44700482 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
44700507 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
44700529 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
44700554 ATCACAT
1 ATCACAT
44700561 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:44700606 original size:49 final size:49
Alignment explanation
Indices: 44700432--44700685 Score: 376
Period size: 47 Copynumber: 5.3 Consensus size: 49
44700422 CCCTTCGGGA
* * * * * * *
44700432 CTTATCACAT-T-TATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44700479 CCTATCACATATAT--ACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
44700526 CTTATCACATATATACAC-C-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
44700573 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
44700622 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
44700671 CTTATCACATATATA
1 CTTATCACATATATA
44700686 TATCTCATAC
Statistics
Matches: 193, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
47 95 0.49
48 3 0.02
49 95 0.49
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44714472 original size:41 final size:41
Alignment explanation
Indices: 44714414--44714640 Score: 323
Period size: 41 Copynumber: 5.5 Consensus size: 41
44714404 TCAGTGATAT
* *
44714414 TCAGGCTTTATTTCCTAGCAGGCTTTGTGCCGGTGTATTAAA
1 TCAGGC-TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATA
* *
44714456 TCAGGCTTATTGCCTAGCAGGCTTTGTGCCAGTGTATTAAA
1 TCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATA
*
44714497 TCAAGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATA
1 TCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATA
*
44714538 TCAGGCTTATTGCCTAGCAGGCTTTATATGCCGGTGTATTATA
1 TCAGGCTTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTATA
* *
44714581 TCAGGCTTATTGCCTAGCAGCCTCTGTGCCGGTGTATTATA
1 TCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATA
44714622 -CTAGGCTT-TATGCCTAGCA
1 TC-AGGCTTAT-TGCCTAGCA
44714641 AATTTTATGT
Statistics
Matches: 171, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
40 2 0.01
41 123 0.72
42 9 0.05
43 37 0.22
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (41 bp):
TCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATA
Found at i:44714617 original size:84 final size:82
Alignment explanation
Indices: 44714414--44714640 Score: 323
Period size: 84 Copynumber: 2.7 Consensus size: 82
44714404 TCAGTGATAT
* *
44714414 TCAGGCTTTATTTCCTAGCAGGCTTTGTGCCGGTGTATTAAATCAGGCTTATTGCCTAGCAGGCT
1 TCAGGC-TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCT
*
44714479 TTGTGCCAGTGTATTAAA
65 TTATGCCAGTGTATTAAA
*
44714497 TCAAGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTT
1 TCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGC-T
* *
44714562 TATATGCCGGTGTATTATA
65 T-TATGCCAGTGTATTAAA
* *
44714581 TCAGGCTTATTGCCTAGCAGCCTCTGTGCCGGTGTATTATA-CTAGGCTT-TATGCCTAGCA
1 TCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATC-AGGCTTAT-TGCCTAGCA
44714641 AATTTTATGT
Statistics
Matches: 131, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
82 55 0.42
83 9 0.07
84 67 0.51
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (82 bp):
TCAGGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTT
TATGCCAGTGTATTAAA
Found at i:44716104 original size:2 final size:2
Alignment explanation
Indices: 44716097--44716122 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
44716087 CATGAGATGA
44716097 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
44716123 GAATTGGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44718101 original size:31 final size:31
Alignment explanation
Indices: 44718063--44718141 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
44718053 TTTAACGGTT
*
44718063 ACTGGGCCGAAGCCTTTTCATAAATTATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
44718094 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
44718125 ATTGGGCCAAAGCCTTT
1 ACTGGGCCGAAGCCTTT
44718142 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:44718212 original size:42 final size:42
Alignment explanation
Indices: 44718165--44718256 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
44718155 TGGCCCTTAG
* ** *
44718165 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
44718207 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
44718249 GCCCATTT
1 GCCCATTT
44718257 GGGTAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:44718471 original size:26 final size:26
Alignment explanation
Indices: 44718401--44718549 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
44718391 CCTCTTTAAT
* **
44718401 AACTAGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
44718426 AACTGGGGTA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* *
44718451 AACCGGGGCATAAGCTCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
44718477 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
44718503 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
44718529 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
44718550 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 29 0.26
26 81 0.74
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:44719499 original size:27 final size:27
Alignment explanation
Indices: 44719446--44719804 Score: 262
Period size: 27 Copynumber: 13.3 Consensus size: 27
44719436 TTTCATCCTA
* * * *
44719446 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
** ** *
44719473 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
44719500 CAATGGTATTTCT-ATAAGTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-T
**
44719529 CAAGGGTATTTT-GTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * **
44719555 TAGGGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * *
44719582 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
44719608 CTAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
*
44719635 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTGGTAATTTTACAAAT
** *
44719663 TGAGGGTATTTCGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
44719689 CTAGGGGTATTTTAGCAATTTTACAGA-
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* **
44719716 CTAGGGTATTTTGGTAATTTTACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
44719743 CAAGGGTATTTTGGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
44719770 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
44719797 CGAGGGTA
1 CAAGGGTA
44719805 AAACAGTAAT
Statistics
Matches: 266, Mismatches: 57, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
26 32 0.12
27 212 0.80
28 12 0.05
29 10 0.04
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:44719655 original size:81 final size:80
Alignment explanation
Indices: 44719531--44719790 Score: 335
Period size: 81 Copynumber: 3.2 Consensus size: 80
44719521 TAGAAAGTCA
** * **
44719531 AGGGTATTTT-GTAATTTTGTAAATTAGGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCG
1 AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCG
*
44719595 GTAATTTCACAAACT
66 GTAATTTTACAAACT
*
44719610 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC
1 AG-GGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC
44719675 GGTAATTTTACAAACT
65 GGTAATTTTACAAACT
* * ** ** *
44719691 AGGGGTATTTTAGCAATTTTACAGACTA-GGGTATTTTGGTAATTTTACTGATCAAGGGTATTTT
1 A-GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTC
* *
44719755 GGTAATTTTGCAAACCA
65 GGTAATTTTACAAA-CT
44719772 AGGGTATTTTAGTAATTTT
1 AGGGTATTTTAGTAATTTT
44719791 GTAAATCGAG
Statistics
Matches: 160, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
79 2 0.01
80 69 0.43
81 88 0.55
82 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (80 bp):
AGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCG
GTAATTTTACAAACT
Found at i:44719812 original size:27 final size:27
Alignment explanation
Indices: 44719782--44719912 Score: 183
Period size: 27 Copynumber: 4.9 Consensus size: 27
44719772 AGGGTATTTT
* *
44719782 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
**
44719809 AGTAATTCTATAAATAAAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
44719836 AGTAATTCTATAAATCGAGGGTAAAA-
1 AGTAATTCTATAAATCGAGGGTAAAAC
* *
44719862 TGATAATTCTATAAATCGAGGGTAAAAT
1 AG-TAATTCTATAAATCGAGGGTAAAAC
*
44719890 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
44719913 TTTTGGTAAT
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
26 1 0.01
27 92 0.98
28 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.29
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:44719919 original size:27 final size:27
Alignment explanation
Indices: 44719837--44719929 Score: 69
Period size: 27 Copynumber: 3.4 Consensus size: 27
44719827 GGGTAAAACA
* * ***
44719837 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTACAAATCGAGGGTATTTTG
* * * ***
44719864 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTACAAATCGAGGGTATTTTG
* *
44719891 GTAATTCTATAAATCGAGGGTATTTTG
1 GTAATTTTACAAATCGAGGGTATTTTG
44719918 GTAATTTTACAA
1 GTAATTTTACAA
44719930 TTTAAGGGCA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTTG
Found at i:44728202 original size:68 final size:70
Alignment explanation
Indices: 44728130--44728327 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
44728120 ACACCCTGTA
* * * *
44728130 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
44728192 ATAAAT
65 ATAAAT
*
44728198 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
44728263 ATAAAT
65 ATAAAT
*
44728269 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
44728328 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:44728241 original size:41 final size:41
Alignment explanation
Indices: 44728196--44728313 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
44728186 TGAAAGATAA
44728196 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
44728237 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44728267 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44728308 ATGTAG
1 ATGTAG
44728314 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:44728253 original size:71 final size:71
Alignment explanation
Indices: 44728164--44728327 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
44728154 GAGATGTATC
44728164 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44728229 AGGACA
66 AGGACA
44728235 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44728300 AGGACA
66 AGGACA
44728306 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
44728328 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:44735747 original size:68 final size:70
Alignment explanation
Indices: 44735675--44735872 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
44735665 ACACCCTGTA
* * * *
44735675 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
44735737 ATAAAT
65 ATAAAT
*
44735743 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
44735808 ATAAAT
65 ATAAAT
*
44735814 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
44735873 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:44735786 original size:41 final size:41
Alignment explanation
Indices: 44735741--44735858 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
44735731 TGAAAGATAA
44735741 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
44735782 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44735812 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
44735853 ATGTAG
1 ATGTAG
44735859 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:44735798 original size:71 final size:71
Alignment explanation
Indices: 44735709--44735872 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
44735699 GAGATGTATC
44735709 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44735774 AGGACA
66 AGGACA
44735780 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
44735845 AGGACA
66 AGGACA
44735851 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
44735873 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:44738568 original size:50 final size:50
Alignment explanation
Indices: 44738454--44738680 Score: 235
Period size: 50 Copynumber: 4.5 Consensus size: 50
44738444 GATATGCATC
* * * * *
44738454 GTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
*
44738503 GTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
* * * * *
44738553 GTAGCCTGCACTTAGTACTACACACGTGATCAAAGTCAT-TGAGTACGCATA
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGA-TACACGTA
* * * * * * *
44738604 ATAGCCTGCACTTAGTACTACACATGCGACTTAA-TAGTATGGTACACGTA
1 GTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TCTGATACACGTA
*
44738654 GTAGCCTACACTTAGTACTACACACGT
1 GTAGCCTGCACTTAGTACTACACACGT
44738681 ATATTCACAA
Statistics
Matches: 147, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
49 30 0.20
50 78 0.53
51 39 0.27
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
GTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
Found at i:44744893 original size:30 final size:29
Alignment explanation
Indices: 44744799--44744900 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
44744789 TATAGTGAAT
* * *
44744799 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
44744828 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
44744856 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
44744886 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
44744901 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:44747107 original size:27 final size:28
Alignment explanation
Indices: 44747063--44747160 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
44747053 ATAGTGAGTC
44747063 CGCACAC-TAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
44747089 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
44747117 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
44747147 CGCACACTTAGTGC
1 CGCACACTTAGTGC
44747161 CATTCTCATG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 7 0.11
27 14 0.23
28 22 0.35
30 19 0.31
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:44755038 original size:27 final size:28
Alignment explanation
Indices: 44754994--44755062 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
44754984 ATAGTGAGTC
44754994 CGCACAC-TAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
44755020 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
44755048 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44755063 GTACAAATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.17
27 14 0.35
28 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Done.