Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 143 of 349
Found at i:45742897 original size:18 final size:18
Alignment explanation
Indices: 45742859--45742898 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45742849 ACTTTATATT
* **
45742859 AATATTTTAATAAATTTA
1 AATATTTTAAAAAATAAA
45742877 AATATTTTAAAAAATAAA
1 AATATTTTAAAAAATAAA
45742895 AATA
1 AATA
45742899 AAATTTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATTTTAAAAAATAAA
Found at i:45743657 original size:14 final size:15
Alignment explanation
Indices: 45743629--45743664 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
45743619 TATAACTTTG
45743629 ATTAA-AATAATAAA
1 ATTAATAATAATAAA
45743643 ATTAATAATAA-AAA
1 ATTAATAATAATAAA
45743657 ATT-ATAAT
1 ATTAATAAT
45743665 TCTTTTTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 11 0.52
15 5 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATTAATAATAATAAA
Found at i:45747756 original size:22 final size:22
Alignment explanation
Indices: 45747731--45747772 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
45747721 GTCCTCTCAC
*
45747731 AATTCTCTCTAAGTTCTCTCCA
1 AATTCTCTCAAAGTTCTCTCCA
*
45747753 AATTCTCTCAAATTTCTCTC
1 AATTCTCTCAAAGTTCTCTC
45747773 AATTTTTGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTCTCTCAAAGTTCTCTCCA
Found at i:45747759 original size:9 final size:10
Alignment explanation
Indices: 45747724--45747774 Score: 57
Period size: 11 Copynumber: 4.7 Consensus size: 10
45747714 CACAATAGTC
45747724 CTCTCACAATT
1 CTCTCA-AATT
*
45747735 CTCTCTAAGTT
1 CTCTC-AAATT
45747746 CTCTCCAAATT
1 CTCT-CAAATT
45747757 CTCTCAAATTT
1 CTCTCAAA-TT
45747768 CTCTCAA
1 CTCTCAA
45747775 TTTTTGTCAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 4 0.11
11 29 0.83
12 2 0.06
ACGTcount: A:0.25, C:0.33, G:0.02, T:0.39
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:45753430 original size:126 final size:127
Alignment explanation
Indices: 45753204--45753463 Score: 364
Period size: 126 Copynumber: 2.1 Consensus size: 127
45753194 GTAACTATTG
* * *
45753204 TAGCAAAAGAACGTCCACGTGAGAGCTTTTTTTTTGTAAATTTGCTGATAGTGCATCCTGCTTGA
1 TAGCAAAAGAACGTCCACGTGAGAGCTTTTTTTTCGTAAATTTGCTGACAGTACATCCTGCTTGA
* * *
45753269 AGCATTTTGGACACTGTTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTC-AGATACTACTA
66 AGCATTTTGGACAATGTTTATTCAGAAACGTCTTCTCAAAATTATTTTCTCTA-ATACTACTA
* * * *
45753331 TAGCAAAAGAGCGTCCACGTGGGAGC-TTTTTTTCGTAATTTTGCTTACAGTACATCCTGCTTGA
1 TAGCAAAAGAACGTCCACGTGAGAGCTTTTTTTTCGTAAATTTGCTGACAGTACATCCTGCTTGA
* * *
45753395 AGTATTTTTGACAATAG-TTATTCAGAAACGTCTTCTCAAAATTATTTTCTCTAATACTACTG
66 AGCATTTTGGACAAT-GTTTATTCAGAAACGTCTTCTCAAAATTATTTTCTCTAATACTACTA
45753457 TAGCAAA
1 TAGCAAA
45753464 TAAAAAATAA
Statistics
Matches: 118, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
126 92 0.78
127 26 0.22
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (127 bp):
TAGCAAAAGAACGTCCACGTGAGAGCTTTTTTTTCGTAAATTTGCTGACAGTACATCCTGCTTGA
AGCATTTTGGACAATGTTTATTCAGAAACGTCTTCTCAAAATTATTTTCTCTAATACTACTA
Found at i:45753635 original size:66 final size:64
Alignment explanation
Indices: 45753521--45753649 Score: 195
Period size: 66 Copynumber: 2.0 Consensus size: 64
45753511 TAATAACCTT
*
45753521 AAAACCTAAACCCTAATTTAATTGATTCTTTTAAATTAATAGTTAATTTAATTAATAAACCCTA
1 AAAACCTAAACCCTAATTTAATTAATTCTTTTAAATTAATAGTTAATTTAATTAATAAACCCTA
* * * *
45753585 AAAACCTTAAAGCTTAATTTAATTAATTTTTTTAAAATTAATAGTTAATTTAATTAATTAACCCT
1 AAAACC-TAAACCCTAATTTAATTAATTCTTTT-AAATTAATAGTTAATTTAATTAATAAACCCT
45753650 CAACCTTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 6 0.10
65 22 0.38
66 30 0.52
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.42
Consensus pattern (64 bp):
AAAACCTAAACCCTAATTTAATTAATTCTTTTAAATTAATAGTTAATTTAATTAATAAACCCTA
Found at i:45753763 original size:18 final size:19
Alignment explanation
Indices: 45753725--45753766 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
45753715 CCTAAACCTT
*
45753725 AACCCTAAACCAATCAAAA
1 AACCCTAAACCAATAAAAA
*
45753744 AACCCTAAACC-CTAAAAA
1 AACCCTAAACCAATAAAAA
45753762 AACCC
1 AACCC
45753767 CATGTCAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.55, C:0.36, G:0.00, T:0.10
Consensus pattern (19 bp):
AACCCTAAACCAATAAAAA
Found at i:45754092 original size:179 final size:180
Alignment explanation
Indices: 45753792--45754152 Score: 679
Period size: 179 Copynumber: 2.0 Consensus size: 180
45753782 CGCACCCTCA
45753792 AGGAAGCGCTTTGTGCCAACATGGACAAAACGCTCCCCCAGGGATGCGTTTTGCTGACACGTCCA
1 AGGAAGCGCTTTGTGCCAACATGGACAAAACGCTCCCCCAGGGATGCGTTTTGCTGACACGTCCA
45753857 CTGACTTCGCGCTGACGTGGACGTGCTTTCGGGAAAAATGACCATTTCCGGTAAATAATCAAAAT
66 CTGACTTCGCGCTGACGTGGACGTGCTTTCGGGAAAAATGACCATTTCCGGTAAATAATCAAAAT
45753922 ATCGGTTCATTTCGACAAATAATATTATAAAAGGGC-TTTTTTGTAAATT
131 ATCGGTTCATTTCGACAAATAATATTATAAAAGGGCTTTTTTTGTAAATT
** *
45753971 AGGAAGCGCTTTGTGCTGACGTGGACAAAACGCTCCCCCAGGGATGCGTTTTGCTGACACGTCCA
1 AGGAAGCGCTTTGTGCCAACATGGACAAAACGCTCCCCCAGGGATGCGTTTTGCTGACACGTCCA
*
45754036 CTGACTTCGCGTTGACGTGGACGTGCTTTCGGGAAAAATGACCATTTCCGGTAAATAATCAAAAT
66 CTGACTTCGCGCTGACGTGGACGTGCTTTCGGGAAAAATGACCATTTCCGGTAAATAATCAAAAT
45754101 ATCGGTTCATTTCGACAAATAATATTATAAAAGGGCTTTTTTTGTAAATT
131 ATCGGTTCATTTCGACAAATAATATTATAAAAGGGCTTTTTTTGTAAATT
45754151 AG
1 AG
45754153 CCAAAAATAT
Statistics
Matches: 177, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
179 162 0.92
180 15 0.08
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (180 bp):
AGGAAGCGCTTTGTGCCAACATGGACAAAACGCTCCCCCAGGGATGCGTTTTGCTGACACGTCCA
CTGACTTCGCGCTGACGTGGACGTGCTTTCGGGAAAAATGACCATTTCCGGTAAATAATCAAAAT
ATCGGTTCATTTCGACAAATAATATTATAAAAGGGCTTTTTTTGTAAATT
Found at i:45755329 original size:22 final size:21
Alignment explanation
Indices: 45755297--45755350 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
45755287 TAATAACAAC
* * * *
45755297 AAAATACAACAATATAATAAT
1 AAAATAAAACAAAAAAATAAA
45755318 AAAATAATAACAAAAAAATAAA
1 AAAATAA-AACAAAAAAATAAA
45755340 AAAATAAAACA
1 AAAATAAAACA
45755351 GTAACAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 10 0.36
22 18 0.64
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAATAAAACAAAAAAATAAA
Found at i:45757067 original size:21 final size:22
Alignment explanation
Indices: 45757027--45757073 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
45757017 TTCAGTTCAA
45757027 TTATGTTCATTAACAAGCTCGT
1 TTATGTTCATTAACAAGCTCGT
* * *
45757049 TTATGTTCGTTTA-AAGCTCTT
1 TTATGTTCATTAACAAGCTCGT
45757070 TTAT
1 TTAT
45757074 TGTTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (22 bp):
TTATGTTCATTAACAAGCTCGT
Found at i:45762577 original size:2 final size:2
Alignment explanation
Indices: 45762570--45762596 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45762560 TTTTTGGTTA
45762570 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
45762597 AAAGAAGCTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45763085 original size:62 final size:62
Alignment explanation
Indices: 45763010--45763134 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
45763000 CCTTATGTTG
* *
45763010 CAATGTCTTTTGATCTGTTAAGTCTAAGTTTACTTAGGCACTTGAGTTTTTGCCTTTGATAT
1 CAATGTCTTTTGATCTATTAAGTCCAAGTTTACTTAGGCACTTGAGTTTTTGCCTTTGATAT
*
45763072 CAATGTCTTTTGATCTATTAAGTCCAAGTTTACTTAGGCACTTGAGTTTTTTCCTTTGATAT
1 CAATGTCTTTTGATCTATTAAGTCCAAGTTTACTTAGGCACTTGAGTTTTTGCCTTTGATAT
45763134 C
1 C
45763135 CACCTAGTAC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.46
Consensus pattern (62 bp):
CAATGTCTTTTGATCTATTAAGTCCAAGTTTACTTAGGCACTTGAGTTTTTGCCTTTGATAT
Found at i:45763959 original size:13 final size:13
Alignment explanation
Indices: 45763941--45763967 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45763931 AAAGATTGGT
45763941 GGCCATTTGCATA
1 GGCCATTTGCATA
45763954 GGCCATTTGCATA
1 GGCCATTTGCATA
45763967 G
1 G
45763968 TTTACCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (13 bp):
GGCCATTTGCATA
Found at i:45768430 original size:62 final size:62
Alignment explanation
Indices: 45768306--45768576 Score: 246
Period size: 62 Copynumber: 4.4 Consensus size: 62
45768296 GGCCAAGGAT
** * * * *
45768306 ACGGGCGTGTGCCCAGGCCGTG-AACTCACTATTTGGGGTGTATG-AACCACACAGCCAAGGAC
1 ACGGGCGTGTGCCCAGGCCGTGTAACTCACTA-TT-CAGTGTATGAAATCATACAGGCAGGGAC
**
45768368 ACGGGCGTGTGCTTAGGCCGTGTAACTCACTATTCAGTGTATGAAATCATACAGGCAGGGAC
1 ACGGGCGTGTGCCCAGGCCGTGTAACTCACTATTCAGTGTATGAAATCATACAGGCAGGGAC
* * * ** * *
45768430 ACGAGTGCGTGCCCAGGTTGTGTAACTCACTATTCATTATATGAAATCATAC-GGCCAGGGAC
1 ACGGGCGTGTGCCCAGGCCGTGTAACTCACTATTCAGTGTATGAAATCATACAGG-CAGGGAC
* * * * * *
45768492 ACGGGTGTGTGCCCAGGCTGTGTAACTCACTGTTCA-TGGTATAAAACCACAC-GGCCAGGGAC
1 ACGGGCGTGTGCCCAGGCCGTGTAACTCACTATTCAGT-GTATGAAATCATACAGG-CAGGGAC
* * *
45768554 ATGGACGTGTGCCCAGGCTGTGT
1 ACGGGCGTGTGCCCAGGCCGTGT
45768577 GATGCACTGT
Statistics
Matches: 177, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
61 10 0.06
62 158 0.89
63 9 0.05
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (62 bp):
ACGGGCGTGTGCCCAGGCCGTGTAACTCACTATTCAGTGTATGAAATCATACAGGCAGGGAC
Found at i:45774353 original size:18 final size:18
Alignment explanation
Indices: 45774306--45774370 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
45774296 AATAAATTAT
**
45774306 TAATAAATTTTATTAT-TT
1 TAATAAATTTTATT-TCAA
*
45774324 TAATAAA-ATTATTT-AA
1 TAATAAATTTTATTTCAA
*
45774340 TATTATAATTTTATTTCAA
1 TAATA-AATTTTATTTCAA
45774359 TAATAAATTTTA
1 TAATAAATTTTA
45774371 ACATTAACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 5 0.13
17 7 0.18
18 20 0.53
19 6 0.16
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATAAATTTTATTTCAA
Found at i:45774524 original size:23 final size:23
Alignment explanation
Indices: 45774481--45774527 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
45774471 TTTAGTAATA
*
45774481 AATATTTTATAGAATAAAATATG
1 AATATTTTATAAAATAAAATATG
*
45774504 AATATTTTATTAAAAT-GAATATG
1 AATATTTTA-TAAAATAAAATATG
45774527 A
1 A
45774528 GTTTTTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (23 bp):
AATATTTTATAAAATAAAATATG
Found at i:45782356 original size:87 final size:86
Alignment explanation
Indices: 45782226--45782389 Score: 204
Period size: 87 Copynumber: 1.9 Consensus size: 86
45782216 TACATGCATA
* * *
45782226 AGGTTGAGTTCTCACTCTTAATGAATTCATGTCCCAAGATTTGGATGGTCCTATTGAGACGGACT
1 AGGTTGAGTTATCACTCTTAATGAATTCATATCCCAAGATTTGGATGATCCTATTGAGACGGACT
45782291 TGATGAATTCACTGACATGTG
66 TGATGAATTCACTGACATGTG
* * * * * * *
45782312 AGGTTGAGTTTATTACTTTTAATGAGTTCATATTCC-AGAGTTTGGGTGATCCTATTGAGATGGG
1 AGGTTGAG-TTATCACTCTTAATGAATTCATATCCCAAGA-TTTGGATGATCCTATTGAGACGGA
*
45782376 TTTGATGAATTCAC
64 CTTGATGAATTCAC
45782390 CGAACTTAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
86 11 0.17
87 54 0.83
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (86 bp):
AGGTTGAGTTATCACTCTTAATGAATTCATATCCCAAGATTTGGATGATCCTATTGAGACGGACT
TGATGAATTCACTGACATGTG
Found at i:45783401 original size:55 final size:57
Alignment explanation
Indices: 45783294--45783411 Score: 132
Period size: 55 Copynumber: 2.1 Consensus size: 57
45783284 AAGTATTGTG
* * *** *
45783294 TTAAACTTGGGGGGACAACATCCACTACACGATTATATTAATTAAGGTAAATTTGCT
1 TTAAACTTGGGGGGACAACATCCACTACACGATTACATTAATCAAAACAAATTTACT
* * *
45783351 TTAAACTT-GGGGG-CAACTTTCACTACACGATTACATTGATCAAAACAAATTTACT
1 TTAAACTTGGGGGGACAACATCCACTACACGATTACATTAATCAAAACAAATTTACT
45783406 TCTAAA
1 T-TAAA
45783412 GTAGTGGTTC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
55 34 0.67
56 9 0.18
57 8 0.16
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.31
Consensus pattern (57 bp):
TTAAACTTGGGGGGACAACATCCACTACACGATTACATTAATCAAAACAAATTTACT
Found at i:45793177 original size:25 final size:24
Alignment explanation
Indices: 45793133--45793270 Score: 82
Period size: 24 Copynumber: 5.6 Consensus size: 24
45793123 TACAGGCTTC
*
45793133 CCAGATGACTCGCCAC-AAGGTTTT
1 CCAGATGACTTGCCACAAAGG-TTT
*
45793157 CCAGATGACTTGCCACAAAGGCTT
1 CCAGATGACTTGCCACAAAGGTTT
* * * *
45793181 CTAAATGTCTTACCACAAAGGCTTT
1 CCAGATGACTTGCCACAAAGG-TTT
* * * * *
45793206 CCAAATGTCTTTCCATAAAGGCTT
1 CCAGATGACTTGCCACAAAGGTTT
** *
45793230 CCTA-AAAAATTCGCCACAAAGGCTTT
1 CC-AGATGACTT-GCCACAAAGG-TTT
*
45793256 CCAGATGTCTTGCCA
1 CCAGATGACTTGCCA
45793271 TGAAGGCTTC
Statistics
Matches: 86, Mismatches: 22, Indels: 11
0.72 0.18 0.09
Matches are distributed among these distances:
24 41 0.48
25 38 0.44
26 7 0.08
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (24 bp):
CCAGATGACTTGCCACAAAGGTTT
Found at i:45793252 original size:50 final size:50
Alignment explanation
Indices: 45793192--45793305 Score: 174
Period size: 50 Copynumber: 2.3 Consensus size: 50
45793182 TAAATGTCTT
* *
45793192 ACCACAAAGGCTTTCCAAATGTCTTTCCATAAAGGCTTCCTAAAAAATTC
1 ACCACAAAGGCTTTCCAAATGTCTTGCCATAAAGGCTTCCCAAAAAATTC
* * * *
45793242 GCCACAAAGGCTTTCCAGATGTCTTGCCATGAAGGCTTCCCAAACAATTC
1 ACCACAAAGGCTTTCCAAATGTCTTGCCATAAAGGCTTCCCAAAAAATTC
45793292 ACCACAAAGGCTTT
1 ACCACAAAGGCTTT
45793306 GTTTGGTTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.25
Consensus pattern (50 bp):
ACCACAAAGGCTTTCCAAATGTCTTGCCATAAAGGCTTCCCAAAAAATTC
Found at i:45793276 original size:25 final size:25
Alignment explanation
Indices: 45793126--45793285 Score: 112
Period size: 25 Copynumber: 6.5 Consensus size: 25
45793116 TTTAACTTAC
* * * *
45793126 AGGCTTCCCAGATGACTCGCCAC-A
1 AGGCTTTCCAAATGTCTTGCCACAA
* * *
45793150 AGGTTTTCCAGATGACTTGCCACAA
1 AGGCTTTCCAAATGTCTTGCCACAA
* *
45793175 AGGC-TTCTAAATGTCTTACCACAA
1 AGGCTTTCCAAATGTCTTGCCACAA
* *
45793199 AGGCTTTCCAAATGTCTTTCCATAA
1 AGGCTTTCCAAATGTCTTGCCACAA
** *
45793224 AGGC-TTCCTAAAAAAT-TCGCCACAA
1 AGGCTTTCC--AAATGTCTTGCCACAA
* **
45793249 AGGCTTTCCAGATGTCTTGCCATGA
1 AGGCTTTCCAAATGTCTTGCCACAA
*
45793274 AGGCTTCCCAAA
1 AGGCTTTCCAAA
45793286 CAATTCACCA
Statistics
Matches: 106, Mismatches: 24, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
24 47 0.44
25 51 0.48
26 8 0.08
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (25 bp):
AGGCTTTCCAAATGTCTTGCCACAA
Found at i:45793751 original size:33 final size:33
Alignment explanation
Indices: 45793714--45793777 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
45793704 CATAATGGAT
*
45793714 GCATTTACACAGATTTCACTCATACTCTTAAAC
1 GCATTTACACAGATTTCACTCATAATCTTAAAC
45793747 GCATTTACACAGATTTCACTCATAATCTTAA
1 GCATTTACACAGATTTCACTCATAATCTTAA
45793778 CAGACTCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (33 bp):
GCATTTACACAGATTTCACTCATAATCTTAAAC
Found at i:45794740 original size:16 final size:16
Alignment explanation
Indices: 45794719--45794749 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45794709 AAAACTATGG
45794719 GGCGTACTCTTTCTTA
1 GGCGTACTCTTTCTTA
45794735 GGCGTACTCTTTCTT
1 GGCGTACTCTTTCTT
45794750 CACTTGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.26, G:0.19, T:0.45
Consensus pattern (16 bp):
GGCGTACTCTTTCTTA
Found at i:45800460 original size:37 final size:37
Alignment explanation
Indices: 45800413--45800484 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
45800403 CTAACTCCAT
*
45800413 CACCCTACTAAACTATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
45800450 CACCCTACTAAACCATCCACTACCTCCATCACCCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCCC
45800485 TACTAACTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.29, C:0.53, G:0.00, T:0.18
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:45800504 original size:17 final size:18
Alignment explanation
Indices: 45800468--45800505 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
45800458 TAAACCATCC
*
45800468 ACTACCTCCATCACCCCT
1 ACTAACTCCATCACCCCT
45800486 ACTAACTCCATCA-CCCT
1 ACTAACTCCATCACCCCT
45800503 ACT
1 ACT
45800506 TGTTATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.26, C:0.50, G:0.00, T:0.24
Consensus pattern (18 bp):
ACTAACTCCATCACCCCT
Found at i:45800913 original size:19 final size:18
Alignment explanation
Indices: 45800889--45800942 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
45800879 TTATGTTTCA
45800889 TATTATTATATTATTTATT
1 TATTATTATATTATTTA-T
45800908 TATTATTATA-TATTTAT
1 TATTATTATATTATTTAT
45800925 TATGTA-TATATATATTTA
1 TAT-TATTATAT-TATTTA
45800943 AGCTAAGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 8 0.25
18 8 0.25
19 16 0.50
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTATTATATTATTTAT
Found at i:45800914 original size:63 final size:63
Alignment explanation
Indices: 45800774--45800916 Score: 168
Period size: 63 Copynumber: 2.3 Consensus size: 63
45800764 TTTAACCTCT
* * *
45800774 TTTTTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATA
* *
45800838 TTTGTT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATA
1 TTT-TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATA
45800899 TTATTTATTTATTATTAT
1 TT-TTTATTT-TTATTAT
45800917 ATATTTATTA
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
61 17 0.25
62 8 0.12
63 27 0.39
64 15 0.22
65 2 0.03
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (63 bp):
TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATA
Found at i:45800934 original size:15 final size:14
Alignment explanation
Indices: 45800897--45800940 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
45800887 CATATTATTA
*
45800897 TATTATTTATTTAT
1 TATTATATATTTAT
45800911 TATTATATATTTAT
1 TATTATATATTTAT
*
45800925 TATGTATATATATAT
1 TAT-TATATATTTAT
45800940 T
1 T
45800941 TAAGCTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:45801615 original size:126 final size:126
Alignment explanation
Indices: 45801385--45801623 Score: 408
Period size: 126 Copynumber: 1.9 Consensus size: 126
45801375 ATCTTCTTTC
* *
45801385 AAAATTTTTCAAAATAAAGGCAAAGTTCAGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTA
1 AAAAATTTTCAAAATAAAGGCAAAGTTCAGTATTTAAAGAATTCGAAGAATCGTACCCTAACGTA
* *
45801450 CTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTTGAATATCCTCTTACCAGTTCAGTCTA
66 CTGGGCTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCAGTCTA
*
45801511 AAAAATTTTCAAAATAAAGGCAATGTTC-GATATTTAAAGAATTCGAAGAATCGTACCCTAACGT
1 AAAAATTTTCAAAATAAAGGCAAAGTTCAG-TATTTAAAGAATTCGAAGAATCGTACCCTAACGT
*
45801575 ACTGGGCTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
65 ACTGGGCTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
45801624 AGGCTAAAAC
Statistics
Matches: 106, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
125 1 0.01
126 105 0.99
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (126 bp):
AAAAATTTTCAAAATAAAGGCAAAGTTCAGTATTTAAAGAATTCGAAGAATCGTACCCTAACGTA
CTGGGCTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCAGTCTA
Found at i:45802971 original size:19 final size:19
Alignment explanation
Indices: 45802947--45802993 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
45802937 GACGTCTTCT
*
45802947 TTTGCATT-CATCCCATGCA
1 TTTGCATTACATCACAT-CA
45802966 TTTGCATTACATCACATCA
1 TTTGCATTACATCACATCA
*
45802985 TGTGCATTA
1 TTTGCATTA
45802994 ATTCAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (19 bp):
TTTGCATTACATCACATCA
Found at i:45803232 original size:21 final size:21
Alignment explanation
Indices: 45803188--45803232 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
45803178 AAGGGATCAG
* *
45803188 ATGCTGGAATCCCAGAGAAGC
1 ATGCTAGAATCCCAGAGAAAC
45803209 ATGCTAGAATCCCAGA-ACAAC
1 ATGCTAGAATCCCAGAGA-AAC
45803230 ATG
1 ATG
45803233 ATAAGTCAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (21 bp):
ATGCTAGAATCCCAGAGAAAC
Found at i:45805826 original size:15 final size:14
Alignment explanation
Indices: 45805794--45805872 Score: 76
Period size: 13 Copynumber: 5.8 Consensus size: 14
45805784 TCACTTTCAA
*
45805794 AAAAAAAAAAAGAG
1 AAAAAAAGAAAGAG
*
45805808 -AAAAAGGAAAGAG
1 AAAAAAAGAAAGAG
45805821 AAAAAAAGAAAG-G
1 AAAAAAAGAAAGAG
*
45805834 -GAAAAA-AAAGAG
1 AAAAAAAGAAAGAG
*
45805846 AAAAACAAAAAAGAG
1 AAAAA-AAGAAAGAG
45805861 AAAGAAAAGAAA
1 AAA-AAAAGAAA
45805873 AACAAAAGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
11 4 0.08
12 6 0.11
13 15 0.28
14 12 0.23
15 14 0.26
16 2 0.04
ACGTcount: A:0.78, C:0.01, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAGAG
Found at i:45805838 original size:12 final size:11
Alignment explanation
Indices: 45805797--45805883 Score: 59
Period size: 11 Copynumber: 7.1 Consensus size: 11
45805787 CTTTCAAAAA
45805797 AAAAAAAAGAG
1 AAAAAAAAGAG
45805808 AAAAAGGAAAGAG
1 AAAAA--AAAGAG
*
45805821 AAAAAAAGAAAGGG
1 --AAAAA-AAAGAG
45805835 AAAAAAAAGAG
1 AAAAAAAAGAG
45805846 AAAAACAAAAAAGAG
1 ---AA-AAAAAAGAG
*
45805861 AAAGAAAAGA-
1 AAAAAAAAGAG
45805871 AAAACAAAAGAG
1 AAAA-AAAAGAG
45805883 A
1 A
45805884 GGCCAAGGCG
Statistics
Matches: 62, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
10 3 0.05
11 23 0.37
12 8 0.13
13 6 0.10
14 8 0.13
15 14 0.23
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAG
Found at i:45805843 original size:11 final size:12
Alignment explanation
Indices: 45805796--45805874 Score: 63
Period size: 11 Copynumber: 6.4 Consensus size: 12
45805786 ACTTTCAAAA
*
45805796 AAAAAAAAAGAG
1 AAAAAGAAAGAG
45805808 AAAAAGGAAAGAG
1 AAAAA-GAAAGAG
*
45805821 AAAAAAAGAAAGGG
1 --AAAAAGAAAGAG
45805835 AAAAA-AAAGAG
1 AAAAAGAAAGAG
* *
45805846 AAAAACAAAAAAG
1 AAAAA-GAAAGAG
*
45805859 AGAAAGAAA-AG
1 AAAAAGAAAGAG
45805870 AAAAA
1 AAAAA
45805875 CAAAAGAGAG
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
11 16 0.29
12 13 0.24
13 15 0.27
14 6 0.11
15 5 0.09
ACGTcount: A:0.78, C:0.01, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAGAG
Found at i:45805868 original size:30 final size:29
Alignment explanation
Indices: 45805808--45805874 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
45805798 AAAAAAAGAG
* *
45805808 AAAAAGGAAAGAGAAAAAAAGAAAGGGAAA
1 AAAAAGGAAAAACAAAAAAAGAAA-GGAAA
*
45805838 AAAAAGAGAAAAACAAAAAAGAGAAAGAAAA
1 AAAAAG-GAAAAACAAAAAA-AGAAAGGAAA
45805869 GAAAAA
1 -AAAAA
45805875 CAAAAGAGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 6 0.19
31 15 0.48
32 10 0.32
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (29 bp):
AAAAAGGAAAAACAAAAAAAGAAAGGAAA
Found at i:45805871 original size:24 final size:26
Alignment explanation
Indices: 45805793--45805884 Score: 100
Period size: 25 Copynumber: 3.6 Consensus size: 26
45805783 TTCACTTTCA
*
45805793 AAAAAAAAAAAAGAGAAAAAGGAAAGAG
1 AAAAACAAAAAAGAG-AAAA-GAAAGAG
* * *
45805821 AAAAA-AAGAAAGGGAAAAAAAAGAG
1 AAAAACAAAAAAGAGAAAAGAAAGAG
45805846 AAAAACAAAAAAGAG-AAAGAAA-AG
1 AAAAACAAAAAAGAGAAAAGAAAGAG
*
45805870 AAAAACAAAAGAGAG
1 AAAAACAAAAAAGAG
45805885 GCCAAGGCGA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 16 0.29
25 17 0.30
26 11 0.20
27 7 0.12
28 5 0.09
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (26 bp):
AAAAACAAAAAAGAGAAAAGAAAGAG
Found at i:45807455 original size:179 final size:179
Alignment explanation
Indices: 45807132--45807761 Score: 987
Period size: 179 Copynumber: 3.5 Consensus size: 179
45807122 GATGTCGGCA
* * *
45807132 AGCCTTATC-CCACTGAGCAGGAGTGGAACAGGCTAAATATAACAGATCTCATCCCACTAGCAAG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTAGCAGG
* *
45807196 AGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAAATCAAATTT
66 AGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTT
* * ** *
45807261 TGGCAAATTTTACCTCTATGTATCGAAAATGGAGCAGGTTTCAGCCACC
131 TGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACC
* * * * *
45807310 AACCTTATCTTCACTGAACAGGAGTGGAACAGGCTAAATATAGCAGATCTTATCCCACTGGCAGT
1 AGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTAGCAGG
*
45807375 AGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTT
66 AGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTT
* *
45807440 TGGCAAATCTTACCTCCATGTATTGGCAATAGAGCAGATTTCAGCCACC
131 TGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACC
*
45807489 AGCCTTATCTTCACTGAGCAGGAGT-GAAGCAGGCTAAATATAGCAGATCTCATCCCACTAGCTG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAA-CAGGCTAAATATAGCAGATCTCATCCCACTAGCAG
*
45807553 GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAAGAGCGGAGCAGATCAAATT
65 GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATT
* *
45807618 TTGGCTAATCTTCCCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACC
130 TTGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACC
* *
45807668 AGCCTTATCTTCACTGAGCATGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAGG
1 AGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTAGCAGG
* * *
45807733 AGTGGAACAGGTTAAATTTC-ACGGATCTT
66 AGTGGAACAGATCAAATTTCGACAGATCTT
45807762 GTCTCCATGT
Statistics
Matches: 415, Mismatches: 34, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
178 19 0.05
179 393 0.95
180 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (179 bp):
AGCCTTATCTTCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTAGCAGG
AGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTT
TGGCAAATCTTACCTCCATGTATCGGCAATGGAGCAGATTTCAGCCACC
Found at i:45807509 original size:90 final size:89
Alignment explanation
Indices: 45807223--45807687 Score: 310
Period size: 90 Copynumber: 5.2 Consensus size: 89
45807213 TTCGACAGAT
* * * * * *
45807223 CTTATCTTCGCTGAGCAGGAGCGGAGCAAATCAAATTTTGGCAAATTTTACCTCTATGTATCGAA
1 CTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGCAAATCTTACCTCCATGTATTG-G
* * *
45807288 AATGGAGCAGGTTTCAGCCACCAAC
65 AATAGAGCAGATTTCAGCCACCAGC
* * * * * * * *
45807313 CTTATCTTCACTGAACAGGAGTGGAACAG-GCTAAA-TATAGCAGATCTTATC-CCACTGGCAGT
1 CTTATCTTCACTGAGCAGGAGCGGAGCAGATC-AAATTTTGGCAAATCTTACCTCCA-T----GT
* * * *
45807375 AGTGGAATAGATCAAATTTC-G--A-CAGAT
60 ATTGGAATAGAGCAGATTTCAGCCACCAG-C
*
45807402 CTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGCAAATCTTACCTCCATGTATTGGC
1 CTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGCAAATCTTACCTCCATGTATTGG-
45807467 AATAGAGCAGATTTCAGCCACCAGC
65 AATAGAGCAGATTTCAGCCACCAGC
* * * * * * * *
45807492 CTTATCTTCACTGAGCAGGAGTGAAGCAG-GCTAAA-TATAGCAGATCTCATCC-CACTAGCTGG
1 CTTATCTTCACTGAGCAGGAGCGGAGCAGATC-AAATTTTGGCAAATCTTA-CCTC-C-A--TGT
* * * * *
45807554 AGTGGAACAGATCAAATTTC-G--A-CAGAT
60 ATTGGAATAGAGCAGATTTCAGCCACCAG-C
* * * * *
45807581 CTTATCTTCGCTGAGCAAGAGCGGAGCAGATCAAATTTTGGCTAATCTTCCCTCCATGTATCGGC
1 CTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGCAAATCTTACCTCCATGTATTGG-
*
45807646 AATGGAGCAGATTTCAGCCACCAGC
65 AATAGAGCAGATTTCAGCCACCAGC
45807671 CTTATCTTCACTGAGCA
1 CTTATCTTCACTGAGCA
45807688 TGAGTGGAAC
Statistics
Matches: 277, Mismatches: 68, Indels: 60
0.68 0.17 0.15
Matches are distributed among these distances:
86 11 0.04
87 24 0.09
88 10 0.04
89 86 0.31
90 101 0.36
91 12 0.04
92 23 0.08
93 10 0.04
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (89 bp):
CTTATCTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGCAAATCTTACCTCCATGTATTGGA
ATAGAGCAGATTTCAGCCACCAGC
Found at i:45807597 original size:89 final size:89
Alignment explanation
Indices: 45807144--45807597 Score: 285
Period size: 89 Copynumber: 5.1 Consensus size: 89
45807134 CCTTATCCCA
* *
45807144 CTGAGCAGGAGTGGAA-CAGGCTAAATATAACAGATCTCATCCCACTAGCAAG-AGTGGAATAGA
1 CTGAGCAGGAGT-GAAGCAGGCTAAATATAGCAGATCTCATCCCACTAGC-TGTAGTGGAATAGA
45807207 TCAAATTTCGACAGATCTTATCTTCG
64 TCAAATTTCGACAGATCTTATCTTCG
* * ** * * * * * * * *
45807233 CTGAGCAGGAGCGGAGCA-AATCAAATTTTGGCAAAT-T-TTACCTCTA--TGTA-TCGAAAATG
1 CTGAGCAGGAGTGAAGCAGGCT-AAA-TATAGCAGATCTCATCCCACTAGCTGTAGT-G-GAATA
* ** * *
45807292 GAGCAGGTTTCAGCCACCA-ACCTTATCTTCA
62 GATCAAATTTC-G--A-CAGATCTTATCTTCG
* * * *
45807323 CTGAACAGGAGTGGAA-CAGGCTAAATATAGCAGATCTTATCCCACTGGCAGTAGTGGAATAGAT
1 CTGAGCAGGAGT-GAAGCAGGCTAAATATAGCAGATCTCATCCCACTAGCTGTAGTGGAATAGAT
45807387 CAAATTTCGACAGATCTTATCTTCG
65 CAAATTTCGACAGATCTTATCTTCG
* * * * * * * *
45807412 CTGAGCAGGAGCGGAGCA-GATCAAATTTTGGCAAATCTTA-CCTC-C-A--TGTATTGGCAATA
1 CTGAGCAGGAGTGAAGCAGGCT-AAA-TATAGCAGATCTCATCC-CACTAGCTGTAGTGG-AATA
* * * *
45807471 GAGCAGATTTCAGCCACCAG-CCTTATCTTCA
62 GATCAAATTTC-G--A-CAGATCTTATCTTCG
* *
45807502 CTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCACTAGCTGGAGTGGAACAGATC
1 CTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCACTAGCTGTAGTGGAATAGATC
45807567 AAATTTCGACAGATCTTATCTTCG
66 AAATTTCGACAGATCTTATCTTCG
45807591 CTGAGCA
1 CTGAGCA
45807598 AGAGCGGAGC
Statistics
Matches: 264, Mismatches: 67, Indels: 68
0.66 0.17 0.17
Matches are distributed among these distances:
85 2 0.01
86 8 0.03
87 24 0.09
88 20 0.08
89 81 0.31
90 77 0.29
91 18 0.07
92 23 0.09
93 10 0.04
94 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (89 bp):
CTGAGCAGGAGTGAAGCAGGCTAAATATAGCAGATCTCATCCCACTAGCTGTAGTGGAATAGATC
AAATTTCGACAGATCTTATCTTCG
Found at i:45807933 original size:132 final size:132
Alignment explanation
Indices: 45807632--45807922 Score: 512
Period size: 132 Copynumber: 2.2 Consensus size: 132
45807622 CTAATCTTCC
45807632 CTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCATGAGTGGAA
1 CTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCATGAGTGGAA
* *
45807697 CAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGGTTAAATTTCACGGATCTT
66 CAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCACGGATCTT
*
45807762 GT
131 AT
45807764 CTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCATGAGTGGAA
1 CTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCATGAGTGGAA
* *
45807829 CATGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAGTGGA-CT
66 CAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCA-CGGATCT
45807893 TAT
130 TAT
*
45807896 CTCCATGTATCGGCAATGGAACAGATT
1 CTCCATGTATCGGCAATGGAGCAGATT
45807923 CAAACCACCA
Statistics
Matches: 152, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
132 149 0.98
133 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (132 bp):
CTCCATGTATCGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCATGAGTGGAA
CAGGCTAAATATAGCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCACGGATCTT
AT
Found at i:45808144 original size:87 final size:88
Alignment explanation
Indices: 45807936--45808242 Score: 349
Period size: 87 Copynumber: 3.5 Consensus size: 88
45807926 ACCACCAGTC
* * * * * *
45807936 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAACTACAGATCTTGTCTCCTTAAGCAATAGTG
1 TTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCTTAAGCAATAGTG
*
45808001 G-GACAGATCGAA-A-ACAGCAGGCT
66 GAG-CAGATCAAAGATACA-CA-GCT
* * * *
45808024 TTAACTCCCTAAGAAATAGGGCAACAAGCTGAAGATTACAGATCTTATCTCCTTAAGTAATAGTG
1 TTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCTTAAGCAATAGTG
45808089 GAGCAGATCAAAGATACACA-CT
66 GAGCAGATCAAAGATACACAGCT
* * *
45808111 TTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGATTATAGATCTTATCTCCCTAAGCAATAGTG
1 TTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCTTAAGCAATAGTG
** *
45808176 GAATAGATCAAAGATACA-AGCC
66 GAGCAGATCAAAGATACACAGCT
* *
45808198 TTAAC-CCCTTAAGCAGTAGGGTAACAGGCT-AAAATTTACAGATCT
1 TTAACTCCC-TAAGCAATAGGGTAACAAGCTGAAAA-TTACAGATCT
45808243 GGGCTCGTCG
Statistics
Matches: 190, Mismatches: 23, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
86 7 0.04
87 112 0.59
88 64 0.34
89 4 0.02
90 3 0.02
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (88 bp):
TTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCTTAAGCAATAGTG
GAGCAGATCAAAGATACACAGCT
Found at i:45808168 original size:44 final size:43
Alignment explanation
Indices: 45808028--45808178 Score: 146
Period size: 44 Copynumber: 3.4 Consensus size: 43
45808018 CAGGCTTTAA
*
45808028 CTCCCTAAGAAATAGGGCAACAAGCTGAAGATTACAGATCTTAT
1 CTCCCTAAGCAATAGGG-AACAAGCTGAAGATTACAGATCTTAT
* * * * * * *
45808072 CTCCTTAAGTAATAGTGGAGC-AGATCAAAGA-TACACA-CTTTAA
1 CTCCCTAAGCAATAG-GGAACAAGCT-GAAGATTACAGATC-TTAT
*
45808115 CTCCCTAAGCAATAGGGTAACAAGCTGAAGATTATAGATCTTAT
1 CTCCCTAAGCAATAGGG-AACAAGCTGAAGATTACAGATCTTAT
45808159 CTCCCTAAGCAATAGTGGAA
1 CTCCCTAAGCAATAG-GGAA
45808179 TAGATCAAAG
Statistics
Matches: 84, Mismatches: 15, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
42 3 0.04
43 30 0.36
44 46 0.55
45 5 0.06
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.25
Consensus pattern (43 bp):
CTCCCTAAGCAATAGGGAACAAGCTGAAGATTACAGATCTTAT
Found at i:45808190 original size:44 final size:44
Alignment explanation
Indices: 45807972--45808190 Score: 141
Period size: 44 Copynumber: 5.0 Consensus size: 44
45807962 GGCTAAAAAC
* * * *
45807972 TACAGATCTTGTCTCCTTAAGCAATAGTGGGACAGATCGAA-A-
1 TACAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCAAAGAT
* * * * *
45808014 -ACAGCAGGCTTTAACTCCCTAAGAAATAG-GGCAACA-AGCTGAAGAT
1 TACAG-A-TC-TTATCTCCCTAAGCAATAGTGG-AACAGATC-AAAGAT
* * *
45808060 TACAGATCTTATCTCCTTAAGTAATAGTGGAGCAGATCAAAGA-
1 TACAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCAAAGAT
* * * *
45808103 TACACA-CTTTAACTCCCTAAGCAATAG-GGTAACA-AGCTGAAGAT
1 TACAGATC-TTATCTCCCTAAGCAATAGTGG-AACAGATC-AAAGAT
* *
45808147 TATAGATCTTATCTCCCTAAGCAATAGTGGAATAGATCAAAGAT
1 TACAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCAAAGAT
45808191 ACAAGCCTTA
Statistics
Matches: 133, Mismatches: 27, Indels: 32
0.69 0.14 0.17
Matches are distributed among these distances:
41 4 0.03
42 6 0.05
43 33 0.25
44 74 0.56
45 11 0.08
46 1 0.01
47 4 0.03
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (44 bp):
TACAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCAAAGAT
Found at i:45808299 original size:85 final size:86
Alignment explanation
Indices: 45808195--45808561 Score: 546
Period size: 85 Copynumber: 4.3 Consensus size: 86
45808185 AAAGATACAA
*
45808195 GCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC-TGGGCTCGTCGAGCAGT
1 GCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTGGGCTCGCCGAGCAGT
* *
45808259 GGCGGAGCAGGTCGAAGACTC
66 GGTGGAGCAGGTCAAAGACTC
*
45808280 GCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGA-CTTGGGCTCGCCGAGCAGT
1 GCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTGGGCTCGCCGAGCAGT
*
45808344 GGTGGAGCAGGTCAAAGACTT
66 GGTGGAGCAGGTCAAAGACTC
* * * * *
45808365 GCCTTAA-CCCTCTAGGCAGTAGGGTAACAGGCTAAAGTTTACAG-GCTTGAGCTTGCCGAGCAG
1 GCCTTAACCCCT-TAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTGGGCTCGCCGAGCAG
45808428 TGGTGGAGCAGGTCAAAGACTC
65 TGGTGGAGCAGGTCAAAGACTC
* * * *
45808450 GCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAAAATTTACAGATCCT-GGCTCTCCGAGCAGT
1 GCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTGGGCTCGCCGAGCAGT
*
45808514 GGTGGAGCAGGTCGAAGACTC
66 GGTGGAGCAGGTCAAAGACTC
*
45808535 GCCTTAACCCCCTAAGCAGTAGGGTAA
1 GCCTTAACCCCTTAAGCAGTAGGGTAA
45808562 TGACTAAAAT
Statistics
Matches: 257, Mismatches: 20, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
84 5 0.02
85 247 0.96
86 5 0.02
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.20
Consensus pattern (86 bp):
GCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTGGGCTCGCCGAGCAGT
GGTGGAGCAGGTCAAAGACTC
Found at i:45808851 original size:29 final size:29
Alignment explanation
Indices: 45808818--45808922 Score: 86
Period size: 29 Copynumber: 3.4 Consensus size: 29
45808808 CCAAATTAAA
45808818 CACCCCACTAAACCGA-CCACTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* * * *
45808847 CACCCTATTAAACCATCCACTACCTCTAT
1 CACCCCACTAAACCATCCACTAACTCCAT
*
45808876 CACCCCCACCCTACTAAACCATCCACTACCTCCAT
1 CA----C-CCC-ACTAAACCATCCACTAACTCCAT
45808911 CACCCCTACTAA
1 CACCCC-ACTAA
45808923 CTCCATCACC
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
28 1 0.02
29 25 0.40
30 9 0.15
31 1 0.02
33 1 0.02
34 2 0.03
35 23 0.37
ACGTcount: A:0.31, C:0.49, G:0.01, T:0.19
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:45808894 original size:35 final size:35
Alignment explanation
Indices: 45808847--45808916 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
45808837 CTAACTCCAT
* *
45808847 CACCCTATTAAACCATCCACTACCTCTATCACCCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCCC
45808882 CACCCTACTAAACCATCCACTACCTCCATCACCCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCCC
45808917 TACTAACTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.29, C:0.51, G:0.00, T:0.20
Consensus pattern (35 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCC
Found at i:45808936 original size:17 final size:18
Alignment explanation
Indices: 45808900--45808937 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
45808890 TAAACCATCC
*
45808900 ACTACCTCCATCACCCCT
1 ACTAACTCCATCACCCCT
45808918 ACTAACTCCATCA-CCCT
1 ACTAACTCCATCACCCCT
45808935 ACT
1 ACT
45808938 TGTTATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.26, C:0.50, G:0.00, T:0.24
Consensus pattern (18 bp):
ACTAACTCCATCACCCCT
Found at i:45809336 original size:64 final size:63
Alignment explanation
Indices: 45809212--45809332 Score: 158
Period size: 63 Copynumber: 1.9 Consensus size: 63
45809202 CCCTTTTTTA
* *
45809212 TTTTTGTTATTTTACTCTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTGTT
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTTTTATATTTGTT
* * *
45809276 TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATT
1 TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTTTTATATT
45809333 ATTTATTATA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
61 15 0.29
62 4 0.08
63 20 0.39
64 12 0.24
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (63 bp):
TTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTTTTATATTTGTT
Found at i:45809346 original size:11 final size:12
Alignment explanation
Indices: 45809323--45809352 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
45809313 ATGTTTCATA
45809323 TTATTATATTAT
1 TTATTATATTAT
45809335 TTATTATA-TAT
1 TTATTATATTAT
45809346 TTATTAT
1 TTATTAT
45809353 GTAAATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTATATTAT
Found at i:45810031 original size:126 final size:126
Alignment explanation
Indices: 45809806--45810049 Score: 443
Period size: 126 Copynumber: 1.9 Consensus size: 126
45809796 CATTGATCTT
**
45809806 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTAGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAAGTTTCAAAATAAAGGCAATGTTAGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
*
45809871 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACGTACTGAGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
*
45809932 CTCTCAAAAAGTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAAGTTTCAAAATAAAGGCAATGTTAGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
*
45809997 ACGTACTGAGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 ACGTACTGAGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
45810050 AGGCTAAAAT
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 113 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (126 bp):
CTCTCAAAAAGTTTCAAAATAAAGGCAATGTTAGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTGAGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:45811242 original size:2 final size:2
Alignment explanation
Indices: 45811237--45811301 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
45811227 GGGGGGGCTA
45811237 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
45811279 AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG A
45811302 AATCTAGATC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45815076 original size:38 final size:38
Alignment explanation
Indices: 45814995--45815082 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
45814985 GACCATCCAG
* *
45814995 CACACCACATATGAGCTATATCAAGCCCAACCAACCCTG
1 CACACCACATAGGAGCTATA-CAAGCCCAACCAACCCTA
*
45815034 CACACCACATAGGAGCT-TGA-AAGACCCATCCAACCCTA
1 CACACCACATAGGAGCTAT-ACAAG-CCCAACCAACCCTA
*
45815072 CACACTACATA
1 CACACCACATA
45815083 TGTGGAACTA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
37 3 0.07
38 23 0.53
39 17 0.40
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (38 bp):
CACACCACATAGGAGCTATACAAGCCCAACCAACCCTA
Found at i:45816478 original size:9 final size:9
Alignment explanation
Indices: 45816459--45816508 Score: 50
Period size: 8 Copynumber: 5.6 Consensus size: 9
45816449 TCTTTCCATA
45816459 AAATAAAAAT
1 AAAT-AAAAT
*
45816469 AATTAAAAT
1 AAATAAAAT
45816478 AAAT-AAAT
1 AAATAAAAT
45816486 AAATAAAAAT
1 AAAT-AAAAT
*
45816496 GAAT-AAAT
1 AAATAAAAT
45816504 AAATA
1 AAATA
45816509 TTTAGACTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
8 15 0.45
9 8 0.24
10 10 0.30
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (9 bp):
AAATAAAAT
Found at i:45816500 original size:14 final size:13
Alignment explanation
Indices: 45816459--45816506 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
45816449 TCTTTCCATA
45816459 AAATAAAAATAATT
1 AAATAAAAATAA-T
*
45816473 AAA-ATAAATAAAT
1 AAATAAAAAT-AAT
45816486 AAATAAAAATGAAT
1 AAATAAAAAT-AAT
45816500 AAATAAA
1 AAATAAA
45816507 TATTTAGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 9 0.31
14 20 0.69
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (13 bp):
AAATAAAAATAAT
Found at i:45816500 original size:18 final size:18
Alignment explanation
Indices: 45816459--45816508 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
45816449 TCTTTCCATA
* *
45816459 AAATAAAAATAATTAAAAT
1 AAATAAATA-AATAAAAAT
45816478 AAATAAATAAATAAAAAT
1 AAATAAATAAATAAAAAT
*
45816496 GAATAAATAAATA
1 AAATAAATAAATA
45816509 TTTAGACTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 20 0.71
19 8 0.29
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
AAATAAATAAATAAAAAT
Found at i:45822920 original size:5 final size:5
Alignment explanation
Indices: 45822910--45822958 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
45822900 GTATACCTTG
* * * *
45822910 TCATA TCATA TCATA TCATA TCACA TCATA CCTTA GCATA TCATA TCAT
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCAT
45822959 GTTTTACCCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (5 bp):
TCATA
Found at i:45824963 original size:42 final size:42
Alignment explanation
Indices: 45824890--45825016 Score: 128
Period size: 42 Copynumber: 3.0 Consensus size: 42
45824880 GTCCCAGACG
* ** * * **
45824890 TGGTCTTACATGGGATCTCACATCGATGCCATATCCCTGATA
1 TGGTCTTACACGAAATCTCATATCGACGCCATATCCCAAATA
* * * * * *
45824932 TGGTCTTATACGAATTCTCGTTTCGACGCCATGTCCCAAATG
1 TGGTCTTACACGAAATCTCATATCGACGCCATATCCCAAATA
*
45824974 TGGTCTTACACGAAATCTCATATCAACGCCATATCCCAAATA
1 TGGTCTTACACGAAATCTCATATCGACGCCATATCCCAAATA
45825016 T
1 T
45825017 TGCCATACAT
Statistics
Matches: 65, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (42 bp):
TGGTCTTACACGAAATCTCATATCGACGCCATATCCCAAATA
Found at i:45831383 original size:20 final size:20
Alignment explanation
Indices: 45831358--45831409 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
45831348 TTGTGGTCAC
45831358 ACACGCCCGTGTGGCATGGG
1 ACACGCCCGTGTGGCATGGG
45831378 ACACGCCCGTGTGGCATGGG
1 ACACGCCCGTGTGGCATGGG
*
45831398 ACACACCCGTGT
1 ACACGCCCGTGT
45831410 CCTCAGCCCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.17, C:0.33, G:0.35, T:0.15
Consensus pattern (20 bp):
ACACGCCCGTGTGGCATGGG
Found at i:45832797 original size:42 final size:42
Alignment explanation
Indices: 45832665--45832808 Score: 108
Period size: 42 Copynumber: 3.4 Consensus size: 42
45832655 AATAAGATGC
* * * * ** *
45832665 CAACGCCATGTCCCAGACGTGGTCATACATGGGATCTCACAT
1 CAACGCCATATCCCAAATGTGGTCTTACATGAAATCTCATAT
* * * * * * * * * * *
45832707 CGATGTCATATCTCAGATATGGTCTTATACGAATTCTCGTTT
1 CAACGCCATATCCCAAATGTGGTCTTACATGAAATCTCATAT
* *
45832749 CGACGCCATGTCCCAAATGTGGTCTTACATGAAATCTCATAT
1 CAACGCCATATCCCAAATGTGGTCTTACATGAAATCTCATAT
45832791 CAACGCCATATCCCAAAT
1 CAACGCCATATCCCAAAT
45832809 ATTGCCATAC
Statistics
Matches: 73, Mismatches: 29, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (42 bp):
CAACGCCATATCCCAAATGTGGTCTTACATGAAATCTCATAT
Found at i:45832820 original size:42 final size:42
Alignment explanation
Indices: 45832751--45832831 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
45832741 TCTCGTTTCG
* * * *
45832751 ACGCCATGTCCCAAATGTGGTCTTACATGA-AATCTCATATCA
1 ACGCCATATCCCAAATATGGCCATACATGATAA-CTCATATCA
*
45832793 ACGCCATATCCCAAATATTGCCATACATGATAACTCATA
1 ACGCCATATCCCAAATATGGCCATACATGATAACTCATA
45832832 CTAATGCTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (42 bp):
ACGCCATATCCCAAATATGGCCATACATGATAACTCATATCA
Found at i:45833594 original size:10 final size:9
Alignment explanation
Indices: 45833570--45833595 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
45833560 TTCAATGATC
45833570 TCAAAAACA
1 TCAAAAACA
45833579 TCAAAAACA
1 TCAAAAACA
45833588 TCAAAAAC
1 TCAAAAAC
45833596 TAACACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.23, G:0.00, T:0.12
Consensus pattern (9 bp):
TCAAAAACA
Found at i:45850296 original size:25 final size:25
Alignment explanation
Indices: 45850254--45850302 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
45850244 CTTTATTATT
* *
45850254 ATCATTATGAAGAATTATGTGATTA
1 ATCATTATCAAGAATTATATGATTA
* *
45850279 ATCATTATCATGAGTTATATGATT
1 ATCATTATCAAGAATTATATGATT
45850303 GGTCCTTTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (25 bp):
ATCATTATCAAGAATTATATGATTA
Found at i:45857864 original size:94 final size:92
Alignment explanation
Indices: 45857672--45857936 Score: 327
Period size: 94 Copynumber: 2.8 Consensus size: 92
45857662 CGATTTGTAT
*
45857672 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCCAATGTAAGACAATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCCAGTGTAAGAC-ATGTC
* * * *
45857737 TGAGAAATGGCATCAGCGTTGAGACGAGG
65 TGGGACAT-GCATCAGCGTTGAGACAAGA
* *
45857766 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGT-GCTAGTGTAAGACTTGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-TAGCCAGTGTAAGACATGTC
*
45857830 TGGGACATGCATCAGCACGTAT-ATACAAGA
65 TGGGACATGCATCAG--CGT-TGAGACAAGA
* **
45857860 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAAGATGATAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGATAGCCAGTGTAAGA-CAT
45857925 GTCTGGGACATG
62 GTCTGGGACATG
45857937 GCTTCGGTAA
Statistics
Matches: 149, Mismatches: 13, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
92 7 0.05
93 10 0.07
94 75 0.50
95 16 0.11
96 11 0.07
97 16 0.11
98 14 0.09
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCGTTGAGACAAGA
Found at i:45857938 original size:49 final size:47
Alignment explanation
Indices: 45857672--45857936 Score: 243
Period size: 46 Copynumber: 5.6 Consensus size: 47
45857662 CGATTTGTAT
*
45857672 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGATA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAATATGATA
* * * * *** * * **
45857718 GCCAATGTAAGACAATGTCTGAGAAATGGCATCAGCGTTG-AGACGAGG
1 GCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCCACGAATATGATA
*
45857766 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGT-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAATATGA-TA
* ** *
45857812 GCTAGTGTAAGACTTGTCTGGGACATGCATCAG-CACGTATATACAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACG-A-ATATGATA
* *
45857860 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAAGATGATA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACGAATATGATA
*
45857909 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
45857937 GCTTCGGTAA
Statistics
Matches: 172, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
45 3 0.02
46 54 0.31
47 23 0.13
48 38 0.22
49 43 0.25
50 8 0.05
51 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAATATGATA
Found at i:45862688 original size:4 final size:4
Alignment explanation
Indices: 45862679--45862705 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
45862669 TAAGTTTATT
45862679 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
45862706 CGTTTTGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:45874517 original size:45 final size:46
Alignment explanation
Indices: 45874421--45874593 Score: 180
Period size: 45 Copynumber: 3.9 Consensus size: 46
45874411 TTTTCTCAAA
* * * *
45874421 TCACCGGTATT-TCGCCTGCTAGGATCG--AGGCCCGATTA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGATCGAAAGGCCCGAATAGT-ATC
* *
45874464 TCATCGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGATCGAAAGGCCCGAATAGTATC
* * * *
45874509 TCACCGGCATTATAGCCTACTAGG-CCCAAAGGCCCGAATAGTGTC
1 TCACCGGCATTATAGCCTGCTAGGATCGAAAGGCCCGAATAGTATC
* *
45874554 TCAACGGCATAATAGCCTGCTAGGATC-AAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGATCGAAAGGCCCGAATA
45874594 TAATACCAGC
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
43 9 0.08
44 18 0.17
45 79 0.72
46 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (46 bp):
TCACCGGCATTATAGCCTGCTAGGATCGAAAGGCCCGAATAGTATC
Found at i:45874775 original size:38 final size:38
Alignment explanation
Indices: 45874586--45874756 Score: 200
Period size: 38 Copynumber: 4.5 Consensus size: 38
45874576 GGATCAAAGG
* * * * * *
45874586 CCCGAATATAATACCAGCACTAGGCCCGCTGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* * * * *
45874624 CCTGGATATAATACCAGCATGAAGCCTGCGAGAATTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
* *
45874662 CCCAGATATATTACCAGCACGAAGCCTGTGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
45874700 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
*
45874738 CCTGGATATAATT-CCAGCA
1 CCCGGATAT-ATTACCAGCA
45874757 TATAGCCTGC
Statistics
Matches: 113, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
38 110 0.97
39 3 0.03
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
Found at i:45875161 original size:43 final size:44
Alignment explanation
Indices: 45875053--45875187 Score: 184
Period size: 43 Copynumber: 3.1 Consensus size: 44
45875043 ACATAACATT
*
45875053 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAAT-A
* * *
45875099 T-ATTTCACCGGCATCATAGCCTACTAAGCTCAAAGCCCG-ATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
* *
45875141 TCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATA
1 TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
45875185 TCA
1 TCA
45875188 CATTTCAATA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 2 0.03
43 35 0.45
44 10 0.13
45 30 0.38
46 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (44 bp):
TCATTTCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATA
Found at i:45883173 original size:15 final size:14
Alignment explanation
Indices: 45883153--45883199 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
45883143 TGTGATATTT
45883153 AATAATATAATAAAA
1 AATAAT-TAATAAAA
45883168 AATAATT-ATAAGAA
1 AATAATTAATAA-AA
45883182 TAATAATTACATAAAA
1 -AATAATTA-ATAAAA
45883198 AA
1 AA
45883200 ATATAAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 4 0.14
14 3 0.11
15 15 0.54
16 2 0.07
17 4 0.14
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (14 bp):
AATAATTAATAAAA
Found at i:45883457 original size:3 final size:3
Alignment explanation
Indices: 45883444--45883664 Score: 84
Period size: 3 Copynumber: 69.3 Consensus size: 3
45883434 TTAAAACCTT
* * *
45883444 TAA TGA TAA TAA TATA TAGA TAA AAA TGGA TAA TAA T-A TAA -AA TGACA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA T-AA TAA TAA TAA TAA TAA T-A-A
* * *
45883492 TAA TAA TATA TAA T-A TAA TTA TAA TGTA TAA TAA -AGG TATA TATA
1 TAA TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TA-A TA-A
45883537 TAAA TAA TATA TAA T-A TAA TTAA TAAA TATA TAA T-A TAA TAA TATA
1 T-AA TAA TA-A TAA TAA TAA -TAA T-AA TA-A TAA TAA TAA TAA TA-A
* * *
45883583 TAAA TAA TAA T-G TAA -AA TAA TAA TTTA TGAA AAA TAA TACA TAA TAAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA -TAA T-AA TAA TAA TA-A TAA T-AA
45883631 TAA TAA TAA T-A TAAA TAA TATA TAA TAA -AA TAA T
1 TAA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA T
45883665 TATATAACAT
Statistics
Matches: 168, Mismatches: 20, Indels: 60
0.68 0.08 0.24
Matches are distributed among these distances:
2 18 0.11
3 93 0.55
4 53 0.32
5 4 0.02
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:45883506 original size:7 final size:7
Alignment explanation
Indices: 45883494--45883671 Score: 90
Period size: 7 Copynumber: 25.6 Consensus size: 7
45883484 AAATGACATA
45883494 ATAATAT
1 ATAATAT
45883501 AT-A-AT
1 ATAATAT
45883506 ATAAT-T
1 ATAATAT
*
45883512 ATAATGT
1 ATAATAT
45883519 ATAATA-
1 ATAATAT
*
45883525 A-AGGTAT
1 ATA-ATAT
*
45883532 ATATATAA
1 ATA-ATAT
45883540 ATAATAT
1 ATAATAT
45883547 ATAATAT
1 ATAATAT
*
45883554 A-ATTA-
1 ATAATAT
45883559 ATAAATAT
1 AT-AATAT
45883567 ATAATAT
1 ATAATAT
45883574 AATAATAT
1 -ATAATAT
45883582 ATAA-AT
1 ATAATAT
*
45883588 AATAATGT
1 -ATAATAT
*
45883596 AAAATA-
1 ATAATAT
*
45883602 ATAATTT
1 ATAATAT
*
45883609 ATGAA-AA
1 AT-AATAT
*
45883616 ATAATAC
1 ATAATAT
*
45883623 ATAATAA
1 ATAATAT
45883630 ATAATA-
1 ATAATAT
45883636 ATAATAT
1 ATAATAT
45883643 AAATAATAT
1 --ATAATAT
*
45883652 ATAATAAA
1 ATAAT-AT
45883660 ATAATTAT
1 ATAA-TAT
45883668 ATAA
1 ATAA
45883672 CATAAAAAAT
Statistics
Matches: 132, Mismatches: 19, Indels: 39
0.69 0.10 0.21
Matches are distributed among these distances:
5 6 0.05
6 28 0.21
7 62 0.47
8 28 0.21
9 8 0.06
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.37
Consensus pattern (7 bp):
ATAATAT
Found at i:45883521 original size:20 final size:20
Alignment explanation
Indices: 45883491--45883591 Score: 73
Period size: 20 Copynumber: 4.8 Consensus size: 20
45883481 ATAAAATGAC
45883491 ATAATAATATATAATATAATT
1 ATAAT-ATATATAATATAATT
*
45883512 ATAATGTATAATAA-AGGTATATAT
1 ATAATATAT-ATAATA--TA-AT-T
45883536 ATAAATAATATATAATATAATT
1 AT-AAT-ATATATAATATAATT
*
45883558 AATAA-ATATATAATATAATA
1 -ATAATATATATAATATAATT
*
45883578 AT-ATATAAATAATA
1 ATAATATATATAATA
45883592 ATGTAAAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 22
0.72 0.04 0.24
Matches are distributed among these distances:
18 1 0.02
19 11 0.17
20 18 0.27
21 9 0.14
22 5 0.08
23 6 0.09
24 5 0.08
25 7 0.11
26 4 0.06
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (20 bp):
ATAATATATATAATATAATT
Found at i:45883544 original size:46 final size:46
Alignment explanation
Indices: 45883476--45883676 Score: 153
Period size: 46 Copynumber: 4.5 Consensus size: 46
45883466 AAAATGGATA
* *
45883476 ATAATATAA-AATGACAT-AATAATATATAATATAATT-AT-AATGT
1 ATAATATAATAAT-ATATAAATAATATATAATATAATTAATAAATAT
45883519 ATAATA-AAGGTATATATATAAATAATATATAATATAATTAATAAATAT
1 ATAATATAA--TA-ATATATAAATAATATATAATATAATTAATAAATAT
* * *
45883567 ATAATATAATAATATATAAATAATA-AT-GTA-AAATAAT-AATTT
1 ATAATATAATAATATATAAATAATATATAATATAATTAATAAATAT
*
45883609 ATGAAAAATAATACATA-ATAAATAATA-ATAATAT-A--AAT-AATAT
1 AT--AATATAATA-ATATATAAATAATATATAATATAATTAATAAATAT
*
45883652 ATAATAAAATAATTATATAACATAA
1 ATAATATAATAA-TATATAA-ATAA
45883677 AAAATAAGGT
Statistics
Matches: 132, Mismatches: 10, Indels: 32
0.76 0.06 0.18
Matches are distributed among these distances:
40 1 0.01
41 9 0.07
42 12 0.09
43 25 0.19
44 22 0.17
45 12 0.09
46 35 0.27
47 4 0.03
48 10 0.08
49 2 0.02
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.35
Consensus pattern (46 bp):
ATAATATAATAATATATAAATAATATATAATATAATTAATAAATAT
Found at i:45883550 original size:35 final size:35
Alignment explanation
Indices: 45883493--45883657 Score: 118
Period size: 35 Copynumber: 4.7 Consensus size: 35
45883483 AAAATGACAT
*
45883493 AATA-ATATATAATATAAT-TATAATGT-A-TAATA
1 AATATATATATAA-ATAATATATAATATAATTAATA
45883525 AAGGTATATATATAAATAATATATAATATAATTAATA
1 AA--TATATATATAAATAATATATAATATAATTAATA
*
45883562 AATATATA-ATATAATAATATATAAATAATAATGTAAAA
1 AATATATATATA-AATAATATAT-AAT-ATAAT-TAATA
* * *
45883600 TAATA-ATTTATGAAA-AATA-AT-ACATAATAAAT-
1 -AATATATATAT-AAATAATATATAATATAATTAATA
45883632 AATA-ATAATATAAATAATATATAATA
1 AATATAT-ATATAAATAATATATAATA
45883658 AAATAATTAT
Statistics
Matches: 108, Mismatches: 8, Indels: 32
0.73 0.05 0.22
Matches are distributed among these distances:
31 9 0.08
32 9 0.08
33 4 0.04
34 17 0.16
35 32 0.30
36 4 0.04
37 14 0.13
38 10 0.09
39 8 0.07
40 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (35 bp):
AATATATATATAAATAATATATAATATAATTAATA
Found at i:45883678 original size:18 final size:15
Alignment explanation
Indices: 45883493--45883671 Score: 115
Period size: 14 Copynumber: 11.8 Consensus size: 15
45883483 AAAATGACAT
45883493 AATAATATATAATATA
1 AATAATATATAATA-A
*
45883509 ATTATAATGTATAATAA
1 A--ATAATATATAATAA
*
45883526 AGGT-ATATAT-AT-A
1 A-ATAATATATAATAA
45883539 AATAATATATAATATAA
1 AATAATATAT-A-ATAA
*
45883556 TTAATAAATATATAATAT
1 --AAT-AATATATAATAA
*
45883574 AATAATATATAA-AT
1 AATAATATATAATAA
* *
45883588 AATAATGTA-AA-AT
1 AATAATATATAATAA
* *
45883601 AATAATTTATGA-AA
1 AATAATATATAATAA
*
45883615 AATAATACATAAT-A
1 AATAATATATAATAA
45883629 AATAATA-ATAATATA
1 AATAATATATAATA-A
45883644 AATAATATATAATAA
1 AATAATATATAATAA
45883659 AATAATTATATAA
1 AATAA-TATATAA
45883672 CATAAAAAAT
Statistics
Matches: 134, Mismatches: 13, Indels: 32
0.75 0.07 0.18
Matches are distributed among these distances:
12 1 0.01
13 25 0.19
14 31 0.23
15 28 0.21
16 20 0.15
17 3 0.02
18 15 0.11
19 4 0.03
20 7 0.05
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (15 bp):
AATAATATATAATAA
Found at i:45883683 original size:44 final size:44
Alignment explanation
Indices: 45883501--45883683 Score: 133
Period size: 44 Copynumber: 4.1 Consensus size: 44
45883491 ATAATAATAT
* * * *
45883501 ATAATATAATTATAATGTATAATAAAGGT-ATATATATAAATAATAT
1 ATAATATAA--ATAATATATAATAAA-ATAATATATATAAATAAAAA
* * * *
45883547 ATAATATAATTAATAAATATATAATATAATAATATATAAATAATAAT
1 ATAATATAAATAATATATA-ATAAAATAAT-ATATATAAATAA-AAA
* * * * * *
45883594 GTAAAAT-AATAATTTATGA-AAAATAATACATAATAAAT-AATA
1 ATAATATAAATAATATATAATAAAATAATATAT-ATAAATAAAAA
45883636 ATAATATAAATAATATATAATAAAATAAT-TATATAACATAAAAA
1 ATAATATAAATAATATATAATAAAATAATATATATAA-ATAAAAA
45883680 ATAA
1 ATAA
45883684 GGTTAAAAAA
Statistics
Matches: 106, Mismatches: 22, Indels: 20
0.72 0.15 0.14
Matches are distributed among these distances:
42 10 0.09
43 18 0.17
44 36 0.34
45 7 0.07
46 28 0.26
47 7 0.07
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (44 bp):
ATAATATAAATAATATATAATAAAATAATATATATAAATAAAAA
Found at i:45897847 original size:15 final size:15
Alignment explanation
Indices: 45897814--45897851 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
45897804 ATGTGATATT
*
45897814 TAATAA-TATAATAA
1 TAATAATTATAAGAA
*
45897828 AAATAATTATAAGAA
1 TAATAATTATAAGAA
45897843 TAATAATTA
1 TAATAATTA
45897852 CATAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
TAATAATTATAAGAA
Found at i:45898201 original size:14 final size:13
Alignment explanation
Indices: 45898171--45898213 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
45898161 ATAATATAAT
*
45898171 TATAATGTATA-A
1 TATAAAGTATATA
45898183 TATAAAGGTATATA
1 TATAAA-GTATATA
45898197 TATAAA-TATATA
1 TATAAAGTATATA
45898209 TATAA
1 TATAA
45898214 TATAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 16 0.57
13 5 0.18
14 7 0.25
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (13 bp):
TATAAAGTATATA
Found at i:45898221 original size:26 final size:27
Alignment explanation
Indices: 45898154--45898325 Score: 120
Period size: 26 Copynumber: 6.7 Consensus size: 27
45898144 AAATGACATA
**
45898154 ATAATATATAATATAAT-TATA-ATGT
1 ATAATATATAATATAATATATATAAAT
**
45898179 ATAATATA-AAGGT-ATATATATAAAT
1 ATAATATATAATATAATATATATAAAT
45898204 AT-ATATATAATATAATATA-AT-AAT
1 ATAATATATAATATAATATATATAAAT
45898228 ATAATATAATAATATAATA-ATAT-AAT
1 ATAATAT-ATAATATAATATATATAAAT
* *
45898254 AATAATATA-AATAATAATA-AAATAAAAA
1 -ATAATATATAAT-ATAATATATAT-AAAT
*
45898282 ATAATACATAATA-AATA-ATAATATAA-
1 ATAATATATAATATAATATAT-ATA-AAT
*
45898308 ATAATATATAATAAAATA
1 ATAATATATAATATAATA
45898326 ATTCTATAAC
Statistics
Matches: 121, Mismatches: 11, Indels: 28
0.76 0.07 0.17
Matches are distributed among these distances:
23 2 0.02
24 17 0.14
25 25 0.21
26 49 0.40
27 23 0.19
28 5 0.04
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (27 bp):
ATAATATATAATATAATATATATAAAT
Found at i:45898325 original size:5 final size:5
Alignment explanation
Indices: 45898210--45898326 Score: 58
Period size: 5 Copynumber: 21.8 Consensus size: 5
45898200 AAATATATAT
* * * * * *
45898210 ATAAT ATAAT ATAATA ATATA ATATA ATAAT ATAATA ATATA ATAATA
1 ATAAA ATAAA ATAA-A ATAAA ATAAA ATAAA ATAA-A ATAAA ATAA-A
45898258 ATATAA ATAATA ATAAA ATAAA A-AATA ATACATA AT-AA ATAATA ATATAA
1 ATA-AA ATAA-A ATAAA ATAAA ATAA-A ATA-A-A ATAAA ATAA-A ATA-AA
* *
45898308 ATAAT ATATA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAA
45898327 TTCTATAACA
Statistics
Matches: 90, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
4 5 0.06
5 50 0.56
6 28 0.31
7 7 0.08
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (5 bp):
ATAAA
Found at i:45898326 original size:8 final size:8
Alignment explanation
Indices: 45898210--45898327 Score: 91
Period size: 8 Copynumber: 14.6 Consensus size: 8
45898200 AAATATATAT
45898210 ATAATATAA
1 ATAATA-AA
*
45898219 TATAATAAT
1 -ATAATAAA
*
45898228 ATAATATA
1 ATAATAAA
*
45898236 ATAATATA
1 ATAATAAA
*
45898244 ATAATATA
1 ATAATAAA
*
45898252 ATAATAAT
1 ATAATAAA
*
45898260 ATAA-ATA
1 ATAATAAA
45898267 ATAATAAA
1 ATAATAAA
45898275 ATAA-AAA
1 ATAATAAA
45898282 ATAATACATA
1 ATAATA-A-A
*
45898292 ATAA-ATA
1 ATAATAAA
45898299 ATAATATAA
1 ATAATA-AA
*
45898308 ATAAT-AT
1 ATAATAAA
45898315 ATAATAAA
1 ATAATAAA
45898323 ATAAT
1 ATAAT
45898328 TCTATAACAT
Statistics
Matches: 89, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
7 23 0.26
8 46 0.52
9 9 0.10
10 11 0.12
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (8 bp):
ATAATAAA
Found at i:45898334 original size:16 final size:16
Alignment explanation
Indices: 45898153--45898327 Score: 142
Period size: 15 Copynumber: 11.4 Consensus size: 16
45898143 AAAATGACAT
45898153 AATAATATATAATATA
1 AATAATATATAATATA
*
45898169 ATTATAATGTATAATATA
1 A--ATAATATATAATATA
**
45898187 AA-GGTATAT-ATATA
1 AATAATATATAATATA
45898201 AATATATATATAATAT-
1 AATA-ATATATAATATA
45898217 AAT-ATA-ATAATATA
1 AATAATATATAATATA
45898231 ATATAATAATATAATA-A
1 A-ATAAT-ATATAATATA
*
45898248 TATAATA-ATAATATA
1 AATAATATATAATATA
*
45898263 AATAATA-ATAAAATA
1 AATAATATATAATATA
* *
45898278 AAAAATA-AT-ACAT-
1 AATAATATATAATATA
45898291 AATAA-ATAATAATATA
1 AATAATAT-ATAATATA
45898307 AATAATATATAATA-A
1 AATAATATATAATATA
45898322 AATAAT
1 AATAAT
45898328 TCTATAACAT
Statistics
Matches: 130, Mismatches: 13, Indels: 33
0.74 0.07 0.19
Matches are distributed among these distances:
12 1 0.01
13 11 0.08
14 22 0.17
15 39 0.30
16 28 0.22
17 8 0.06
18 21 0.16
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (16 bp):
AATAATATATAATATA
Found at i:45898340 original size:44 final size:44
Alignment explanation
Indices: 45898197--45898346 Score: 148
Period size: 44 Copynumber: 3.4 Consensus size: 44
45898187 AAGGTATATA
* * *
45898197 TATAAATATATATATAATATAATATAATAATATAATATAATAA-TA
1 TATAAATAAATA-ATAATATAA-ATAATAATATAATAAAATAATTC
* *
45898242 TA-ATAATATAATAATAATATAAATAATAATAAAATAAAAAATAATAC
1 TATA-AATA-AATAATAATATAAATAATAATATAAT--AAAATAATTC
45898289 -AT-AATAAATAATAATATAAATAAT-ATATAATAAAATAATTC
1 TATAAATAAATAATAATATAAATAATAATATAATAAAATAATTC
*
45898330 TATAACATAAAAAATAA
1 TATAA-ATAAATAATAA
45898347 GGTTAAAAAA
Statistics
Matches: 88, Mismatches: 8, Indels: 19
0.77 0.07 0.17
Matches are distributed among these distances:
41 9 0.10
42 2 0.02
43 7 0.08
44 41 0.47
45 19 0.22
46 10 0.11
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (44 bp):
TATAAATAAATAATAATATAAATAATAATATAATAAAATAATTC
Found at i:45910720 original size:48 final size:48
Alignment explanation
Indices: 45910658--45911304 Score: 1046
Period size: 48 Copynumber: 13.7 Consensus size: 48
45910648 TATATATGTG
*
45910658 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
45910706 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
45910754 TGTGGTAAAGCCGAATGGCTAATGTGAAATATCTATGAGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATAT--GAGATATGTATA
* *
45910804 TGTGGTAAGGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
45910852 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
45910900 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
45910948 TGTGGTAAAGCCG-A-----A---T-AAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
45910986 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
45911034 TGTGGTAAATCCGAATGGCTAGTGTGAAATATATATGAGATATGTTTA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
45911082 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
45911130 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
45911178 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-TATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
45911225 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
45911273 TGTGGTAAAGCCGAATGGCTAGTATGAGATAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
45911305 GTATAGCCGA
Statistics
Matches: 564, Mismatches: 22, Indels: 26
0.92 0.04 0.04
Matches are distributed among these distances:
38 35 0.06
39 2 0.00
42 1 0.00
44 1 0.00
47 48 0.09
48 432 0.77
50 45 0.08
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
Found at i:45910943 original size:96 final size:96
Alignment explanation
Indices: 45910658--45911629 Score: 1170
Period size: 96 Copynumber: 10.4 Consensus size: 96
45910648 TATATATGTG
* *
45910658 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATG
*
45910723 GCTAATGTGAAATATATATGAGATATGTATA
66 GCTAATGTGAAATATGTATGAGATATGTATA
* *
45910754 TGTGGTAAAGCCGAATGGCTAATGTGAAATATCTATGAGAGATATGTATATGTGGTAAGGCCGAA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATAT--GAGATATGTATATGTGGTAAAGCCGAA
*
45910819 TGGCTAGTGTGAAATATGTATGAGATATGTATA
64 TGGCTAATGTGAAATATGTATGAGATATGTATA
*
45910852 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATG
*
45910917 GCTAATGTGAAATATATATGAGATATGTATA
66 GCTAATGTGAAATATGTATGAGATATGTATA
45910948 TGTGGTAAAGCC-----G--AA--T-AAATATATATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATG
*
45911003 GCTAGTGTGAAATATGTATGAGATATGTATA
66 GCTAATGTGAAATATGTATGAGATATGTATA
* * *
45911034 TGTGGTAAATCCGAATGGCTAGTGTGAAATATATATGAGATATGTTTATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATG
45911099 GCTAATGTGAAATATGTATGAGATATGTATA
66 GCTAATGTGAAATATGTATGAGATATGTATA
*
45911130 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATG
*
45911195 GCTAGTGTGAAATAT-TATGAGATATGTATA
66 GCTAATGTGAAATATGTATGAGATATGTATA
45911225 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATG
* * * **
45911290 GCTAGTATGAGATATGTAT-AG--CCG-A-A
66 GCTAATGTGAAATATGTATGAGATATGTATA
* * * * * * * * ** * * *
45911316 TG-GCT--AG-C--AT-G-AAATAT-ATATGAGATATG-TATATGTGGTAAAGCCG-AATGGCTA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATATATGAGATATGT-AT-ATGTGGTAAAGCCGA
** ** * * *
45911370 GCGTTTAATAT-ATATGA-GATATG-TAT------A
63 ATGGCTAATGTGAAAT-ATG-TATGAGATATGTATA
** *
45911397 TGTGGTAAAGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATG
*
45911462 GCTAATGTGAAATATATATGAGATATGTATA
66 GCTAATGTGAAATATGTATGAGATATGTATA
* * *
45911493 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGAATATGTGGTAAAGCCGAATG
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATG
**
45911558 GCTAGCGTGAAATATGTATGAGATATGTATA
66 GCTAATGTGAAATATGTATGAGATATGTATA
* * *
45911589 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
45911630 GTGTGTATAT
Statistics
Matches: 758, Mismatches: 77, Indels: 82
0.83 0.08 0.09
Matches are distributed among these distances:
81 3 0.00
82 15 0.02
83 26 0.03
84 6 0.01
85 3 0.00
86 79 0.10
87 4 0.01
88 6 0.01
89 25 0.03
90 16 0.02
91 5 0.01
92 1 0.00
93 2 0.00
95 95 0.13
96 381 0.50
98 91 0.12
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (96 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATG
GCTAATGTGAAATATGTATGAGATATGTATA
Found at i:45911355 original size:124 final size:123
Alignment explanation
Indices: 45911186--45911432 Score: 404
Period size: 124 Copynumber: 2.0 Consensus size: 123
45911176 TATGTGGTAA
** *
45911186 AGCCGAATGGCTAGTGTGAAATATTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AGCCGAATGGCTAGCATGAAATATTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTG
* *
45911251 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTATGAGATATGTAT
66 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGCATGAAATATGTAT
*
45911309 AGCCGAATGGCTAGCATGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGCGT
1 AGCCGAATGGCTAGCATGAAATAT-TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGT
** *
45911374 TTAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGCGTGAAATATGTAT
65 GAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGCATGAAATATGTAT
45911433 GAGATATGTA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
123 22 0.19
124 92 0.81
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (123 bp):
AGCCGAATGGCTAGCATGAAATATTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAACGTG
AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGCATGAAATATGTAT
Found at i:45911369 original size:48 final size:48
Alignment explanation
Indices: 45911309--45911629 Score: 534
Period size: 48 Copynumber: 6.7 Consensus size: 48
45911299 AGATATGTAT
* *
45911309 AGCCGAATGGCTAGCATGAAATATATATGAGATATGTATATGTGGTAA
1 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
** *
45911357 AGCCGAATGGCTAGCGTTTAATATATATGAGATATGTATATGTGGTAA
1 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
45911405 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
1 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
** *
45911453 AGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAA
1 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
* *
45911501 AGCCGAATGGCTAGTGTGAAATATGTATGAGATATGAATATGTGGTAA
1 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
45911549 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
1 AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
* *
45911597 AGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 AGCCGAATGGCTAGCGTGAAATATGTATGAGAT
45911630 GTGTGTATAT
Statistics
Matches: 257, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 257 1.00
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
AGCCGAATGGCTAGCGTGAAATATGTATGAGATATGTATATGTGGTAA
Found at i:45915209 original size:14 final size:15
Alignment explanation
Indices: 45915184--45915212 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45915174 TATTTTCTGT
45915184 GTTTATTATGTGTGA
1 GTTTATTATGTGTGA
45915199 GTTTA-TATGTGTGA
1 GTTTATTATGTGTGA
45915213 AATTTTCGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (15 bp):
GTTTATTATGTGTGA
Found at i:45915750 original size:15 final size:15
Alignment explanation
Indices: 45915730--45915759 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45915720 ATTATGAAAT
45915730 ATATGTTTTGGATTG
1 ATATGTTTTGGATTG
*
45915745 ATATGTTTTGTATTG
1 ATATGTTTTGGATTG
45915760 GAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTG
Found at i:45917219 original size:47 final size:47
Alignment explanation
Indices: 45917101--45917269 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 47
45917091 GGATGATTGA
*
45917101 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
45917149 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
*
45917192 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
*
45917241 -C--CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
45917270 GCTTATGGGC
Statistics
Matches: 105, Mismatches: 7, Indels: 22
0.78 0.05 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 27 0.26
45 3 0.03
46 30 0.29
47 29 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:45917266 original size:44 final size:44
Alignment explanation
Indices: 45917103--45917277 Score: 210
Period size: 44 Copynumber: 3.9 Consensus size: 44
45917093 ATGATTGAGC
45917103 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
45917147 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAG-GC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGA
45917196 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * *
45917240 ACCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45917278 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 1 0.01
44 38 0.34
45 2 0.02
46 32 0.29
47 32 0.29
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:45920780 original size:23 final size:23
Alignment explanation
Indices: 45920754--45920799 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
45920744 AAAATGAAGT
*
45920754 ATATGAAAATGTATGATTAATGC
1 ATATGAAAATATATGATTAATGC
45920777 ATATGAAAATATATGATTAATGC
1 ATATGAAAATATATGATTAATGC
45920800 CGTATGGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (23 bp):
ATATGAAAATATATGATTAATGC
Found at i:45922992 original size:94 final size:94
Alignment explanation
Indices: 45922838--45923019 Score: 247
Period size: 94 Copynumber: 1.9 Consensus size: 94
45922828 TAAAGCTCAT
* * * * *
45922838 TGATTTATGGTCACAATCTAAGTTCATTAACTTATGATTATGAACAATTTTTCCTGAGTTTACTG
1 TGATTTATGATCACAACCTAAGTTCATTAACTTACGATCATGAACAATTTCTCCTGAGTTTACTG
45922903 ACTTACAATCACAACTCCAAACAGCTCGA
66 ACTTACAATCACAACTCCAAACAGCTCGA
* * * * *
45922932 TGATTTATGATCACAGCCTAAGTTCATTTATTTACGATCATGAACAATTTCTCTTGAGTTTGCTG
1 TGATTTATGATCACAACCTAAGTTCATTAACTTACGATCATGAACAATTTCTCCTGAGTTTACTG
* **
45922997 ATTTATGATCACAACTCCAAACA
66 ACTTACAATCACAACTCCAAACA
45923020 ACTCACTAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
94 75 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (94 bp):
TGATTTATGATCACAACCTAAGTTCATTAACTTACGATCATGAACAATTTCTCCTGAGTTTACTG
ACTTACAATCACAACTCCAAACAGCTCGA
Found at i:45923001 original size:63 final size:62
Alignment explanation
Indices: 45922932--45923167 Score: 197
Period size: 63 Copynumber: 3.7 Consensus size: 62
45922922 AACAGCTCGA
* *
45922932 TGATTTATGATCACAGCCTAAGTTCATTTATTTACGATCATGAACAATTTCTCTTGAGTTTGC
1 TGATTTATGATCACA-CCTAAATTCATTAATTTACGATCATGAACAATTTCTCTTGAGTTTGC
* * * * * * * ** *
45922995 TGATTTATGATCACAACTCCAAACAACTCACTAATTTACGATCAT-AGCTGATAT-TATAAAGGC
1 TGATTTATGATCAC-A--CC-TA-AATTCATTAATTTACGATCATGAAC-AATTTCTCTTGA-GT
*
45923058 TTGT
59 TTGC
* * * * *
45923062 TGATTTATGATCACAACCTAAGTTCATTGATTTACAATCATGAACAATTTCTCCTGAGTTCGC
1 TGATTTATGATCAC-ACCTAAATTCATTAATTTACGATCATGAACAATTTCTCTTGAGTTTGC
* *
45923125 TGATTTACGATTACACCTAAATTCATTAATTTACGATCATGAA
1 TGATTTATGATCACACCTAAATTCATTAATTTACGATCATGAA
45923168 TAATCTTTCC
Statistics
Matches: 130, Mismatches: 35, Indels: 17
0.71 0.19 0.09
Matches are distributed among these distances:
62 26 0.20
63 48 0.37
64 6 0.05
65 4 0.03
66 6 0.05
67 40 0.31
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (62 bp):
TGATTTATGATCACACCTAAATTCATTAATTTACGATCATGAACAATTTCTCTTGAGTTTGC
Found at i:45923158 original size:62 final size:63
Alignment explanation
Indices: 45923062--45923203 Score: 173
Period size: 62 Copynumber: 2.3 Consensus size: 63
45923052 AAAGGCTTGT
* * *
45923062 TGATTTATGATCACAACCTAAGTTCATTGATTTACAATCATGAACAAT-TTCTCCTGAGTTCGC
1 TGATTTACGATCACAACCTAAATTCATTAATTTACAATCATGAACAATCTT-TCCTGAGTTCGC
* * * *
45923125 TGATTTACGATTAC-ACCTAAATTCATTAATTTACGATCATGAATAATCTTTCCTGAGTTAG-
1 TGATTTACGATCACAACCTAAATTCATTAATTTACAATCATGAACAATCTTTCCTGAGTTCGC
*
45923186 TGGATTCACGATCACAAC
1 T-GATTTACGATCACAAC
45923204 TTAGGTACGA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
61 1 0.01
62 50 0.75
63 16 0.24
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (63 bp):
TGATTTACGATCACAACCTAAATTCATTAATTTACAATCATGAACAATCTTTCCTGAGTTCGC
Found at i:45927167 original size:20 final size:21
Alignment explanation
Indices: 45927133--45927173 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
45927123 AGGGACTAAA
45927133 TTGTGCAAAAATTTGAAATTT
1 TTGTGCAAAAATTTGAAATTT
*
45927154 TTGTG-AAAATTTTGAAATTT
1 TTGTGCAAAAATTTGAAATTT
45927174 AGGTGTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (21 bp):
TTGTGCAAAAATTTGAAATTT
Found at i:45927649 original size:16 final size:16
Alignment explanation
Indices: 45927630--45927663 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45927620 AAATGAATAT
* *
45927630 ATGTGTAAATGTGATA
1 ATGTGAAAATATGATA
45927646 ATGTGAAAATATGATA
1 ATGTGAAAATATGATA
45927662 AT
1 AT
45927664 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGAAAATATGATA
Found at i:45930420 original size:28 final size:29
Alignment explanation
Indices: 45930388--45930501 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
45930378 TACCTGTATC
* *
45930388 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
45930416 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
45930445 TGGCCCATTAGGCCCAAATCAGATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
45930474 CGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
45930502 ATCACGCTCA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 25 0.34
29 47 0.64
30 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:45930449 original size:57 final size:58
Alignment explanation
Indices: 45930379--45930489 Score: 161
Period size: 58 Copynumber: 1.9 Consensus size: 58
45930369 AATTTCACAT
* * *
45930379 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCAGATTCATACGGCCCATTAGGCCCAAATC
* * *
45930436 ACCTGTATATGGCCCATTAGGCCCAAATCAGATTTATACGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCCAAATCAGATTCATACGGCCCATTAGGCCCA
45930490 GTCACATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCAGATTCATACGGCCCATTAGGCCCAAATC
Found at i:45931980 original size:16 final size:16
Alignment explanation
Indices: 45931959--45931990 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45931949 AAGTTCGAGA
45931959 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
45931975 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
45931991 CCGTTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.31, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:45938344 original size:46 final size:47
Alignment explanation
Indices: 45938183--45938450 Score: 257
Period size: 46 Copynumber: 5.7 Consensus size: 47
45938173 TAGGGATAAT
* ** *
45938183 GCCGATGTCATGTCCCAGAAATGGTCTTACACTTCCTCTCACATATCTG-T
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-ACATATC-GAG
* * *
45938233 GCTGATGCATGTCCCAGACATGTCTTACACTAG---AACATCTCGTA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATATCG-AG
45938277 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TACATATCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATATCGAG
* * * * *
45938323 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATATCGAG
* * *
45938369 GCCGATGTCATGTCCCAGACATGGTCTTACAATGGCTCT-CATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTACAT-ATCGAG
*
45938417 GCCGATGCATGTCCTAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
45938451 ACACACACAT
Statistics
Matches: 184, Mismatches: 25, Indels: 22
0.80 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 38 0.21
45 1 0.01
46 64 0.35
47 27 0.15
48 33 0.18
49 14 0.08
50 6 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATATCGAG
Found at i:45938428 original size:94 final size:92
Alignment explanation
Indices: 45938179--45938451 Score: 317
Period size: 94 Copynumber: 2.9 Consensus size: 92
45938169 AACATAGGGA
* ** * * *
45938179 TAATGCCGATGTCATGTCCCAGAAATGGTCTTACACTTCCTCTCACATATCTGTGCTGATGCATG
1 TAATGCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-ATGTG-GCCGATGCATG
45938244 TCCCAGACATGTCTTACACTAGAACATCTCG
64 TCCCAGACATGTCTTACACTAG--CATCTCG
*
45938275 T-A-GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-ATCGAGGCCGATGCATG
1 TAATGCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCGATGCATG
*
45938334 TCCCAAACATGTCTTACACTAGC-TCTCG
64 TCCCAGACATGTCTTACACTAGCATCTCG
* *
45938362 TCTCAATGCCGATGTCATGTCCCAGACATGGTCTTACAATGGCTCTCATAATGTGGCCGATGCAT
1 --T-AATGCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCAT
*
45938427 GTCCTAGACATGTCTTACACTAGCA
63 GTCCCAGACATGTCTTACACTAGCA
45938452 CACACACATC
Statistics
Matches: 152, Mismatches: 13, Indels: 25
0.80 0.07 0.13
Matches are distributed among these distances:
87 5 0.03
88 1 0.01
89 1 0.01
90 33 0.22
91 3 0.02
92 21 0.14
93 27 0.18
94 56 0.37
95 4 0.03
96 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (92 bp):
TAATGCCGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTC
CCAGACATGTCTTACACTAGCATCTCG
Found at i:45943353 original size:46 final size:46
Alignment explanation
Indices: 45943300--45943475 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
45943290 TATTTAGACA
45943300 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
45943346 TCCGAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * * *
45943391 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGACGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
45943439 CCCGAGCTCGTTGAGTTGATTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45943476 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
45 1 0.01
46 60 0.57
47 27 0.25
48 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45943457 original size:93 final size:93
Alignment explanation
Indices: 45943298--45943466 Score: 266
Period size: 93 Copynumber: 1.8 Consensus size: 93
45943288 GATATTTAGA
* * *
45943298 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAACGCCCGAACTCGTTGAGTT
45943363 GAGTCCGAGTTTGAGAGATGTAACTAGG
66 GAGTCCGAGTTTGAGAGATGTAACTAGG
* * *
45943391 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGACGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAACGCCCGAACTCGTTGAGTT
* *
45943456 GATTCTGAGTT
66 GAGTCCGAGTT
45943467 CGCTTATGGG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTTGAGAGATGTAACTAGG
Found at i:45948468 original size:46 final size:46
Alignment explanation
Indices: 45948415--45948590 Score: 164
Period size: 46 Copynumber: 3.8 Consensus size: 46
45948405 TATTTAGACA
45948415 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
45948461 TCCGAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * * *
45948506 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGACGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
45948554 CCCGAGCTCGTTGAGTTGATTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45948591 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
45 1 0.01
46 60 0.57
47 27 0.25
48 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45948572 original size:93 final size:93
Alignment explanation
Indices: 45948413--45948581 Score: 266
Period size: 93 Copynumber: 1.8 Consensus size: 93
45948403 GATATTTAGA
* * *
45948413 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAACGCCCGAACTCGTTGAGTT
45948478 GAGTCCGAGTTTGAGAGATGTAACTAGG
66 GAGTCCGAGTTTGAGAGATGTAACTAGG
* * *
45948506 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGACGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAACGCCCGAACTCGTTGAGTT
* *
45948571 GATTCTGAGTT
66 GAGTCCGAGTT
45948582 CGCTTATGGG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGACGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTTGAGAGATGTAACTAGG
Found at i:45953699 original size:92 final size:93
Alignment explanation
Indices: 45953532--45953701 Score: 288
Period size: 92 Copynumber: 1.8 Consensus size: 93
45953522 GGATATTTGA
* *
45953532 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
45953597 GAGTCCGAGTTCGAGAGATGTAACTAGG
66 GAGTCCGAGTTCGAGAGATGTAACTAGG
* *
45953625 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
*
45953689 GAGTCTGAGTTCG
66 GAGTCCGAGTTCG
45953702 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 40 0.56
93 32 0.44
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGAGAGATGTAACTAGG
Found at i:45956670 original size:15 final size:15
Alignment explanation
Indices: 45956648--45956727 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
45956638 ATATCTTGGG
*
45956648 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
45956663 TCTT-TTTATTCTGGA
1 T-TTCTTTATTCTGGA
*
45956678 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
45956693 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
45956708 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
45956722 TTTCTT
1 TTTCTT
45956728 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
14 12 0.22
15 39 0.71
16 4 0.07
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:45956717 original size:30 final size:30
Alignment explanation
Indices: 45956639--45956726 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
45956629 CATAGTATCA
* * *
45956639 TATCTTGGGTTTCTTTATCCTGGATCTT-TT
1 TATCTTGGATTTCTTTATTCTGGAT-TTCTC
*
45956669 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
45956699 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
45956727 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.20
30 39 0.78
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:45959167 original size:46 final size:46
Alignment explanation
Indices: 45959114--45959289 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
45959104 TATTTGGGCA
*
45959114 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
45959160 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* * *
45959207 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
45959253 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45959290 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
45 1 0.01
46 65 0.59
47 29 0.26
48 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:45959269 original size:93 final size:93
Alignment explanation
Indices: 45959110--45959281 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
45959100 AGGATATTTG
* *
45959110 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
45959175 TTGAGTCCGAGTTCAAGAGATGTAACTA
66 TTGAGTCCGAGTTCAAGAGATGTAACTA
* * * *
45959203 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
45959268 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
45959282 GCTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCAAGAGATGTAACTA
Found at i:45964100 original size:12 final size:12
Alignment explanation
Indices: 45964083--45964177 Score: 56
Period size: 12 Copynumber: 7.9 Consensus size: 12
45964073 AAAATATTAT
45964083 TTTAATATTGAA
1 TTTAATATTGAA
*
45964095 TTTAATATTAAA
1 TTTAATATTGAA
*
45964107 TTT-ATTTTGATA
1 TTTAATATTGA-A
*
45964119 GTTT-TTATT-AA
1 -TTTAATATTGAA
45964130 TTTAATATT-AA
1 TTTAATATTGAA
* *
45964141 ATTAACTATCTTAA
1 TTTAA-TAT-TGAA
*
45964155 TATTAA-ATTTAA
1 T-TTAATATTGAA
45964167 TTTAATATTGA
1 TTTAATATTGA
45964178 TCTTGATAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
10 3 0.05
11 20 0.30
12 28 0.42
13 9 0.14
14 2 0.03
15 4 0.06
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (12 bp):
TTTAATATTGAA
Found at i:45966626 original size:29 final size:29
Alignment explanation
Indices: 45966585--45966664 Score: 72
Period size: 32 Copynumber: 2.7 Consensus size: 29
45966575 ATGAATTTAA
* *
45966585 AAATTTACA-AACTTATAAATTGATTACTT
1 AAATTTA-ATAACTTATAAATTAATTAATT
45966614 AAATTTAATAACTCATGATAAATTAATTAATT
1 AAATTTAATAACT--T-ATAAATTAATTAATT
** *
45966646 TTATTTAATAACTCATAAA
1 AAATTTAATAACTTATAAA
45966665 AAATACATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
28 1 0.02
29 16 0.38
31 1 0.02
32 24 0.57
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (29 bp):
AAATTTAATAACTTATAAATTAATTAATT
Found at i:45972747 original size:30 final size:27
Alignment explanation
Indices: 45972694--45972761 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
45972684 TAATTTAACA
* * *
45972694 AAAAAATTAATGATATATTTTAAAATT
1 AAAAAATAAATGAAATATTTTAAAAAT
45972721 CAAAAAATAAATGAAATAATTATTAAAAAT
1 -AAAAAATAAATGAAAT-ATT-TTAAAAAT
45972751 AAAAATATAAA
1 AAAAA-ATAAA
45972762 AATTTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 14 0.41
29 8 0.24
30 12 0.35
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (27 bp):
AAAAAATAAATGAAATATTTTAAAAAT
Found at i:45975063 original size:17 final size:18
Alignment explanation
Indices: 45975031--45975066 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45975021 GATTTAACTT
*
45975031 TTTTTTTATATCAATCAA
1 TTTTTATATATCAATCAA
45975049 TTTTTATATAT-AATCAA
1 TTTTTATATATCAATCAA
45975066 T
1 T
45975067 ATTCTCTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTTATATATCAATCAA
Found at i:45980921 original size:25 final size:25
Alignment explanation
Indices: 45980888--45980935 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
45980878 ACGAGCGGTA
45980888 AACGGTAAGCTCTTCCGAGCTGAAT
1 AACGGTAAGCTCTTCCGAGCTGAAT
45980913 AACGGTAAGCTCTTCCGAGCTGA
1 AACGGTAAGCTCTTCCGAGCTGA
45980936 GTATCCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (25 bp):
AACGGTAAGCTCTTCCGAGCTGAAT
Found at i:45980946 original size:25 final size:25
Alignment explanation
Indices: 45980893--45980949 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
45980883 CGGTAAACGG
**
45980893 TAAGCTCTTCCGAGCTGAATAACGG
1 TAAGCTCTTCCGAGCTGAATAACCA
* *
45980918 TAAGCTCTTCCGAGCTGAGTATCCA
1 TAAGCTCTTCCGAGCTGAATAACCA
45980943 TAAGCTC
1 TAAGCTC
45980950 ATAAGATCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
TAAGCTCTTCCGAGCTGAATAACCA
Found at i:45981105 original size:36 final size:36
Alignment explanation
Indices: 45981059--45981138 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
45981049 TGCGATCGAT
45981059 ATTCATATATGATCATAATGCAAATAACATACATCTA
1 ATTCA-ATATGATCATAATGCAAATAACATACATCTA
45981096 ATTCAATATGATCATAATGCAAATAACATACATCTA
1 ATTCAATATGATCATAATGCAAATAACATACATCTA
45981132 ATTCAAT
1 ATTCAAT
45981139 CACAGTATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 38 0.88
37 5 0.12
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.33
Consensus pattern (36 bp):
ATTCAATATGATCATAATGCAAATAACATACATCTA
Found at i:45985508 original size:38 final size:37
Alignment explanation
Indices: 45985415--45985508 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 37
45985405 TGTAATGATA
* *
45985415 ATATTTATACAATTATAATATT-TTATTTAAATTAGTAG
1 ATATTTAT-TAATTA-AATATTATTATTAAAATTAGTAG
45985453 ATATTTATT-ATT---TATTATTATTAAAATTAAG-AG
1 ATATTTATTAATTAAATATTATTATTAAAATT-AGTAG
45985486 ATATTTATTAATTAAATAATTAT
1 ATATTTATTAATTAAAT-ATTAT
45985509 AAAATAAGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
32 4 0.09
33 21 0.45
34 5 0.11
36 3 0.06
37 1 0.02
38 13 0.28
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTTATTAATTAAATATTATTATTAAAATTAGTAG
Found at i:45985517 original size:33 final size:33
Alignment explanation
Indices: 45985437--45985517 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
45985427 TTATAATATT
* * *
45985437 TTATTTAAATT-AGTAGATATTTATTATTTATTA
1 TTATTAAAATTAAG-AGATATTTATTATTAATAA
45985470 TTATTAAAATTAAGAGATATTTATTAATTAAATAA
1 TTATTAAAATTAAGAGATATTTATT-ATT-AATAA
45985505 TTA-TAAAA-TAAGA
1 TTATTAAAATTAAGA
45985518 TTTTTATGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.62
34 10 0.24
35 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (33 bp):
TTATTAAAATTAAGAGATATTTATTATTAATAA
Done.