Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 62
Found at i:4445942 original size:17 final size:18
Alignment explanation
Indices: 4445920--4445958 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
4445910 GTTTCGGAAA
* *
4445920 AAAAGAAGAAGAA-ACTC
1 AAAAGAAAAAAAACACTC
4445937 AAAAGAAAAAAAACACTC
1 AAAAGAAAAAAAACACTC
4445955 AAAA
1 AAAA
4445959 ACAAAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.72, C:0.13, G:0.10, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAAAAACACTC
Found at i:4457127 original size:30 final size:29
Alignment explanation
Indices: 4457054--4457206 Score: 112
Period size: 30 Copynumber: 5.2 Consensus size: 29
4457044 ATTTATAAAC
* * * *
4457054 TTAAAAGACCAAAATAG-TAAAACAAAAA
1 TTAAAGGACTAAAATAGCAAAAACAGAAA
* * *
4457082 CTTAAGGGA-TTAAATAGCAAAAATAGAAA
1 -TTAAAGGACTAAAATAGCAAAAACAGAAA
* * *
4457111 TATAAAGTACCAAAATAGCACAAACAGAAA
1 T-TAAAGGACTAAAATAGCAAAAACAGAAA
* **
4457141 CTTAAAGGACTAAAAAAATAAAAACAGAGAA
1 -TTAAAGGACTAAAATAGCAAAAACAGA-AA
* *
4457172 TTAAAGGACTAAAATAGTAAAAATAGAAA
1 TTAAAGGACTAAAATAGCAAAAACAGAAA
4457201 GTTAAA
1 -TTAAA
4457207 AGACCAAACA
Statistics
Matches: 96, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
28 7 0.07
29 21 0.22
30 65 0.68
31 3 0.03
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.17
Consensus pattern (29 bp):
TTAAAGGACTAAAATAGCAAAAACAGAAA
Found at i:4461346 original size:14 final size:14
Alignment explanation
Indices: 4461327--4461362 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4461317 TTTTTACTTA
*
4461327 TTTAATTTCAGTCC
1 TTTAATTTCAGTAC
*
4461341 TTTAATTTCATTAC
1 TTTAATTTCAGTAC
4461355 TTTAATTT
1 TTTAATTT
4461363 ATTATTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTAATTTCAGTAC
Found at i:4467916 original size:20 final size:20
Alignment explanation
Indices: 4467893--4467931 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4467883 AAATATAAAC
*
4467893 AAATAAAATTAAAACAATAA
1 AAATAAAACTAAAACAATAA
**
4467913 AAATACCACTAAAACAATA
1 AAATAAAACTAAAACAATA
4467932 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (20 bp):
AAATAAAACTAAAACAATAA
Found at i:4469272 original size:11 final size:10
Alignment explanation
Indices: 4469242--4469282 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
4469232 GGGCTTTGTA
4469242 ATTTAATATT
1 ATTTAATATT
4469252 ATTTATATATGT
1 ATTTA-ATAT-T
4469264 ATTTAATATAT
1 ATTTAATAT-T
4469275 ATTTAATA
1 ATTTAATA
4469283 ATAATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
ATTTAATATT
Found at i:4469286 original size:3 final size:3
Alignment explanation
Indices: 4469278--4469375 Score: 135
Period size: 3 Copynumber: 32.7 Consensus size: 3
4469268 AATATATATT
*
4469278 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
4469326 TTA TAG TAA TAA TAA TAA TTA TAA TAA CAA TAA TAA TAA T-A TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
4469371 TAA TA
1 TAA TA
4469376 TGGGTAAAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
2 2 0.02
3 80 0.94
4 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:4470046 original size:113 final size:113
Alignment explanation
Indices: 4469694--4470373 Score: 956
Period size: 113 Copynumber: 6.0 Consensus size: 113
4469684 ATAGAATTAT
* * *
4469694 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
4469759 ATTATGAAC-TTCTCTGGAAAAGCTGCTCCATCAAGTGATAGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATAGATTTGA
* *
4469806 GCAAAAGGTTGAACAAATTCTTCCCATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* * * * **
4469871 CTCATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGAT-GAATTCAA
63 CTCATTATGAACT-TTCTCTGGAAAAGATGATCCATCAAATGATAG-ATTTGA
* * *
4469922 ACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
4469987 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTAATAGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATAGATTTGA
*
4470035 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
4470100 ATTATGAACTTTCTCTGGAAAAGATAATCCATCAATTGAT-GAATTCA
66 ATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATAGATTTGA
* *
4470147 GGTAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 -GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * **
4470212 CATTATGAACTTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAA
65 CATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATAGATTTGA
*
4470261 GTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
4470326 ATTATGAACTTTCTCTGGAAATG-TCAATCCATCAAATGATAGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGAT-GATCCATCAAATGATAGATTTGA
4470374 ATCTTTGCTA
Statistics
Matches: 507, Mismatches: 50, Indels: 21
0.88 0.09 0.04
Matches are distributed among these distances:
112 57 0.11
113 348 0.69
114 5 0.01
115 21 0.04
116 74 0.15
117 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGATGATCCATCAAATGATAGATTTGA
Found at i:4470311 original size:339 final size:339
Alignment explanation
Indices: 4469694--4470373 Score: 1062
Period size: 339 Copynumber: 2.0 Consensus size: 339
4469684 ATAGAATTAT
* *
4469694 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* ** * *
4469759 ATTATGAACTTCTCTGGAAAAGCTGCTCCATCAAGTGATAGATTTGAGCAAAAGGTTGAACAAAT
66 ATTATGAACTTCTCTGGAAAAGATAATCCATCAAGTGATAGAATTCAGCAAAAGGTTGAACAAAT
4469824 TCTTCCCATTATGAATTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACC
131 TCTTCCCATTATGAATTTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTCTACC
* * *
4469889 TGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATGA
194 TGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGA
*
4469954 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAG-CTGATCCA
259 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTC-AATCCA
*
4470018 TCAAGTAATAGATTTGA
323 TCAAATAATAGATTTGA
* *
4470035 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
4470100 ATTATGAACTTTCTCTGGAAAAGATAATCCATCAATTGAT-GAATTCAGGTAAAAGGTTGAACAA
66 ATTATGAAC-TTCTCTGGAAAAGATAATCCATCAAGTGATAGAATTCA-GCAAAAGGTTGAACAA
* *
4470164 ATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAACT-TTCT
129 ATTCTTCCCATTATGAATTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTAC-
* ** *
4470227 CTGGAAATGATGATCCATCAAATGATGGATTCAAGTAAAAGGTTGAACAAATTCTTCTCATTATG
193 CTGGAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATG
*
4470292 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTCAATCCA
258 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTCAATCCA
*
4470357 TCAAATGATAGATTTGA
323 TCAAATAATAGATTTGA
4470374 ATCTTTGCTA
Statistics
Matches: 311, Mismatches: 24, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
338 2 0.01
339 155 0.50
340 1 0.00
341 75 0.24
342 78 0.25
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (339 bp):
GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTCTCTGGAAAAGATAATCCATCAAGTGATAGAATTCAGCAAAAGGTTGAACAAAT
TCTTCCCATTATGAATTTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTCTACCTG
GAAATGATGATCCATCAAATGATGAATTCAAACAAAAAGTTGAACAAATTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGTCAATCCATCA
AATAATAGATTTGA
Found at i:4471236 original size:83 final size:83
Alignment explanation
Indices: 4471097--4471307 Score: 413
Period size: 83 Copynumber: 2.5 Consensus size: 83
4471087 GTTCTTACCA
4471097 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
*
4471162 CAATGATTGGTTCTGTTC
66 CAATGATTGGTTCTGTCC
4471180 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
4471245 CAATGATTGGTTCTGTCC
66 CAATGATTGGTTCTGTCC
4471263 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG
4471308 AGTCTCCTTA
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 127 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCAAATT
CAATGATTGGTTCTGTCC
Found at i:4471513 original size:85 final size:85
Alignment explanation
Indices: 4471372--4471591 Score: 333
Period size: 85 Copynumber: 2.6 Consensus size: 85
4471362 CTGTGGTTCA
* *
4471372 TACCAAACCAGATCAGATAACTCAAAGAATA-CTTCCAGAAGATGCTATGAACACA-TTAT-TCT
1 TACCAAACCAGATCAGATAACTCAAAAAAAACCTTCCAGAAGATGCTATGAACACATTTATCT-T
* *
4471434 TCTC-AATTCAATGATTGGTTT
65 TC-CAAATTCAATAACTGGTTT
4471455 TACCAAACCAGATCAGATAACTCAAAAAAAACCCTTCCAGAAGATGCTATGAACACATTTATCTT
1 TACCAAACCAGATCAGATAACTCAAAAAAAA-CCTTCCAGAAGATGCTATGAACACATTTATCTT
4471520 TCCAAATTCAATAACTGGTTT
65 TCCAAATTCAATAACTGGTTT
4471541 TACCAAACCAGATCAGA-AACTCAAAAAAAACACTTCCAGAAGATGCTATGA
1 TACCAAACCAGATCAGATAACTCAAAAAAAAC-CTTCCAGAAGATGCTATGA
4471592 GCATATGGCA
Statistics
Matches: 127, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
83 29 0.23
84 1 0.01
85 57 0.45
86 39 0.31
87 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.25
Consensus pattern (85 bp):
TACCAAACCAGATCAGATAACTCAAAAAAAACCTTCCAGAAGATGCTATGAACACATTTATCTTT
CCAAATTCAATAACTGGTTT
Found at i:4472760 original size:9 final size:9
Alignment explanation
Indices: 4472746--4472812 Score: 80
Period size: 9 Copynumber: 7.1 Consensus size: 9
4472736 TGACCCCCCC
4472746 TTTTTTTCT
1 TTTTTTTCT
4472755 TTTTTTTCT
1 TTTTTTTCT
*
4472764 TTTTTCTCTT
1 TTTTTTTC-T
*
4472774 TTTTTTTAT
1 TTTTTTTCT
4472783 TTTTTTTCTT
1 TTTTTTTC-T
*
4472793 TTTTTCTTCA
1 TTTTT-TTCT
4472803 TTTTTTTCT
1 TTTTTTTCT
4472812 T
1 T
4472813 CAAGCATAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
9 28 0.57
10 18 0.37
11 3 0.06
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:4472778 original size:28 final size:28
Alignment explanation
Indices: 4472746--4472812 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
4472736 TGACCCCCCC
4472746 TTTTTTTCTTTTTTTTCTTTTTTCTCTT-
1 TTTTTTTCTTTTTTTTCTTTTTT-TCTTA
*
4472774 TTTTTTTATTTTTTTTCTTTTTTTCTTCA
1 TTTTTTTCTTTTTTTTCTTTTTTTCTT-A
4472803 TTTTTTTCTT
1 TTTTTTTCTT
4472813 CAAGCATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
27 4 0.11
28 22 0.63
29 9 0.26
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (28 bp):
TTTTTTTCTTTTTTTTCTTTTTTTCTTA
Found at i:4472779 original size:20 final size:19
Alignment explanation
Indices: 4472745--4472812 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
4472735 TTGACCCCCC
4472745 CTTTTTTTC--TTTTTTTT
1 CTTTTTTTCTTTTTTTTTT
4472762 CTTTTTTCTCTTTTTTTTTAT
1 CTTTTTT-TCTTTTTTTTT-T
*
4472783 -TTTTTTTCTTTTTTTCTT
1 CTTTTTTTCTTTTTTTTTT
4472801 CATTTTTTTCTT
1 C-TTTTTTTCTT
4472813 CAAGCATAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
17 7 0.16
18 3 0.07
19 10 0.23
20 23 0.52
21 1 0.02
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (19 bp):
CTTTTTTTCTTTTTTTTTT
Found at i:4472806 original size:12 final size:12
Alignment explanation
Indices: 4472763--4472814 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 12
4472753 CTTTTTTTTC
4472763 TTTTTTC-TC-T
1 TTTTTTCTTCAT
4472773 TTTTTT-TT-A-
1 TTTTTTCTTCAT
4472782 TTTTTT-TTC-T
1 TTTTTTCTTCAT
4472792 TTTTTTCTTCAT
1 TTTTTTCTTCAT
4472804 TTTTTTCTTCA
1 TTTTTTCTTCA
4472815 AGCATAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
9 8 0.22
10 13 0.36
11 3 0.08
12 12 0.33
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTTCTTCAT
Found at i:4472809 original size:1 final size:1
Alignment explanation
Indices: 4472746--4472797 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
4472736 TGACCCCCCC
* * * * * *
4472746 TTTTTTTCTTTTTTTTCTTTTTTCTCTTTTTTTTTATTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4472798 CTTCATTTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:4485584 original size:11 final size:10
Alignment explanation
Indices: 4485554--4485594 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 10
4485544 GGGCTTTGTA
4485554 ATTTAATATT
1 ATTTAATATT
4485564 ATTTATATATGT
1 ATTTA-ATAT-T
4485576 ATTTAATATAT
1 ATTTAATAT-T
4485587 ATTTAATA
1 ATTTAATA
4485595 ATAATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 5 0.18
11 17 0.61
12 6 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
ATTTAATATT
Found at i:4485598 original size:3 final size:3
Alignment explanation
Indices: 4485590--4485675 Score: 118
Period size: 3 Copynumber: 28.7 Consensus size: 3
4485580 AATATATATT
* * *
4485590 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TTA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
4485638 TAG TAA TAA TAA TAA TTA TAA TAA CAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4485676 TTTATAATAT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4487992 original size:2 final size:2
Alignment explanation
Indices: 4487985--4488035 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
4487975 ACAGACTGAC
4487985 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4488027 TA TA TA TA T
1 TA TA TA TA T
4488036 TCAAAATTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4491284 original size:14 final size:14
Alignment explanation
Indices: 4491262--4491291 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
4491252 AAAGTTAAAG
4491262 AGAAAAAAAAGGAAA
1 AGAAAAAAAA-GAAA
4491277 AGAAAAAAAAGAAA
1 AGAAAAAAAAGAAA
4491291 A
1 A
4491292 TATAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAGAAA
Found at i:4491401 original size:22 final size:21
Alignment explanation
Indices: 4491360--4491402 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
4491350 TGAAAAAACG
*
4491360 TTAAGAAAAAATAAATAAATA
1 TTAACAAAAAATAAATAAATA
4491381 TTAACAAAGAAATCAAA-AAATA
1 TTAACAAA-AAAT-AAATAAATA
4491403 AGTAAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 9 0.47
23 3 0.16
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (21 bp):
TTAACAAAAAATAAATAAATA
Found at i:4492377 original size:16 final size:15
Alignment explanation
Indices: 4492352--4492381 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4492342 TGGTGAGGTC
4492352 GGTCGTCCCGGGATG
1 GGTCGTCCCGGGATG
4492367 GGTCAGTCCCGGGAT
1 GGTC-GTCCCGGGAT
4492382 TATCGGCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.10, C:0.27, G:0.43, T:0.20
Consensus pattern (15 bp):
GGTCGTCCCGGGATG
Found at i:4492584 original size:26 final size:26
Alignment explanation
Indices: 4492554--4492605 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
4492544 AAAATGAGAG
*
4492554 AAAAAAACGAAATTA-AATAAATAAATT
1 AAAAAAA-GAAATAATAAT-AATAAATT
4492581 AAAAAAAGAAATAATAATAATAAAT
1 AAAAAAAGAAATAATAATAATAAAT
4492606 ACCAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (26 bp):
AAAAAAAGAAATAATAATAATAAATT
Found at i:4492747 original size:34 final size:32
Alignment explanation
Indices: 4492675--4492753 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 32
4492665 AAAATTTTCC
*
4492675 AAAACTATATATATAGTTTCCAAAAATGATTTA
1 AAAAATAT-TATATAGTTTCCAAAAATGATTTA
* *
4492708 AAAAATATTATATGAGTTTTCAAAAATGTTTTTA
1 AAAAATATTATAT-AGTTTCCAAAAATG-ATTTA
*
4492742 TAAAATA-TATAT
1 AAAAATATTATAT
4492754 TATATAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
32 5 0.12
33 25 0.62
34 10 0.25
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (32 bp):
AAAAATATTATATAGTTTCCAAAAATGATTTA
Found at i:4492800 original size:42 final size:39
Alignment explanation
Indices: 4492712--4492838 Score: 136
Period size: 42 Copynumber: 3.3 Consensus size: 39
4492702 GATTTAAAAA
* * * *
4492712 ATATTATATGAGTTTTCAAAAA-TGTTTTTATAAAATAT
1 ATATTATATAATTTTTCAAAAATTCTTTTTATAAAACAT
4492750 ATATTATATAATTTTTCAAAAATTCTTTTTATTTAAAAGCAT
1 ATATTATATAATTTTTCAAAAATTCTTTTTA--TAAAA-CAT
* *
4492792 ATATTATATAATTTTTCAAAAA-T-GTTTTA-AGAACTAT
1 ATATTATATAATTTTTCAAAAATTCTTTTTATAAAAC-AT
4492829 ATATTATATA
1 ATATTATATA
4492839 TTTATTTTCA
Statistics
Matches: 78, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
36 1 0.01
37 15 0.19
38 20 0.26
39 7 0.09
40 5 0.06
41 6 0.08
42 24 0.31
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (39 bp):
ATATTATATAATTTTTCAAAAATTCTTTTTATAAAACAT
Found at i:4492865 original size:38 final size:38
Alignment explanation
Indices: 4492682--4492881 Score: 159
Period size: 38 Copynumber: 5.2 Consensus size: 38
4492672 TCCAAAACTA
* * *
4492682 TATATATAGTTTCCAAAAATGATTT-AAAA--A-ATAT
1 TATATATATTTTTCAAAAATGTTTTAAAAACTATATAT
* *
4492716 TATAT-GAGTTTTCAAAAATGTTTTTATAAAA-TATATAT
1 TATATATATTTTTCAAAAATG-TTTTA-AAAACTATATAT
*
4492754 TATATA-ATTTTTCAAAAATTCTTTTTATTTAAAAGC-ATATAT
1 TATATATATTTTTCAAAAA-T-GTTTTA---AAAA-CTATATAT
*
4492796 TATATA-ATTTTTCAAAAATGTTTTAAGAACTATATAT
1 TATATATATTTTTCAAAAATGTTTTAAAAACTATATAT
*
4492833 TATATATTTATTTTC-AAAATGTTTTAAAAACTATAATAT
1 TATATATAT-TTTTCAAAAATGTTTTAAAAACTAT-ATAT
4492872 ATATATATAT
1 -TATATATAT
4492882 ATATATATAT
Statistics
Matches: 139, Mismatches: 10, Indels: 28
0.79 0.06 0.16
Matches are distributed among these distances:
33 13 0.09
34 8 0.06
36 5 0.04
37 16 0.12
38 39 0.28
39 15 0.11
40 13 0.09
41 6 0.04
42 24 0.17
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (38 bp):
TATATATATTTTTCAAAAATGTTTTAAAAACTATATAT
Found at i:4492875 original size:2 final size:2
Alignment explanation
Indices: 4492864--4492899 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4492854 TTTTAAAAAC
4492864 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4492900 TTCCAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4492932 original size:58 final size:55
Alignment explanation
Indices: 4492826--4492934 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 55
4492816 TTTTAAGAAC
* *
4492826 TATATATTATATATTTATTTTCAAAATGTTTTAAAAACTATAATATATATATATA
1 TATATATTATATATATATTTCCAAAATGTTTTAAAAACTATAATATATATATATA
4492881 TATATATATATATATATATTTCCAAAAATCGTTTTCAAAACAAC-ATAATATATA
1 TATATAT-TATATATATATTTCC-AAAAT-GTTTT--AAA-AACTATAATATATA
4492935 CATCTTCGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
55 7 0.15
56 13 0.28
57 5 0.11
58 5 0.11
60 13 0.28
61 3 0.07
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (55 bp):
TATATATTATATATATATTTCCAAAATGTTTTAAAAACTATAATATATATATATA
Found at i:4492973 original size:40 final size:38
Alignment explanation
Indices: 4492883--4492973 Score: 94
Period size: 38 Copynumber: 2.3 Consensus size: 38
4492873 TATATATATA
*
4492883 TATATATATATATATATTTCCAAAAATCGTTTTCAAAAC
1 TATATAT-TATATACATTTCCAAAAATCGTTTTCAAAAC
* * * *
4492922 AACATAATATATACATCTT-CGAAAATCGTTTTCTGAAAAC
1 TATATATTATATACAT-TTCCAAAAATCGTTTTC--AAAAC
4492962 TATATATTATAT
1 TATATATTATAT
4492974 CTGTTTAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
38 21 0.51
39 6 0.15
40 14 0.34
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (38 bp):
TATATATTATATACATTTCCAAAAATCGTTTTCAAAAC
Found at i:4493694 original size:81 final size:81
Alignment explanation
Indices: 4493545--4494925 Score: 786
Period size: 81 Copynumber: 16.9 Consensus size: 81
4493535 GGTGTCATCG
* * * * * * * *
4493545 AGCTGAATGGAATCGAACTCGACA-AT-TTTATTGACAGATAGCCCTTCTTGCCTTGAGCTATGC
1 AGCTGAGTGTAATCGAACTCGA-AGGTCTTT-TTGGCAGATAACCCTTCTAGCCTTGAGTTATAC
* * *
4493608 TGTAAATGATATACCTTGG
64 TGCAAATGATATGCCTT-A
* * * * ** *
4493627 AGCTGAGCGTAGTCGAACTCGAAGGT-TTTTTTGCAGAGAACCCTTCTAGCCTTGAGCCATACCG
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTG
* * * *
4493691 TAAATGATATATCGTTG
66 CAAATGATAT-GCCTTA
* * * *
4493708 AGTTGAGTGTAATC-AGACTCAAAGGTCTTTGTTGGCAGATAACTCTTATAGCCTTGAGTTATAC
1 AGCTGAGTGTAATCGA-ACTCGAAGGTCTTT-TTGGCAGATAACCCTTCTAGCCTTGAGTTATAC
* *
4493772 TGCAAATGATGTGCCCTCAA
64 TGCAAATGATATG-CCT-TA
* * * * * *
4493792 AGCTGAGTGTAATCAAACTTGAGGGTC--TTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCG
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTG
*
4493855 CAAATGATATGCCGTTG
66 CAAATGATATGCC-TTA
* * * *
4493872 AGTTGAGTGTAATCGAACTCAAAGGTCTTTATTAGCAGATAACCCTTCTAGCCTTGAGTTATGCT
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTT-TTGGCAGATAACCCTTCTAGCCTTGAGTTATACT
* *
4493937 GCAAATGATGTGCCCTCAA
65 GCAAATGATATG-CCT-TA
* * * **
4493956 AGCTGAGTGTAATTGAACTCGAGGGTC--TTTGGCAGATAGCCCTTCTAGCCTTGAGTTATACCA
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTG
*
4494019 CAAATGATGTGCCATTGA
66 CAAATGATATGCC-TT-A
* *
4494037 A-TTGAGTGTAATCGAACTC-AAGGTCTTTGTT-GCAGATAACCCTTCTAGCCTTGAGTTATGCT
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTT-TTGGCAGATAACCCTTCTAGCCTTGAGTTATACT
* * *
4494099 GCAAATGATGTACCCTCAA
65 GCAAATGATAT-GCCT-TA
* * * * * * *
4494118 AGTTGAGTGTAATCGAACTCG-AGTGTC--TTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCT
1 AGCTGAGTGTAATCGAACTCGAAG-GTCTTTTTGGCAGATAACCCTTCTAGCCTTGAGTTATACT
* *
4494180 GCAAATAATGTGCCTTTA
65 GCAAATGATATGCC-TTA
* * * * * * * * *
4494198 AGCTGAGCGTAGTTGAACTCGCAGGTC--TTTGGCAGATAGCCCTTTTCGACTTAAGTTATACTG
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTG
* *
4494261 TAAATG--AT-CTTTA
66 CAAATGATATGCCTTA
** * * *
4494274 AGCTGAGCATAGTCGAACTCGAAGGTCTTTTAGTGACAGATAACCCTTCTAGCCTTGAGTTATGC
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTT--TGGCAGATAACCCTTCTAGCCTTGAGTTATAC
* *
4494339 TGTAAATGATATGCCTCTG
64 TGCAAATGATATGCCT-TA
* * * * * *
4494358 AGCTGAGCGTAGTCGAACTCAAAGGTC-TTTTGGTCACATATAACCCTTCTAGCCTTGGGTTATG
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTTTGG---CAGATAACCCTTCTAGCCTTGAGTTATA
* * * **
4494422 CTGTAAATGATGTTCCCACGA
63 CTGCAAATGAT-ATGCC-TTA
* * * * * * * * **
4494443 AGCTGAGTGTTATCGAACTTGAGGGTC--TTTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTG
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTG
* * *
4494506 CAAATGATGTACCTTGG
66 CAAATGATATGCCTT-A
* * * * * * * *
4494523 AGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGTTATGC
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTT--TTGGCAGATAACCCTTCTAGCCTTGAGTTATAC
* *
4494588 TGTAAATGATATGCCCTCGA
64 TGCAAATGATATG-CCT-TA
* ** * * * * * * *
4494608 AGCTGAGTGTAATCGAACTTG-AGGAT-TTTTT-ATATATAGCCCTTCTCGACTTAAGCTATGCT
1 AGCTGAGTGTAATCGAACTCGAAGG-TCTTTTTGGCAGATAACCCTTCTAGCCTTGAGTTATACT
*
4494670 GCAAATGA-AGTGCCTTGG
65 GCAAATGATA-TGCCTT-A
* * * * * * *
4494688 AGCTGAGCGTAGTCAAACTCGAAGGTATTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTATGC
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTT--TGGCAGATAACCCTTCTAGCCTTGAGTTATAC
** * *
4494753 TATAAATGATGTGCCCTCGA
64 TGCAAATGATATG-CCT-TA
* * * * * * * * *
4494773 AGCTGAGTATAATCGAACTTGAGGGTC--TTTGGCATATAGA-CCTTCTCGACATAAGTTATGCT
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTTTTGGCAGATA-ACCCTTCTAGCCTTGAGTTATACT
* *
4494835 GCAAATGATGTGCCTTGG
65 GCAAATGATATGCCTT-A
** * * * * * *
4494853 AGCTGAGCATAGTCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGC
1 AGCTGAGTGTAATCGAACTCGAAGGTCTTT--TTGGCAGATAACCCTTCTAGCCTTGAGTTATAC
4494918 TGCAAATG
64 TGCAAATG
4494926 TTATCTTAAA
Statistics
Matches: 1029, Mismatches: 205, Indels: 128
0.76 0.15 0.09
Matches are distributed among these distances:
76 27 0.03
77 1 0.00
78 3 0.00
79 5 0.00
80 209 0.20
81 334 0.32
82 62 0.06
83 91 0.09
84 228 0.22
85 69 0.07
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (81 bp):
AGCTGAGTGTAATCGAACTCGAAGGTCTTTTTGGCAGATAACCCTTCTAGCCTTGAGTTATACTG
CAAATGATATGCCTTA
Found at i:4493873 original size:164 final size:163
Alignment explanation
Indices: 4493579--4494925 Score: 1199
Period size: 165 Copynumber: 8.2 Consensus size: 163
4493569 ATTTTATTGA
* * * * * *** * *
4493579 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATGATAT-ACCTTGGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCGA
* * * * * * * * * * *
4493643 ACTCGAAGGTTTTTTTGCAGAGAACCCTTCTAGCCTTGAGCCATACCGTAAATGATATATCGTTG
66 ACTTG-AGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATAT-GCCTTG
* *
4493708 AGTTGAGTGTAATC-AGACTCAAAGGTCTTTGTTGG
129 AGTTGAGCGTAGTCGA-ACTCAAAGGTCTTTGTTGG
* * * * *
4493743 CAGATAACTCTTATAGCCTTGAGTTATACTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATCAA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCGA
*
4493808 ACTTGAGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACCGCAAATGATATGCCGTTGA
66 ACTTGAGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATATGCC-TTGA
* * * *
4493873 GTTGAGTGTAATCGAACTCAAAGGTCTTTATTAG
130 GTTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGG
* *
4493907 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCAAAGCTGAGTGTAATTGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCGA
* * ** *
4493972 ACTCGAGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGTTATACCACAAATGATGTGCCATTGA
66 ACTTGAGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATATGCC-TTGA
* * *
4494037 ATTGAGTGTAATCGAACTC-AAGGTCTTTGTT-G
130 GTTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGG
* * *
4494069 CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTACCCTCAAAGTTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCGA
* * * * * * * * *
4494134 ACTCGAGTGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATAATGTGCCTTTAA
66 ACTTGAGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATATGCC-TTGA
* * **
4494199 GCTGAGCGTAGTTGAACTCGCAGGTC--T-TTGG
130 GTTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGG
* * * * * * ** ** *
4494230 CAGATAGCCCTTTTCGACTTAAGTTATACTGTAAATGA--T---CTTTAAGCTGAGCATAGTCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCGA
* * * * * *
4494290 ACTCGAAGGTCTTTTAGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCT
66 ACTTGAGGGTC-TTT-G-G-CAGATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATATGCCT
* * **
4494355 CTGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGGTCA
127 -TGAGTTGAGCGTAGTCGAACTCAAAGGTC-TTTGTTGG
* * * * * *
4494394 CATATAACCCTTCTAGCCTTGGGTTATGCTGTAAATGATGTTCCCACGAAGCTGAGTGTTATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCGA
* * * ** * *
4494459 ACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTACCTTGGA
66 ACTTGAGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATATGCCTT-GA
*
4494524 GTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGG
130 GTTGAGCGTAGTCGAACTCAAAGGTCTTT-GTTGG
* * * * * *
4494559 CAAATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCGA
* * *** * * * * *
4494624 ACTTGAGGATTTTTTATATATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA-AGTGCCTTGG
66 ACTTGAGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATA-TGCCTT-G
* * * * * *
4494688 AGCTGAGCGTAGTCAAACTCGAAGGTATTTTGGTGA
129 AGTTGAGCGTAGTCGAACTCAAAGGT-CTTTGTTGG
* * * *
4494724 CAAATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGAGTATAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCGA
* * * * * * * * *
4494789 ACTTGAGGGTCTTTGGCATATAGACCTTCTCGACATAAGTTATGCTGCAAATGATGTGCCTTGGA
66 ACTTGAGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATATGCCTT-GA
* * * *
4494854 GCTGAGCATAGTCGAACTCGAAGGTATTTGGTTGG
130 GTTGAGCGTAGTCGAACTCAAAGGTCTTT-GTTGG
* * * *
4494889 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
4494926 TTATCTTAAA
Statistics
Matches: 988, Mismatches: 170, Indels: 49
0.82 0.14 0.04
Matches are distributed among these distances:
156 24 0.02
157 3 0.00
158 1 0.00
159 3 0.00
160 62 0.06
161 33 0.03
162 131 0.13
163 18 0.02
164 288 0.29
165 393 0.40
166 5 0.01
167 1 0.00
168 3 0.00
169 23 0.02
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (163 bp):
CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCAAAGCTGAGTGTAATCGA
ACTTGAGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACTGCAAATGATATGCCTTGAG
TTGAGCGTAGTCGAACTCAAAGGTCTTTGTTGG
Found at i:4494533 original size:165 final size:163
Alignment explanation
Indices: 4493724--4494925 Score: 1220
Period size: 165 Copynumber: 7.3 Consensus size: 163
4493714 GTGTAATCAG
* * * * * * *
4493724 ACTCAAAGGTCTTTGTTGGCAGATAACTCTTATAGCCTTGAGTTATACTGCAAATGATGTGCCCT
1 ACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCT
* * * * * *
4493789 CAAAGCTGAGTGTAATCAAACTTGAGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGCTATACC
66 CAAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
* * * *
4493854 GCAAATGATATGCCGTTGAGTTGAGTGTAATCGA
131 GCAAATGATGTGCC-TTGAGCTGAGCGTAGTCGA
* * * *
4493888 ACTCAAAGGTCTTT-ATTAGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCC
1 ACTCGAAGGTCTTTGGTGA-CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCC
* * * * * * *
4493952 TCAAAGCTGAGTGTAATTGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTAGCCTTGAGTTATAC
65 TCAAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
** ** * *
4494017 CACAAATGATGTGCCATTGAATTGAGTGTAATCGA
130 TGCAAATGATGTGCC-TTGAGCTGAGCGTAGTCGA
* * *
4494052 ACTC-AAGGTCTTTGTTG-CAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTACCCT
1 ACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCT
* * * *
4494115 CAAAGTTGAGTGTAATCGAACTCGAGTGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCT
66 CAAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
* * *
4494180 GCAAATAATGTGCCTTTAAGCTGAGCGTAGTTGA
131 GCAAATGATGTGCC-TTGAGCTGAGCGTAGTCGA
* * * * * * *
4494214 ACTCGCAGGTCTTT-G-G-CAGATAGCCCTTTTCGACTTAAGTTATACTGTAAATGA--T---CT
1 ACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCT
** ** * * * * * * * *
4494271 TTAAGCTGAGCATAGTCGAACTCGAAGGTCTTTTAGTGACAGATAACCCTTCTAGCCTTGAGTTA
66 CAAAGCTGAGTGTAATCGAACTTGAGGGTC-TTT-G-G-CAGATAGCCCTTCTCGACTTAAGCTA
* *
4494336 TGCTGTAAATGATATGCCTCTGAGCTGAGCGTAGTCGA
127 TGCTGCAAATGATGTGCCT-TGAGCTGAGCGTAGTCGA
* * * * *
4494374 ACTCAAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGGGTTATGCTGTAAATGATGTTCCC
1 ACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCC
* * * *
4494439 ACGAAGCTGAGTGTTATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGT
65 TCAAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
* *
4494504 TGCAAATGATGTACCTTGGAGTTGAGCGTAGTCGA
130 TGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGA
* * * * * *
4494539 ACTCGAAGGTCTTTGGTTGGCAAATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATATGCCC
1 ACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCC
* * * *** *
4494604 TCGAAGCTGAGTGTAATCGAACTTGAGGATTTTTTATATATAGCCCTTCTCGACTTAAGCTATGC
65 TCAAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
* *
4494669 TGCAAATGAAGTGCCTTGGAGCTGAGCGTAGTCAA
130 TGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGA
* * *
4494704 ACTCGAAGGTATTTTGGTGACAAATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCC
1 ACTCGAAGGT-CTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCC
* * * * * *
4494769 TCGAAGCTGAGTATAATCGAACTTGAGGGTCTTTGGCATATAGACCTTCTCGACATAAGTTATGC
65 TCAAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
*
4494834 TGCAAATGATGTGCCTTGGAGCTGAGCATAGTCGA
130 TGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGA
* * * * * *
4494869 ACTCGAAGGTATTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
1 ACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATG
4494926 TTATCTTAAA
Statistics
Matches: 874, Mismatches: 143, Indels: 41
0.83 0.14 0.04
Matches are distributed among these distances:
156 24 0.03
157 3 0.00
158 1 0.00
159 3 0.00
160 60 0.07
161 35 0.04
162 131 0.15
163 18 0.02
164 194 0.22
165 371 0.42
166 7 0.01
167 1 0.00
168 3 0.00
169 23 0.03
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (163 bp):
ACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCT
CAAAGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
GCAAATGATGTGCCTTGAGCTGAGCGTAGTCGA
Found at i:4496249 original size:95 final size:95
Alignment explanation
Indices: 4496081--4496262 Score: 269
Period size: 95 Copynumber: 1.9 Consensus size: 95
4496071 ATATATAAAC
* * * *
4496081 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCTAGGGCGTTTAACCTATTGCCTTAGAGGG
1 ACCTTTATCAAGCTAGCTGAATATTATCCATAAAGCTAGGGCGTTTAACCAATTGCCTTAGAGGG
* *
4496146 ACAGCTCAAGCTTTATTGTATAGTAAAATT
66 ACAACTCAAGCTTTACTGTATAGTAAAATT
*
4496176 ACCTTTATCAAGCTAGCTGAATATTATCCATAAAGC-CGGAGCGTTTAACCAATTG-CTCTAGAG
1 ACCTTTATCAAGCTAGCTGAATATTATCCATAAAGCTAGG-GCGTTTAACCAATTGCCT-TAGAG
4496239 GGACAACTCAAGCTTTACTGTATA
64 GGACAACTCAAGCTTTACTGTATA
4496263 TATATAATAT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
94 4 0.05
95 74 0.95
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (95 bp):
ACCTTTATCAAGCTAGCTGAATATTATCCATAAAGCTAGGGCGTTTAACCAATTGCCTTAGAGGG
ACAACTCAAGCTTTACTGTATAGTAAAATT
Found at i:4499070 original size:21 final size:21
Alignment explanation
Indices: 4499043--4499093 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
4499033 ATGAAAATGA
*
4499043 AAAAAATATTAAGAAAAAAT-
1 AAAAAATATTAACAAAAAATC
4499063 AAATAAATATTAACAAAGAAATC
1 AAA-AAATATTAACAAA-AAATC
4499086 AAAAAATA
1 AAAAAATA
4499094 AGTAAAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 3 0.11
21 12 0.44
22 9 0.33
23 3 0.11
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAAAATATTAACAAAAAATC
Found at i:4500246 original size:3 final size:3
Alignment explanation
Indices: 4500238--4500284 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
4500228 ATAAATAAAA
**
4500238 AAT AAT AAT AAT AAT AAT AAAT ACC AAT AAT -AT AAT AAT ATAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A-AT AAT
4500284 A
1 A
4500285 TATACATTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4500259 original size:30 final size:33
Alignment explanation
Indices: 4500223--4500284 Score: 85
Period size: 30 Copynumber: 1.9 Consensus size: 33
4500213 AATGAAATTA
4500223 AATAAATA-AATAA-AAAATAATA-ATAATAAT
1 AATAAATACAATAATAAAATAATATATAATAAT
*
4500253 AATAAATACCAATAATATAATAATATATAATA
1 AATAAATA-CAATAATAAAATAATATATAATA
4500285 TATACATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 8 0.30
32 5 0.19
33 8 0.30
34 6 0.22
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (33 bp):
AATAAATACAATAATAAAATAATATATAATAAT
Found at i:4500378 original size:36 final size:37
Alignment explanation
Indices: 4500312--4500543 Score: 176
Period size: 38 Copynumber: 6.2 Consensus size: 37
4500302 TTTTTTAACT
* * *
4500312 TTATATTATTTTTCTAAAAAT-TTTCCAAAAACTATATA
1 TTATATAAGTTTTC-AAAAATGTTT-TAAAAACTATATA
* *
4500350 TTATAT-AGTTTCCAAAAATGATTT-AAAA--A-ATA
1 TTATATAAGTTTTCAAAAATGTTTTAAAAACTATATA
* *
4500382 TTATATGAGTTTTCAAAAATGTTTTTAAAAAATATATA
1 TTATATAAGTTTTCAAAAATG-TTTTAAAAACTATATA
* *
4500420 TTATATAATTTTTCAAAAATGTTTTTTATTTAAAACCATATA
1 TTATATAAGTTTTCAAAAATG--TTTTA---AAAACTATATA
* *
4500462 TTATATAATTTTTCAAAACTGTTTTAAAAAACTATTATA
1 TTATATAAGTTTTCAAAAATGTTTT-AAAAACTA-TATA
* *
4500501 TTATATTA--TTTC-AAAGTGTTTTAAAAACTATAATA
1 TTATATAAGTTTTCAAAAATGTTTTAAAAACTAT-ATA
4500536 TATATATA
1 T-TATATA
4500544 TATATATATA
Statistics
Matches: 164, Mismatches: 15, Indels: 32
0.78 0.07 0.15
Matches are distributed among these distances:
32 9 0.05
33 14 0.09
34 4 0.02
35 20 0.12
36 20 0.12
37 12 0.07
38 34 0.21
39 17 0.10
40 4 0.02
41 1 0.01
42 29 0.18
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (37 bp):
TTATATAAGTTTTCAAAAATGTTTTAAAAACTATATA
Found at i:4500399 original size:33 final size:33
Alignment explanation
Indices: 4500347--4500420 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
4500337 CAAAAACTAT
4500347 ATATTATATAGTTTCCAAAAATG-ATTTAAAAA
1 ATATTATATAGTTTCCAAAAATGTATTTAAAAA
* *
4500379 ATATTATATGAGTTTTCAAAAATGTTTTTAAAAA
1 ATATTATAT-AGTTTCCAAAAATGTATTTAAAAA
4500413 ATA-TATAT
1 ATATTATAT
4500421 TATATAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 9 0.24
33 18 0.47
34 11 0.29
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (33 bp):
ATATTATATAGTTTCCAAAAATGTATTTAAAAA
Found at i:4500473 original size:42 final size:39
Alignment explanation
Indices: 4500379--4500511 Score: 146
Period size: 42 Copynumber: 3.4 Consensus size: 39
4500369 GATTTAAAAA
* * *
4500379 ATATTATATGAGTTTTCAAAAATG-TTTTTAAAAAATAT
1 ATATTATATAATTTTTCAAAAATGTTTTTTAAAAAACAT
*
4500417 ATATTATATAATTTTTCAAAAATGTTTTTTATTTAAAACCAT
1 ATATTATATAATTTTTCAAAAATGTTTTTTA---AAAAACAT
*
4500459 ATATTATATAATTTTTCAAAACTG--TTTTAAAAAACTATT
1 ATATTATATAATTTTTCAAAAATGTTTTTTAAAAAAC-A-T
*
4500498 ATATTATATTATTT
1 ATATTATATAATTT
4500512 CAAAGTGTTT
Statistics
Matches: 82, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
37 5 0.06
38 23 0.28
39 20 0.24
40 5 0.06
42 29 0.35
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (39 bp):
ATATTATATAATTTTTCAAAAATGTTTTTTAAAAAACAT
Found at i:4500540 original size:2 final size:2
Alignment explanation
Indices: 4500529--4500564 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4500519 TTTTAAAAAC
4500529 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4500565 TTCCAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4503471 original size:27 final size:27
Alignment explanation
Indices: 4503435--4503519 Score: 73
Period size: 28 Copynumber: 3.1 Consensus size: 27
4503425 GTATAGTTTA
4503435 AGTACATATTTTGACATAAAATACTTT
1 AGTACATATTTTGACATAAAATACTTT
* * *
4503462 AGTACCTATTCTGAC-TAAAAATAACTTA
1 AGTACATATTTTGACAT-AAAAT-ACTTT
** * *
4503490 AGTATTTATTTTGACTAAAAAATAATTT
1 AGTACATATTTTGAC-ATAAAATACTTT
4503518 AG
1 AG
4503520 GTACTTAAAT
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.02
27 18 0.40
28 21 0.47
29 5 0.11
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (27 bp):
AGTACATATTTTGACATAAAATACTTT
Found at i:4507653 original size:18 final size:18
Alignment explanation
Indices: 4507630--4507668 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4507620 AGATGTTTAC
*
4507630 TTAAATTTTAATTGATAA
1 TTAAATTATAATTGATAA
* *
4507648 TTAAATTATATTTTATAA
1 TTAAATTATAATTGATAA
4507666 TTA
1 TTA
4507669 GCGACGTGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTAAATTATAATTGATAA
Found at i:4517465 original size:27 final size:27
Alignment explanation
Indices: 4517427--4517482 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
4517417 TCTTCTGTTT
4517427 GTCTCTAAATTTACACAAGAAAATCAA
1 GTCTCTAAATTTACACAAGAAAATCAA
4517454 GTCTCTAAATTTACACAAGAAAATCAA
1 GTCTCTAAATTTACACAAGAAAATCAA
4517481 GT
1 GT
4517483 TCTTATTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.27
Consensus pattern (27 bp):
GTCTCTAAATTTACACAAGAAAATCAA
Found at i:4518732 original size:15 final size:15
Alignment explanation
Indices: 4518708--4518747 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4518698 ATCCATCACA
* *
4518708 TTCATTTTCACAAAT
1 TTCATCTTCACAAAG
4518723 TTCATCTTCACAAAG
1 TTCATCTTCACAAAG
*
4518738 TCCATCTTCA
1 TTCATCTTCA
4518748 TCTCATTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.40
Consensus pattern (15 bp):
TTCATCTTCACAAAG
Found at i:4518884 original size:24 final size:24
Alignment explanation
Indices: 4518857--4518912 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
4518847 TACCACAGGT
*
4518857 TCCATCTCACTCACCTTCACAAAA
1 TCCATCTCACTCACCATCACAAAA
* * *
4518881 TCCATCACACTTACCATCACAAAT
1 TCCATCTCACTCACCATCACAAAA
*
4518905 TTCATCTC
1 TCCATCTC
4518913 CATAAATACC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.39, G:0.00, T:0.29
Consensus pattern (24 bp):
TCCATCTCACTCACCATCACAAAA
Found at i:4518961 original size:15 final size:15
Alignment explanation
Indices: 4518943--4518972 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4518933 TCCTTTACAA
*
4518943 TCATAGATTCTATCT
1 TCATAAATTCTATCT
4518958 TCATAAATTCTATCT
1 TCATAAATTCTATCT
4518973 CCGTGTACTT
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:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (15 bp):
TCATAAATTCTATCT
Found at i:4522489 original size:22 final size:21
Alignment explanation
Indices: 4522441--4522482 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4522431 TTATTGTTTC
* *
4522441 AATTTTTTAAGTATTATTAAT
1 AATTTTTTAAGAATAATTAAT
4522462 AATTTTTTAA-AATAATTAAT
1 AATTTTTTAAGAATAATTAAT
4522482 A
1 A
4522483 TCATTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
AATTTTTTAAGAATAATTAAT
Found at i:4523882 original size:25 final size:25
Alignment explanation
Indices: 4523846--4523900 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
4523836 TCATATTGGA
* *
4523846 AGTACTATAAGATTGTCCTCACTTC
1 AGTACTAGAAGATTGTCATCACTTC
4523871 AGTACTAGAAGATTGTCATCACTTC
1 AGTACTAGAAGATTGTCATCACTTC
4523896 AGTAC
1 AGTAC
4523901 AGATTTCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (25 bp):
AGTACTAGAAGATTGTCATCACTTC
Found at i:4526992 original size:11 final size:11
Alignment explanation
Indices: 4526976--4527010 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
4526966 AAAAATAGTA
4526976 AATTAAATAAT
1 AATTAAATAAT
4526987 AATTAAATAAT
1 AATTAAATAAT
4526998 AATTAAATAAT
1 AATTAAATAAT
4527009 AA
1 AA
4527011 ACTATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
AATTAAATAAT
Found at i:4529563 original size:21 final size:21
Alignment explanation
Indices: 4529521--4529563 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
4529511 TTAGTAAAAA
* *
4529521 TTATCTAAAATATTATTATTT
1 TTATCTAAAACATAATTATTT
4529542 TTATCTAAAACATCAATT-TTT
1 TTATCTAAAACAT-AATTATTT
4529563 T
1 T
4529564 AATATATCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATCTAAAACATAATTATTT
Found at i:4534112 original size:14 final size:14
Alignment explanation
Indices: 4534070--4534112 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
4534060 GATCTTATAG
4534070 ATTTAAATAATATATT
1 ATTTAAAT-ATA-ATT
*
4534086 TTTATAAATATAATT
1 ATT-TAAATATAATT
4534101 ATTTAAATATAA
1 ATTTAAATATAA
4534113 CTTTTACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 9 0.38
15 5 0.21
16 5 0.21
17 5 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTAAATATAATT
Found at i:4541245 original size:13 final size:13
Alignment explanation
Indices: 4541227--4541258 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
4541217 GATTAATTAA
4541227 ACAAGAAAACAAT
1 ACAAGAAAACAAT
4541240 ACAAGAAAACAAT
1 ACAAGAAAACAAT
4541253 A-AAGAA
1 ACAAGAA
4541259 TAACCATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.72, C:0.12, G:0.09, T:0.06
Consensus pattern (13 bp):
ACAAGAAAACAAT
Found at i:4545459 original size:78 final size:80
Alignment explanation
Indices: 4545341--4545507 Score: 248
Period size: 78 Copynumber: 2.1 Consensus size: 80
4545331 TATTGACACC
* * *
4545341 TTAAATCTTAATTTTATTTTTATTTAAAATCACCTAAAATTTTATAAATATAATATTGAATACTT
1 TTAAATCTTAATTTTATTTTTATTGAAAAGCACCTAAAATTTTATAAATATAATATTAAATACTT
4545406 TAA-ATTTTTATTAT
66 TAATATTTTTATTAT
* * *
4545420 TTAAATCTTAATTTT-TTTTTATTGAAAAGCACCTCAAATTTTATCAATATATTATTAAATACTT
1 TTAAATCTTAATTTTATTTTTATTGAAAAGCACCTAAAATTTTATAAATATAATATTAAATACTT
*
4545484 TAATTTTTTTATTAT
66 TAATATTTTTATTAT
4545499 TTAATATCT
1 TTAA-ATCT
4545508 ATCATCTGTT
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
78 46 0.58
79 29 0.37
80 4 0.05
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (80 bp):
TTAAATCTTAATTTTATTTTTATTGAAAAGCACCTAAAATTTTATAAATATAATATTAAATACTT
TAATATTTTTATTAT
Found at i:4549715 original size:16 final size:16
Alignment explanation
Indices: 4549694--4549726 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4549684 TAATAAATAA
4549694 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4549710 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
4549726 A
1 A
4549727 AAATTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:4549817 original size:16 final size:16
Alignment explanation
Indices: 4549796--4549858 Score: 99
Period size: 16 Copynumber: 3.9 Consensus size: 16
4549786 TAATAAATAA
4549796 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
4549812 ACGAACATAAACAAAC
1 ACGAACATAAACGAAC
*
4549828 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
4549844 ACAAACATAAACGAA
1 ACGAACATAAACGAA
4549859 TATCAACGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.60, C:0.22, G:0.10, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:4550873 original size:24 final size:24
Alignment explanation
Indices: 4550845--4550895 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
4550835 GATTGGGTTA
4550845 AACATAAAT-GAAAGAACATAAACG
1 AACAT-AATCGAAAGAACATAAACG
* *
4550869 AACATAATCGAACGAACATAACCG
1 AACATAATCGAAAGAACATAAACG
4550893 AAC
1 AAC
4550896 GAACATAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.57, C:0.20, G:0.12, T:0.12
Consensus pattern (24 bp):
AACATAATCGAAAGAACATAAACG
Found at i:4550882 original size:14 final size:14
Alignment explanation
Indices: 4550865--4550910 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
4550855 AAAGAACATA
*
4550865 AACGAACATAATCG
1 AACGAACATAACCG
4550879 AACGAACATAACCG
1 AACGAACATAACCG
4550893 AACGAACATAACCG
1 AACGAACATAACCG
4550907 AACG
1 AACG
4550911 TTCACGAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.50, C:0.26, G:0.15, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:4569098 original size:33 final size:33
Alignment explanation
Indices: 4569061--4569124 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
4569051 AGTAGCAGTA
* * *
4569061 ATGATGCTCCTATAAGCAGGTTAAGTATTAGAG
1 ATGATGCCCCTACAAGCAGGTCAAGTATTAGAG
* *
4569094 ATGATGCCCCTGCAAGCTGGTCAAGTATTAG
1 ATGATGCCCCTACAAGCAGGTCAAGTATTAG
4569125 GGAAAATGCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (33 bp):
ATGATGCCCCTACAAGCAGGTCAAGTATTAGAG
Found at i:4570170 original size:201 final size:197
Alignment explanation
Indices: 4569819--4570889 Score: 735
Period size: 201 Copynumber: 5.4 Consensus size: 197
4569809 GAAACTCATA
* * * **
4569819 AATGTTGCGAGGGGTGAATTGGATATAAGAAACATGACTAGTCCAGTGACCCCTACATCAAGTTT
1 AATGTTGCGAGGGATGAACTGGATATGAG-AACATGACTAGTCCAGTGACCATTACATCAAGTTT
** * * * * *
4569884 CTCTGAAGCAATAAGTTCAACACCAAATGTTTCGGATTATTCAGGTGACAAAGGAGTAGATGGTA
65 CTCTGAAGCTTTAAGTT---CACCAAATGTTTCGGATTATTCTGGTGTCAAAGAAGTGGATGTTA
* * * * *
4569949 GGAACTCTATTCCTTCTGGTGTTAAAGAAATGGATACTAG-GCACTGCATTTCCTCGTCTCCAGA
127 GGAACTCCATTCCCTCTGGTGTTAAAGAAATGGATA-TAGTGAACTCCATTTCCTCATCTCCAGA
4570013 ACACATG
191 ACACATG
* * * ** *
4570020 AATGTTGTGAGGGATGAACTGGATATGAGAACCATTACTAGTCCAGTGGCCATTATTTCAAGTTG
1 AATGTTGCGAGGGATGAACTGGATATGAGAA-CATGACTAGTCCAGTGACCATTACATCAAGTTT
* * * ** *
4570085 CTCTGAAGCTTTAAGCTCAAGGCCAAATGTTTTGGATTATTCCGGTGTTGAAGAATTGGATGTTA
65 CTCTGAAGCTTTAAGTTC-A--CCAAATGTTTCGGATTATTCTGGTGTCAAAGAAGTGGATGTTA
* * *** *
4570150 GGAACTCCATTCACTCTGGTGTTAAAGAAATAGATGATAG-GAACTATGTTTCTTCATCTCCA-A
127 GGAACTCCATTCCCTCTGGTGTTAAAGAAATGGAT-ATAGTGAACTCCATTTCCTCATCTCCAGA
4570213 A-ACATG
191 ACACATG
* * * * * * *
4570219 TAAATGTTGCGACGGATGAACTGGATAAGAGAA-ACGGCCAGTCCTGTGACCATTGCATCAA-TT
1 --AATGTTGCGAGGGATGAACTGGATATGAGAACATGACTAGTCCAGTGACCATTACATCAAGTT
* * * * *
4570282 CCCCTGGAGTTTTAAGTTCACCAAATGTCTT-GGATTATTCTGGTGTC-AA-AA-TGGATGTTAT
64 TCTCTGAAGCTTTAAGTTCACCAAATGT-TTCGGATTATTCTGGTGTCAAAGAAGTGGATGTTAG
* *** * * *
4570343 GAACACCGCCCCCTCTTGTGTT-AAGAAATGGATATTGTGAACTCCATTTCTTCATCTCCAGAAC
128 GAACTCCATTCCCTCTGGTGTTAAAGAAATGGATATAGTGAACTCCATTTCCTCATCTCCAGAAC
* *
4570407 CCATA
193 ACATG
* * * * * ** *
4570412 AATGTTGTGAGGGGTGAACTGGGTATGAGAA-ATTTGACTAGACCAGTGGCTGTTATATCAAGTT
1 AATGTTGCGAGGGATGAACTGGATATGAGAACA--TGACTAGTCCAGTGACCATTACATCAAGTT
* * * ****
4570476 TCTCTGAAGCTTCAA---CACAAAATGTTTCGGCTTATTCTGGTGTCAAAGAAGTGGACAACAGG
64 TCTCTGAAGCTTTAAGTTCACCAAATGTTTCGGATTATTCTGGTGTCAAAGAAGTGGATGTTAGG
* * * * * * *
4570538 AACTCCGTTCCCTCCGGTATTCAACAAATGGATATTGTGAACTCCATTTCCTCATCTCCAGAACC
129 AACTCCATTCCCTCTGGTGTTAAAGAAATGGATATAGTGAACTCCATTTCCTCATCTCCAGAACA
*
4570603 CTTG
194 CATG
* * * * * * ** *
4570607 AATTTTGCGAGGGATGAATTGGATATGAGAAACGTGACTAGTCCAGCGACCCTTGCATCAAACTG
1 AATGTTGCGAGGGATGAACTGGATATGAG-AACATGACTAGTCCAGTGACCATTACATCAAGTTT
* * * * * * *
4570672 CTCCGAAGCTTCAAGTTCAACGCCAGATGTTTCAGATTATTCTGGTCTGAAAGAA-AGGATGTTA
65 CTCTGAAGCTTTAAGTTC-A--CCAAATGTTTCGGATTATTCTGGTGTCAAAGAAGTGGATGTTA
* * * * * * * * ** * *
4570736 GGCACTCAATGCCCT-TCGT-TATTAACAAATGAATACTAG-GAACACCATTTCCTGGTCTCTAA
127 GGAACTCCATTCCCTCTGGTGT-TAAAGAAATGGATA-TAGTGAACTCCATTTCCTCATCTCCAG
*
4570798 AACCCATTG
190 AACACA-TG
* * ** * * *
4570807 -ATGTTGTGAGAGATGAA-TTCAGTATGAGAACCATGACTAGTCCAGTGACCATTTCAACAAGCT
1 AATGTTGCGAGGGATGAACTGGA-TATGAGAA-CATGACTAGTCCAGTGACCATTACATCAAGTT
*
4570870 TCTCCGAAGCTTTAAGTTCA
64 TCTCTGAAGCTTTAAGTTCA
4570890 ACATCAGACT
Statistics
Matches: 679, Mismatches: 159, Indels: 67
0.75 0.18 0.07
Matches are distributed among these distances:
190 5 0.01
191 80 0.12
192 29 0.04
193 24 0.04
194 35 0.05
195 123 0.18
196 4 0.01
197 1 0.00
198 24 0.04
199 126 0.19
200 23 0.03
201 204 0.30
202 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (197 bp):
AATGTTGCGAGGGATGAACTGGATATGAGAACATGACTAGTCCAGTGACCATTACATCAAGTTTC
TCTGAAGCTTTAAGTTCACCAAATGTTTCGGATTATTCTGGTGTCAAAGAAGTGGATGTTAGGAA
CTCCATTCCCTCTGGTGTTAAAGAAATGGATATAGTGAACTCCATTTCCTCATCTCCAGAACACA
TG
Found at i:4572355 original size:17 final size:17
Alignment explanation
Indices: 4572297--4572355 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
4572287 TAATTAAAAC
*
4572297 TTATAATTTGT-T-TTT
1 TTATAATTTATATATTT
*
4572312 TTATAATATA-ATAGTTT
1 TTATAATTTATATA-TTT
*
4572329 TTATATTTTATATATTT
1 TTATAATTTATATATTT
4572346 TTATAATTTA
1 TTATAATTTA
4572356 GTTAATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 9 0.26
17 23 0.66
18 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTATAATTTATATATTT
Found at i:4572363 original size:18 final size:17
Alignment explanation
Indices: 4572297--4572365 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
4572287 TAATTAAAAC
*
4572297 TTATAATTTGTT--TTT
1 TTATAATTTATTAATTT
* * *
4572312 TTATAATATAATAGTTT
1 TTATAATTTATTAATTT
*
4572329 TTATATTTTA-TATATTT
1 TTATAATTTATTA-ATTT
4572346 TTATAATTTAGTTAATTT
1 TTATAATTTA-TTAATTT
4572364 TT
1 TT
4572366 TTTTATTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
15 9 0.21
16 2 0.05
17 23 0.55
18 6 0.14
19 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTATAATTTATTAATTT
Found at i:4572390 original size:22 final size:21
Alignment explanation
Indices: 4572338--4572395 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
4572328 TTTATATTTT
*
4572338 ATATATTTTTATAATTTAGTTA
1 ATATATTTTTAT-TTTTAGTTA
* *
4572360 ATTTTTTTTTATTTTTATGTTA
1 ATATATTTTTATTTTTA-GTTA
4572382 ATATATTTTATATT
1 ATATATTTT-TATT
4572396 GTCGACACCG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 4 0.14
22 21 0.72
23 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (21 bp):
ATATATTTTTATTTTTAGTTA
Found at i:4575130 original size:66 final size:65
Alignment explanation
Indices: 4575023--4575147 Score: 187
Period size: 66 Copynumber: 1.9 Consensus size: 65
4575013 TCTTGATTTT
* * * *
4575023 TGGAACTAAAAAGGGGGAAAAGAAAGGGAGAAAGGAGGAGAAGGTCACGCGTTTAATTTGATTAA
1 TGGAACTAAAAAGGGGAAAAAGAAAGGGAGAAAGAAGGAGAAGCTCACACGTTTAATTTGATTAA
* *
4575088 TGGAACTAGAAAATGGGAAAAAGAAAGGGAGAAAGAATGAGAAGCTCACACGTTTAATTT
1 TGGAACTA-AAAAGGGGAAAAAGAAAGGGAGAAAGAAGGAGAAGCTCACACGTTTAATTT
4575148 TTTTTCTCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
65 8 0.15
66 45 0.85
ACGTcount: A:0.45, C:0.07, G:0.30, T:0.18
Consensus pattern (65 bp):
TGGAACTAAAAAGGGGAAAAAGAAAGGGAGAAAGAAGGAGAAGCTCACACGTTTAATTTGATTAA
Found at i:4594572 original size:22 final size:21
Alignment explanation
Indices: 4594530--4594569 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4594520 GAGTTTGTTT
*
4594530 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4594551 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4594570 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4601844 original size:18 final size:17
Alignment explanation
Indices: 4601801--4601848 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
4601791 CAGTATGAGT
*
4601801 TTAATAACATATTTTTC
1 TTAATAAAATATTTTTC
*
4601818 TTAATAAAATATTTTTT
1 TTAATAAAATATTTTTC
*
4601835 TTTATAAAAATATT
1 TTAAT-AAAATATT
4601849 ATTAATGAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
TTAATAAAATATTTTTC
Found at i:4603645 original size:29 final size:29
Alignment explanation
Indices: 4603612--4603692 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
4603602 TTTTTTTAAT
4603612 ATTCTAATTTAATCTCTAAACTAC-GAATC
1 ATTCTAATTTAATCTCTAAACTACTGAA-C
* *
4603641 ATTCTAAATTAGTC-CTTAAACT-CTTGAAC
1 ATTCTAATTTAATCTC-TAAACTAC-TGAAC
* *
4603670 ATTCTAATTTCATCTCTATACTA
1 ATTCTAATTTAATCTCTAAACTA
4603693 TGACTATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
28 2 0.05
29 35 0.85
30 4 0.10
ACGTcount: A:0.35, C:0.21, G:0.04, T:0.41
Consensus pattern (29 bp):
ATTCTAATTTAATCTCTAAACTACTGAAC
Found at i:4603734 original size:60 final size:58
Alignment explanation
Indices: 4603604--4603742 Score: 147
Period size: 60 Copynumber: 2.4 Consensus size: 58
4603594 TTCTTTAATT
* * *
4603604 TTTTTAATATTCTAATTTAATCTCTAAACTACGAATCATTCTAAATTAGTCCTTAAAC
1 TTTTTAATATTCTAATTTCATCTCTAAACTACGAATCATTCTAAATTAGTCCTCAAAA
* * * * * *
4603662 TCTTGAACATTCTAATTTCATCTCTATACTATGACTAT-ATTTCTATATTAGTCAC-CAAAA
1 TTTTTAATATTCTAATTTCATCTCTAAACTACGA--ATCA-TTCTAAATTAGTC-CTCAAAA
4603722 TTTTTAATATTCTAATTTCAT
1 TTTTTAATATTCTAATTTCAT
4603743 TCCCAAATGC
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
58 28 0.43
59 1 0.02
60 35 0.54
61 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (58 bp):
TTTTTAATATTCTAATTTCATCTCTAAACTACGAATCATTCTAAATTAGTCCTCAAAA
Found at i:4603983 original size:60 final size:61
Alignment explanation
Indices: 4603870--4604008 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 61
4603860 GTATATATGT
* * *
4603870 ATAGTTT-GGGATGAAATTGGAATATTCAAAAATTTTGGGTACCAATTTGAAATGAAAATC
1 ATAGTTTAGGGATGAAATTGAAATATTCAAAAATTTTAGGTACCAATTTAAAATGAAAATC
* * * * * * *
4603930 ATAGTTTAGGGATGAAATTGAAATGTTCAATAGTTTTAGG-ACTAATTTAAAATGAGAGTG
1 ATAGTTTAGGGATGAAATTGAAATATTCAAAAATTTTAGGTACCAATTTAAAATGAAAATC
*
4603990 ATATTTTAGGGATGAAATT
1 ATAGTTTAGGGATGAAATT
4604009 AGAACATTTA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
60 40 0.60
61 27 0.40
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (61 bp):
ATAGTTTAGGGATGAAATTGAAATATTCAAAAATTTTAGGTACCAATTTAAAATGAAAATC
Found at i:4611096 original size:14 final size:14
Alignment explanation
Indices: 4611077--4611104 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4611067 TAACAGACTT
4611077 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
4611091 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
4611105 TGGTATTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:4612927 original size:51 final size:51
Alignment explanation
Indices: 4612868--4612968 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
4612858 TCAGGGGGAG
*
4612868 AGTTACAAGGAATTTCAGCCTGTTCAAACCGATATTTCTTTACAGCCTATT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAGCCTATT
*
4612919 AGTTACAAGGAATTTCAACTTGTTCAAACCGATATTTCTTTACAGCCTAT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAGCCTAT
4612969 CCTTTCCTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (51 bp):
AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAGCCTATT
Found at i:4615214 original size:14 final size:14
Alignment explanation
Indices: 4615195--4615222 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4615185 AACAGACTTA
4615195 TCTGTTTTCTACAG
1 TCTGTTTTCTACAG
4615209 TCTGTTTTCTACAG
1 TCTGTTTTCTACAG
4615223 AAAATGTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
TCTGTTTTCTACAG
Found at i:4617040 original size:16 final size:16
Alignment explanation
Indices: 4617019--4617050 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4617009 ATTTAAATAA
4617019 TTAGTACTATACAACC
1 TTAGTACTATACAACC
*
4617035 TTAGTACTATGCAACC
1 TTAGTACTATACAACC
4617051 GTTGATAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.31
Consensus pattern (16 bp):
TTAGTACTATACAACC
Found at i:4623379 original size:20 final size:19
Alignment explanation
Indices: 4623340--4623391 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
4623330 TTTCCCAAAA
* *
4623340 AGTTTCGACACTTTTCAAG
1 AGTTTCGAAACTTCTCAAG
4623359 AGTTTCGAAACTATCTCAAG
1 AGTTTCGAAACT-TCTCAAG
*
4623379 AGTTTCAAAACTT
1 AGTTTCGAAACTT
4623392 TCCCTAAAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (19 bp):
AGTTTCGAAACTTCTCAAG
Found at i:4626399 original size:17 final size:17
Alignment explanation
Indices: 4626372--4626405 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4626362 AGTTTTAATG
4626372 ATTTTTCATAAT-TTTT
1 ATTTTTCATAATATTTT
4626388 ATTTTATCATAATATTTT
1 ATTTT-TCATAATATTTT
4626406 TTGTCAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTTCATAATATTTT
Found at i:4630597 original size:38 final size:35
Alignment explanation
Indices: 4630517--4630597 Score: 83
Period size: 38 Copynumber: 2.2 Consensus size: 35
4630507 AATAAATTAA
**
4630517 AAAATATTTATATATTTTTTTAAAAATTTTAAATTC
1 AAAA-ATTTATATATTTTTTTAAAAATTAAAAATTC
4630553 ATAAAATTTATATACTTTTTTTTACAAAATTAAAAATAT-
1 A-AAAATTTATATA--TTTTTTTA-AAAATTAAAAAT-TC
4630592 AAAAAT
1 AAAAAT
4630598 ATTTAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
36 10 0.26
37 3 0.08
38 13 0.34
39 11 0.29
40 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (35 bp):
AAAAATTTATATATTTTTTTAAAAATTAAAAATTC
Found at i:4637493 original size:31 final size:31
Alignment explanation
Indices: 4637389--4637494 Score: 142
Period size: 31 Copynumber: 3.4 Consensus size: 31
4637379 TAGTTATGTC
* * *
4637389 GGGGACCATATTGTAAACGGACTAAATGTTG
1 GGGGATCATATTGCAAACGAACTAAATGTTG
*
4637420 AGGGATCATATTGCAAAC-AGACTAAATGTTG
1 GGGGATCATATTGCAAACGA-ACTAAATGTTG
*
4637451 GGGGACCATATTGCAAACGAACTAAATGTTG
1 GGGGATCATATTGCAAACGAACTAAATGTTG
*
4637482 GGGGATTATATTG
1 GGGGATCATATTG
4637495 AAAGTTTTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
31 64 0.98
32 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.26
Consensus pattern (31 bp):
GGGGATCATATTGCAAACGAACTAAATGTTG
Found at i:4645712 original size:31 final size:30
Alignment explanation
Indices: 4645674--4645741 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 30
4645664 TAATATAATC
4645674 CCCCAACATTTAGTCCATTTACAATATGGT
1 CCCCAACATTTAGTCCATTTACAATATGGT
* *
4645704 CCCTCAACATTTAGTCCGTTTGCAATATGGT
1 CCC-CAACATTTAGTCCATTTACAATATGGT
4645735 CCCCAAC
1 CCCCAAC
4645742 GTTACTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 7 0.20
31 28 0.80
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (30 bp):
CCCCAACATTTAGTCCATTTACAATATGGT
Found at i:4648277 original size:17 final size:18
Alignment explanation
Indices: 4648245--4648282 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4648235 AATAAATAAA
*
4648245 ATACCCAACCCAAATTAT
1 ATACCAAACCCAAATTAT
4648263 ATACCAAACCC-AATTAT
1 ATACCAAACCCAAATTAT
4648280 ATA
1 ATA
4648283 TTATATACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (18 bp):
ATACCAAACCCAAATTAT
Found at i:4650821 original size:20 final size:20
Alignment explanation
Indices: 4650798--4650849 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4650788 AACGCGATCC
4650798 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
4650818 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
4650838 CCAAAATCGCAA
1 CCAGAATCGCAA
4650850 CGCGATTCTT
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:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:4650930 original size:20 final size:20
Alignment explanation
Indices: 4650905--4651098 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
4650895 GATTTTCCAT
* *
4650905 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
4650925 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
4650945 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
4650965 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
4650985 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
4651005 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
4651025 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
4651045 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
4651066 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
4651086 AATCGCAACGCGA
1 AATCGCAACGCGA
4651099 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:4650950 original size:40 final size:39
Alignment explanation
Indices: 4650901--4651098 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
4650891 TTGCGATTTT
* ** *
4650901 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
4650939 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
4650980 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
4651020 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
4651059 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
4651099 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:4650988 original size:60 final size:60
Alignment explanation
Indices: 4650905--4651097 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
4650895 GATTTTCCAT
* ** * *
4650905 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
4650965 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
4651025 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
4651086 AATCGCAACGCG
1 AATCGCAACGCG
4651098 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:4651269 original size:21 final size:22
Alignment explanation
Indices: 4651243--4651296 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
4651233 CTCTCTACGG
4651243 CGAAGAAATCCGT-CCCATCTC
1 CGAAGAAATCCGTCCCCATCTC
**
4651264 CGAAGATTTCCGTCCCCATCTC
1 CGAAGAAATCCGTCCCCATCTC
**
4651286 CGGCGAAATCC
1 CGAAGAAATCC
4651297 CTCACAACCA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (22 bp):
CGAAGAAATCCGTCCCCATCTC
Found at i:4651517 original size:33 final size:33
Alignment explanation
Indices: 4651478--4651548 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4651468 TTCACTTAGA
*
4651478 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
4651511 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
4651544 TTTCA
1 TTTCA
4651549 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:4651688 original size:14 final size:14
Alignment explanation
Indices: 4651669--4651723 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
4651659 AGAATGACTG
4651669 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
4651683 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
4651702 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
4651716 TCGCAACG
1 TCGCAACG
4651724 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:4651705 original size:19 final size:18
Alignment explanation
Indices: 4651681--4651745 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
4651671 GCAACGAGAG
4651681 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAA-GAA
*
4651700 AATCGCAA--CG--AGAG
1 AATCGCAACGCGAAAGAA
*
4651714 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAA-GAA
*
4651733 AATCGCAATGCGA
1 AATCGCAACGCGA
4651746 TTTTGGTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 10 0.27
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 21 0.57
ACGTcount: A:0.45, C:0.25, G:0.22, T:0.09
Consensus pattern (18 bp):
AATCGCAACGCGAAAGAA
Found at i:4651706 original size:33 final size:33
Alignment explanation
Indices: 4651669--4651740 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
4651659 AGAATGACTG
**
4651669 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
4651702 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
4651735 TCGCAA
1 TCGCAA
4651741 TGCGATTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.44, C:0.25, G:0.22, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:4651776 original size:14 final size:14
Alignment explanation
Indices: 4651757--4651846 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
4651747 TTTGGTTTCG
4651757 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4651771 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4651790 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4651804 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
4651821 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
4651837 CGTTGCGATT
1 CGTTGCGATT
4651847 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4651789 original size:33 final size:33
Alignment explanation
Indices: 4651741--4651854 Score: 192
Period size: 33 Copynumber: 3.5 Consensus size: 33
4651731 AAAATCGCAA
**
4651741 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4651774 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
* *
4651807 TGCGATTGTCATCTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4651840 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
4651855 AACCAAAAGA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:4653756 original size:92 final size:93
Alignment explanation
Indices: 4653551--4654015 Score: 849
Period size: 92 Copynumber: 5.1 Consensus size: 93
4653541 TAGATTGCTT
*
4653551 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4653616 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
4653644 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4653708 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4653736 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4653801 TTTGTCTTTGTTTTG-----T--TTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4653822 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4653886 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4653914 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4653979 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
4654007 AGTAAATTT
1 AGTAAATTT
4654016 ATCCATTCAA
Statistics
Matches: 360, Mismatches: 3, Indels: 18
0.94 0.01 0.05
Matches are distributed among these distances:
85 17 0.05
86 67 0.19
88 1 0.00
90 1 0.00
92 158 0.44
93 116 0.32
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:4653897 original size:178 final size:179
Alignment explanation
Indices: 4653551--4653994 Score: 809
Period size: 178 Copynumber: 2.5 Consensus size: 179
4653541 TAGATTGCTT
*
4653551 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4653616 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTG-----T-GTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
4653681 GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
125 GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
4653736 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
4653801 TTTGTCTTTGTTTTGT-TTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTAT
66 TTTGTCTTTGTTTTGTGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATAT
4653865 TCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 TCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
4653914 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
4653979 TTTGTCTTTGTTTTGT
66 TTTGTCTTTGTTTTGT
4653995 CTTTTGGTTG
Statistics
Matches: 257, Mismatches: 2, Indels: 7
0.97 0.01 0.03
Matches are distributed among these distances:
178 177 0.69
180 1 0.00
185 79 0.31
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (179 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATAT
TCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:4654099 original size:19 final size:19
Alignment explanation
Indices: 4654059--4654187 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
4654049 TAGTTTACTT
* *
4654059 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
4654079 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
4654098 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
4654117 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
4654131 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
4654150 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
4654164 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
4654183 TCGCA
1 TCGCA
4654188 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:4654138 original size:33 final size:32
Alignment explanation
Indices: 4654095--4654187 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
4654085 CGCGAAACCA
**
4654095 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
4654127 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
4654160 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
4654188 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:4654185 original size:52 final size:52
Alignment explanation
Indices: 4654059--4654187 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
4654049 TAGTTTACTT
**
4654059 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
4654111 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
4654164 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
4654188 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:4654205 original size:19 final size:19
Alignment explanation
Indices: 4654183--4654317 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
4654173 GAAACCAAAA
*
4654183 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4654202 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
4654218 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
4654235 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
4654251 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
4654268 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
4654287 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
4654307 TCGTGTTGCGA
1 TCGCGTTGCGA
4654318 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:4654224 original size:14 final size:14
Alignment explanation
Indices: 4654205--4654261 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4654195 TTTCATTTCG
4654205 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
4654219 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
4654236 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
4654252 CGTTGCGATT
1 CGTTGCGATT
4654262 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:4654230 original size:33 final size:33
Alignment explanation
Indices: 4654188--4654280 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
4654178 CAAAATCGCA
*
4654188 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
4654221 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
4654254 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
4654281 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:4656240 original size:14 final size:14
Alignment explanation
Indices: 4656221--4656256 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
4656211 ATTGTTTAAT
4656221 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
4656235 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
4656249 TGATTTGT
1 TGATTTGT
4656257 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4656378 original size:19 final size:19
Alignment explanation
Indices: 4656362--4656463 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
4656352 CAAAATGACT
4656362 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4656381 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
4656400 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
4656414 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
4656433 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
4656453 ATCGCAATGCG
1 ATCGCAATGCG
4656464 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:4656516 original size:19 final size:19
Alignment explanation
Indices: 4656492--4656765 Score: 354
Period size: 19 Copynumber: 15.4 Consensus size: 19
4656482 GATTATCTCG
4656492 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4656511 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4656530 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
4656544 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4656563 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4656582 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4656601 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4656620 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4656639 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
4656653 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
4656672 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
4656691 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
4656705 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
4656725 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
4656739 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
4656758 TTGCGATT
1 TTGCGATT
4656766 GTATTTTCCG
Statistics
Matches: 226, Mismatches: 8, Indels: 42
0.82 0.03 0.15
Matches are distributed among these distances:
14 29 0.13
16 24 0.11
17 20 0.09
18 3 0.01
19 138 0.61
20 12 0.05
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:4656532 original size:52 final size:52
Alignment explanation
Indices: 4656470--4656737 Score: 437
Period size: 52 Copynumber: 5.0 Consensus size: 52
4656460 TGCGTTTATA
*
4656470 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
4656522 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
4656574 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTA
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
4656631 ATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
4656683 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
4656736 AT
1 AT
4656738 GTTGGGATTT
Statistics
Matches: 204, Mismatches: 6, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
52 129 0.63
53 17 0.08
54 7 0.03
55 8 0.04
57 43 0.21
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:4656621 original size:109 final size:102
Alignment explanation
Indices: 4656492--4656732 Score: 176
Period size: 109 Copynumber: 2.3 Consensus size: 102
4656482 GATTATCTCG
4656492 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TTTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATTTCGATTGCGATTTT
*
4656554 CATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
61 CATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
4656601 TTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCGA-TTC-TGTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATTTCATTTCGATTGCGATTTT
* * * * *
4656663 CATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
61 CATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
4656705 TTGCGATTTTCATTTCCGCATTGCGATT
1 TTGCGATTTTCATTT-CGCATTGCGATT
4656733 TTCATGTTGG
Statistics
Matches: 120, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
102 7 0.06
103 6 0.05
104 20 0.17
105 11 0.09
107 2 0.02
109 74 0.62
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (102 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTCATTTCGATTGCGATTTTCATTT
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:4658686 original size:12 final size:12
Alignment explanation
Indices: 4658669--4658693 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4658659 TCTTCGGGGA
4658669 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4658681 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4658693 C
1 C
4658694 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:4658902 original size:24 final size:24
Alignment explanation
Indices: 4658868--4658914 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4658858 CTGAAACATC
4658868 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
4658892 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
4658915 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:4659624 original size:20 final size:20
Alignment explanation
Indices: 4659596--4659964 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
4659586 AAATTTAAGT
* * * *
4659596 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
4659616 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
4659636 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
4659656 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
4659676 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4659696 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
4659716 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
4659736 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4659756 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4659776 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
4659796 GTTGC-AGTTTACGGATACGC
1 GTTGCGA-TTTACGGATACGC
4659816 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
4659836 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
4659856 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
4659876 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
4659896 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
4659916 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
4659936 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
4659956 GTTGCGATT
1 GTTGCGATT
4659965 ATGGAAAATC
Statistics
Matches: 309, Mismatches: 30, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
19 6 0.02
20 297 0.96
21 6 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:4661338 original size:23 final size:23
Alignment explanation
Indices: 4661308--4661380 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
4661298 ATACTTTACA
*
4661308 ATATAAACACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
4661331 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
4661354 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
4661377 ATAT
1 ATAT
4661381 TTTTACCTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:4661829 original size:23 final size:23
Alignment explanation
Indices: 4661799--4661848 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
4661789 ATACTTTACA
*
4661799 ATATAAGCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATC
**
4661822 ATATAAGCGTTACCTATTACATC
1 ATATAAGCACTACCTATTACATC
4661845 ATAT
1 ATAT
4661849 TTTTACCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATC
Found at i:4662222 original size:464 final size:467
Alignment explanation
Indices: 4660907--4662267 Score: 2165
Period size: 464 Copynumber: 2.9 Consensus size: 467
4660897 TTATAATATG
*
4660907 TTGAAAGTGTCCATACTTTTTTATAAAAAGGATCGATATTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATAC-TTTTTATAAAAAGGATCGA-ACTTTTTTTAAAGTTATGTAATTTATGT
*
4660972 TTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACATACAATATTAATTTAATAATTTCATTTGCA
64 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
4661036 CAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
129 CAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
*
4661101 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATGATAATATATA
194 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATA
** ** * * * *
4661166 TTGTAACATAAAAAATAAATCATTAGATACATATAATTACTAAATTGATGTCTTAAAACTCTCTC
259 CCGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTC
4661231 AAAAAATAACCTTAAATTAATATTTTTCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
324 AAAAAATAACCTTAAATTAATATTTTTCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGAT
4661296 AGATACTTTACAATATAAACACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAG
389 AGATACTTTAC-A-AT----A-TA---A-TAC--------AAC-CTACCTATTACATTATATAAG
4661361 CGCTACCTATTACATCATATTTTTACCTATTATA
434 CGCTACCTATTACATCATATTTTTACCTATTATA
4661395 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGA-ACTTTTTTTAAAGTTATGTAATTTATGTT
* **
4661460 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTATA
65 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCA
*
4661525 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
129 C-AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* *
4661590 TAACCGAATATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
193 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
4661655 ACCGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
258 ACCGTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* * * *
4661720 CAAAATATAACCTTAAATTAATGTTTTCCACTGTGAAAAAAAGTATGGACACTTTTATAAAAAGG
323 CAAAAAATAACCTTAAATTAATATTTTTCACAGTG-AAAAAAGTATGGACACTTTTATAAAAAGG
* *
4661785 ATAGATACTTTACAATATAA-GC-A-CTACCTATTACATTATATAAGCGTTACCTATTACATCAT
387 ATAGATACTTTACAATATAATACAACCTACCTATTACATTATATAAGCGCTACCTATTACATCAT
4661847 ATTTTTACCTATTATA
452 ATTTTTACCTATTATA
* *
4661863 TTGAAAGTGTTCATACTTTCTATAAAAAGGATCG-ACTTTTTTTAAAGTTATGTAATTTATGTTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAACTTTTTTTAAAGTTATGTAATTTATGTTT
*
4661927 TAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
66 CAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
4661992 AAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAA
131 AAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAA
4662057 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACC
196 CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACC
**
4662122 GTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
261 GTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
* * *
4662187 AAGATAACCTTAAATTAATATTTTTCACAGTGAAAAAAGTATAGACACTTTTATAAAAATGATAG
326 AAAATAACCTTAAATTAATATTTTTCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
*
4662252 ATACTTTTCAATATAA
391 ATACTTTACAATATAA
4662268 CAGTTAAAAA
Statistics
Matches: 828, Mismatches: 41, Indels: 33
0.92 0.05 0.04
Matches are distributed among these distances:
463 46 0.06
464 219 0.26
465 58 0.07
466 32 0.04
468 86 0.10
470 1 0.00
479 1 0.00
481 1 0.00
484 2 0.00
485 1 0.00
487 52 0.06
488 16 0.02
489 58 0.07
490 213 0.26
491 42 0.05
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.42
Consensus pattern (467 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAACTTTTTTTAAAGTTATGTAATTTATGTTT
CAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
AAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAA
CCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACC
GTAACATAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
AAAATAACCTTAAATTAATATTTTTCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAG
ATACTTTACAATATAATACAACCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTT
TTACCTATTATA
Found at i:4672733 original size:16 final size:18
Alignment explanation
Indices: 4672714--4672753 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
4672704 AATGTCTCTT
4672714 AAAAAT-AATTTTAAG-C
1 AAAAATCAATTTTAAGAC
*
4672730 AAAAATCATTTTTAAGAC
1 AAAAATCAATTTTAAGAC
4672748 AAAAAT
1 AAAAAT
4672754 TAATCCGCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 8 0.38
18 7 0.33
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.30
Consensus pattern (18 bp):
AAAAATCAATTTTAAGAC
Found at i:4673594 original size:2 final size:2
Alignment explanation
Indices: 4673587--4673618 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4673577 CAATGCACAA
4673587 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4673619 TATTTCCCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4675269 original size:13 final size:13
Alignment explanation
Indices: 4675245--4675299 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 13
4675235 AATTACTACC
*
4675245 ATTAATACTAACA
1 ATTAATATTAACA
*
4675258 ATTAACATTAACA
1 ATTAATATTAACA
* *
4675271 ATTGATATTAGCA
1 ATTAATATTAACA
*
4675284 ATTAATATTAATA
1 ATTAATATTAACA
4675297 ATT
1 ATT
4675300 CGTAATTACA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (13 bp):
ATTAATATTAACA
Found at i:4678127 original size:22 final size:20
Alignment explanation
Indices: 4678096--4678135 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
4678086 TCTCATGTTA
4678096 ATAAAAAAAATTTATCTTTTAC
1 ATAAAAAAAA--TATCTTTTAC
*
4678118 ATAAATAAAATATCTTTT
1 ATAAAAAAAATATCTTTT
4678136 GTTTTATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAAAAAAATATCTTTTAC
Found at i:4680390 original size:2 final size:2
Alignment explanation
Indices: 4680383--4680436 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
4680373 AATGTATAAC
4680383 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4680425 A- AT AT AT AT AT A
1 AT AT AT AT AT AT A
4680437 CATAAAGTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4681506 original size:24 final size:23
Alignment explanation
Indices: 4681478--4681559 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 23
4681468 TAGAGAAGTC
*
4681478 CAAGCAAAAGCCGAAGCCGAAACT
1 CAAGCACAAGCCGAAGCC-AAACT
* *
4681502 GAAGCACAAGCCCAAGACCAAACT
1 CAAGCACAAGCCGAAG-CCAAACT
* *
4681526 CAAGCTCAAGCCGAAGCCAAAACC
1 CAAGCACAAGCCGAAGCC-AAACT
4681550 CAAGCACAAG
1 CAAGCACAAG
4681560 ACCAAGTTCA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 2 0.04
24 44 0.92
25 2 0.04
ACGTcount: A:0.45, C:0.33, G:0.18, T:0.04
Consensus pattern (23 bp):
CAAGCACAAGCCGAAGCCAAACT
Found at i:4684836 original size:12 final size:11
Alignment explanation
Indices: 4684819--4684854 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
4684809 GGTATGTAAT
4684819 TATTTATTTATA
1 TATTTATTTA-A
4684831 TATTTATTTAA
1 TATTTATTTAA
*
4684842 TATGTATTTAA
1 TATTTATTTAA
4684853 TA
1 TA
4684855 ATAATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:4684858 original size:3 final size:3
Alignment explanation
Indices: 4684850--4684981 Score: 204
Period size: 3 Copynumber: 45.7 Consensus size: 3
4684840 AATATGTATT
*
4684850 TAA TAA TAA TAAA TAA TGA TAA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4684895 TAA TAA TAA T-A TAA TAA T-A TAA TAA TAA TAA TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4684940 TAA TAA TAA TAA T-A TAA TAA TAA TAA T-A TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
4684982 TGGATAAAAA
Statistics
Matches: 120, Mismatches: 2, Indels: 14
0.88 0.01 0.10
Matches are distributed among these distances:
2 12 0.10
3 105 0.88
4 3 0.03
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:4684886 original size:20 final size:20
Alignment explanation
Indices: 4684852--4684981 Score: 194
Period size: 20 Copynumber: 6.5 Consensus size: 20
4684842 TATGTATTTA
*
4684852 ATAATAATAAATAATGATAAT
1 ATAATAAT-AATAATAATAAT
4684873 AATAAT-ATAATAATAATAAT
1 -ATAATAATAATAATAATAAT
4684893 AATAATAATAAT-ATAATAAT
1 -ATAATAATAATAATAATAAT
4684913 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
4684933 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
4684953 ATAATAATAATAAT-ATAAT
1 ATAATAATAATAATAATAAT
4684972 AATAATAATA
1 -ATAATAATA
4684982 TGGATAAAAA
Statistics
Matches: 104, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
19 16 0.15
20 76 0.73
21 7 0.07
22 5 0.05
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.35
Consensus pattern (20 bp):
ATAATAATAATAATAATAAT
Found at i:4685582 original size:113 final size:113
Alignment explanation
Indices: 4685297--4685826 Score: 756
Period size: 113 Copynumber: 4.7 Consensus size: 113
4685287 TAGAATTATG
* *
4685297 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
4685362 TTATGAACTCTCTCTGGCAATGTTGATCTATCAAATGATGAATTCAAA
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAA
*
4685410 CCAAAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 -CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*** * * * *
4685475 ATTATGAACTTTCTCTGGAAAAAATAATCCATCCAGTGATGAATTCAGA
65 ATTATGAACTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAA
* * * *
4685524 TAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * **
4685589 TTATGAACTTTCTCTGGAAAGGCTGATCCATCAATTGATGAATTCAGG
66 TTATGAACTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAA
* * *
4685637 TAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTC
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
* *
4685702 TCATTATGAACTCTTC-CTGGCAATGTTGATCCCTCAAATGATGAATTCAAA
63 TCATTATGAACT-TTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAA
*
4685753 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
4685818 TTATGAACT
66 TTATGAACT
4685827 CGAACTGGAA
Statistics
Matches: 375, Mismatches: 37, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
113 174 0.46
114 100 0.27
116 98 0.26
117 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (113 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAA
Found at i:4685791 original size:229 final size:227
Alignment explanation
Indices: 4685297--4685857 Score: 784
Period size: 229 Copynumber: 2.5 Consensus size: 227
4685287 TAGAATTATG
*
4685297 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
4685362 TTATGAACTCTCTCTGGCAATGTTGATCTATCAAATGATGAATTCAAACCAAAAAATTGAACAAG
66 TTATGAACTCTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAACCAAAAAATTGAACAAA
4685427 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
131 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * *
4685492 GAAAAAATAATCCATCCAGTGATGAATTCAGA
196 GAAAAAATAATCCATCAAATGATGAATTCAAA
* * *
4685524 TAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *** **
4685589 TTATGAACTTTCTCTGGAAAGGCTGATCCATCAATTGATGAATTC-AGGTAAAAGGTTGAACAAA
66 TTATGAACTCTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAACCAAAAAATTGAACAAA
4685653 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC
131 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTC
* *** * *
4685718 -CTGGCAATGTTGATCCCTCAAATGATGAATTCAAA
192 TCTGGAAAAAATAATCCATCAAATGATGAATTCAAA
* *
4685753 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*** *
4685818 TTATGAACTCGAACTGGAAAAGCTGATCCATCAAGTGATG
66 TTATGAACTCTCTCTGGAAAAGCTGATCCATCAAATGATG
4685858 GGTTTGAATC
Statistics
Matches: 294, Mismatches: 36, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
226 50 0.17
227 100 0.34
229 141 0.48
230 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (227 bp):
CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTCTCTCTGGAAAAGCTGATCCATCAAATGATGAATTCAAACCAAAAAATTGAACAAA
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAAATAATCCATCAAATGATGAATTCAAA
Found at i:4686853 original size:83 final size:83
Alignment explanation
Indices: 4686652--4687006 Score: 592
Period size: 83 Copynumber: 4.3 Consensus size: 83
4686642 CTTATTTCTA
*
4686652 CTATGAGCAAATTCATCTTCCAAATTCAATGATTGGTTCTGTCC-AACCAGATCAGATAACTCAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTG-CCAAACCAGATCAGATAACTCAA
*
4686716 AGAACACTTCC---AGATT
65 AGAACACTTCCAGAAGATG
* * * *
4686732 CTATGAACAAATTCATCTTCTAAATTCAATGATTGGTTTTGCCAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
4686797 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
* *
4686815 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTGCCAAACCAGATCAAATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
4686880 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
*
4686898 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
4686963 GAACACTTCCAGAAGATG
66 GAACACTTCCAGAAGATG
4686981 CTATGAGCACATTCATCTTCCAAATT
1 CTATGAGCACATTCATCTTCCAAATT
4687007 ATGTTTGGAC
Statistics
Matches: 260, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
79 2 0.01
80 69 0.27
83 189 0.73
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (83 bp):
CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAA
GAACACTTCCAGAAGATG
Found at i:4687771 original size:19 final size:19
Alignment explanation
Indices: 4687749--4687789 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
4687739 AAATTATGTT
4687749 AATTTATAAAAATAAATTG
1 AATTTATAAAAATAAATTG
* *
4687768 AATTTCTACAAATAAATTG
1 AATTTATAAAAATAAATTG
4687787 AAT
1 AAT
4687790 CTCAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (19 bp):
AATTTATAAAAATAAATTG
Done.