Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 59 of 186
Found at i:18409984 original size:55 final size:55
Alignment explanation
Indices: 18409900--18410009 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
18409890 TTTTTTCTTG
18409900 GTTCTTGCCTATATTTTTCCAGAATTAATTGAGTTCTTTAACCCTTCTAATCAGA
1 GTTCTTGCCTATATTTTTCCAGAATTAATTGAGTTCTTTAACCCTTCTAATCAGA
*
18409955 GTTCTTGCCTATATTTTTCTAGAATTAATTGAGTTCTTTAACCCTTCTAATCAGA
1 GTTCTTGCCTATATTTTTCCAGAATTAATTGAGTTCTTTAACCCTTCTAATCAGA
18410010 TTTTAAACCC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (55 bp):
GTTCTTGCCTATATTTTTCCAGAATTAATTGAGTTCTTTAACCCTTCTAATCAGA
Found at i:18414817 original size:27 final size:28
Alignment explanation
Indices: 18414743--18415251 Score: 463
Period size: 27 Copynumber: 18.9 Consensus size: 28
18414733 AATACCCCCG
* * *
18414743 TAGGGTAGAAT-ACCGAAATACCCCCGTA
1 TAGGGTAAAATGACCGTAATACCCTC-TA
* *
18414771 -A-GGTAGAAT-ACCGAAATACCCTC-A
1 TAGGGTAAAATGACCGTAATACCCTCTA
* *
18414795 TAGGGTAAAATGATCGTAATACCC-CTG
1 TAGGGTAAAATGACCGTAATACCCTCTA
* *
18414822 TAGGGTAAAATAACCGTAAT-GCCTCTA
1 TAGGGTAAAATGACCGTAATACCCTCTA
*
18414849 TAGGGTAAAATGACCGTAAT-GCCTCTA
1 TAGGGTAAAATGACCGTAATACCCTCTA
*
18414876 TAGGGTAAAATGACCGTAAT-GCCTCTA
1 TAGGGTAAAATGACCGTAATACCCTCTA
* * *
18414903 TAGGGTAAAATAACTGTAATACCC-CTG
1 TAGGGTAAAATGACCGTAATACCCTCTA
* * *
18414930 TAAGGTAAAATGATCGTAATGCCC-CTA
1 TAGGGTAAAATGACCGTAATACCCTCTA
* * *
18414957 TAAGGTAAAATGACCGTAACA-CCTCTG
1 TAGGGTAAAATGACCGTAATACCCTCTA
18414984 TAGGGTAAAATGACCGTAATACCCT-TA
1 TAGGGTAAAATGACCGTAATACCCTCTA
* *
18415011 TAGGATAAAATGATCGTAATACCCT-TA
1 TAGGGTAAAATGACCGTAATACCCTCTA
* *
18415038 TAGGGTAAAATGACCGTAA-GCCC-CTG
1 TAGGGTAAAATGACCGTAATACCCTCTA
* *
18415064 TAGGGGTAAAATGACCGTAATGCCC-CTG
1 TA-GGGTAAAATGACCGTAATACCCTCTA
* * *
18415092 TAGGGTAAAATGACTGTAATGCCC-CTG
1 TAGGGTAAAATGACCGTAATACCCTCTA
*
18415119 TAGGGTAAAATGACCGTAATGCCCT-TA
1 TAGGGTAAAATGACCGTAATACCCTCTA
** * *
18415146 TAGGGTAAAATGTTCGTGATACCC-CTG
1 TAGGGTAAAATGACCGTAATACCCTCTA
* *
18415173 TAAGGTAAAATGACCGTAATGCCC-C-A
1 TAGGGTAAAATGACCGTAATACCCTCTA
* *
18415199 GTAAGGTAAAATGACCGTAATACCCATGTA
1 -TAGGGTAAAATGACCGTAATACCC-TCTA
*
18415229 -A-GGTAAAATGACCGTAATGCCCT
1 TAGGGTAAAATGACCGTAATACCCT
18415252 GGTGGGTAAA
Statistics
Matches: 414, Mismatches: 50, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.00
25 1 0.00
26 40 0.10
27 356 0.86
28 15 0.04
30 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (28 bp):
TAGGGTAAAATGACCGTAATACCCTCTA
Found at i:18414855 original size:54 final size:54
Alignment explanation
Indices: 18414743--18415246 Score: 539
Period size: 54 Copynumber: 9.4 Consensus size: 54
18414733 AATACCCCCG
* * * * * * *
18414743 TAGGGTAGAAT-ACCGAAATACCCCCGTAAGGTAGAAT-ACCGAAAT-ACCCTCA
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCT-A
* * *
18414795 TAGGGTAAAATGATCGTAATACCCCTGTAGGGTAAAATAACCGTAATGCCTCTA
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTA
* * * *
18414849 TAGGGTAAAATGACCGTAATGCCTCTATAGGGTAAAATGACCGTAATGCCTCTA
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTA
* * * *
18414903 TAGGGTAAAATAACTGTAATACCCCTGTAAGGTAAAATGATCGTAATGCCCCTA
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTA
* * * * *
18414957 TAAGGTAAAATGACCGTAACACCTCTGTAGGGTAAAATGACCGTAATACCCTTA
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTA
* * * * *
18415011 TAGGATAAAATGATCGTAATACCCTTATAGGGTAAAATGACCGTAA-GCCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTA
* * *
18415064 TAGGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACTGTAATGCCCCTG
1 TA-GGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTA
* * * ** * * *
18415119 TAGGGTAAAATGACCGTAATGCCCTTATAGGGTAAAATGTTCGTGATACCCCTG
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTA
* * * * * * *
18415173 TAAGGTAAAATGACCGTAATGCCCCAGTAAGGTAAAATGACCGTAATACCCATG
1 TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTA
*
18415227 TAAGGTAAAATGACCGTAAT
1 TAGGGTAAAATGACCGTAAT
18415247 GCCCTGGTGG
Statistics
Matches: 384, Mismatches: 63, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
52 10 0.03
53 27 0.07
54 335 0.87
55 12 0.03
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (54 bp):
TAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTA
Found at i:18414894 original size:81 final size:80
Alignment explanation
Indices: 18414727--18415246 Score: 560
Period size: 81 Copynumber: 6.5 Consensus size: 80
18414717 TCGATATCTG
* * * * * * * * *
18414727 GACCGAAATACCCCCGTAGGGTAGAAT-ACCGAAATACCCCCGTAAGGTAGAAT-ACCGAAATAC
1 GACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGC
18414790 CCTCATAGGGTAAAAT
66 CCT-ATAGGGTAAAAT
* * * * *
18414806 GATCGTAATACCCCTGTAGGGTAAAATAACCGTAATGCCTCTATAGGGTAAAATGACCGTAATGC
1 GACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGC
18414871 CTCTATAGGGTAAAAT
66 C-CTATAGGGTAAAAT
* * * * * * *
18414887 GACCGTAATGCCTCTATAGGGTAAAATAACTGTAATACCCCTGTAAGGTAAAATGATCGTAATGC
1 GACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATG-
*
18414952 CCCTATAAGGTAAAAT
65 CCCTATAGGGTAAAAT
* * * * * * *
18414968 GACCGTAACACCTCTGTAGGGTAAAATGACCGTAATACCCTTATAGGATAAAATGATCGTAATAC
1 GACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGC
18415033 CCTTATAGGGTAAAAT
66 CC-TATAGGGTAAAAT
* * *
18415049 GACCGTAA-GCCCCTGTAGGGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGACTGTAATG
1 GACCGTAATACCCCTGTA-GGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATG
*
18415113 CCCCTGTAGGGTAAAAT
65 -CCCTATAGGGTAAAAT
* * * ** * *
18415130 GACCGTAATGCCCTTATAGGGTAAAATGTTCGTGATACCCCTGTAAGGTAAAATGACCGTAATGC
1 GACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGC
* *
18415195 CCCAGTAAGGTAAAAT
66 CCTA-TAGGGTAAAAT
* *
18415211 GACCGTAATACCCATGTAAGGTAAAATGACCGTAAT
1 GACCGTAATACCCCTGTAGGGTAAAATGACCGTAAT
18415247 GCCCTGGTGG
Statistics
Matches: 369, Mismatches: 63, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
79 23 0.06
80 32 0.09
81 300 0.81
82 14 0.04
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.23
Consensus pattern (80 bp):
GACCGTAATACCCCTGTAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGC
CCTATAGGGTAAAAT
Found at i:18415342 original size:24 final size:23
Alignment explanation
Indices: 18415296--18415344 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
18415286 AAATGATCGT
18415296 TTTGTCTGTGGTTAAATGACTGA
1 TTTGTCTGTGGTTAAATGACTGA
* *
18415319 TTTGTCTGTGATTTGAATGACTGA
1 TTTGTCTGTG-GTTAAATGACTGA
18415343 TT
1 TT
18415345 CTGAGCATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.20, C:0.08, G:0.24, T:0.47
Consensus pattern (23 bp):
TTTGTCTGTGGTTAAATGACTGA
Found at i:18415469 original size:27 final size:25
Alignment explanation
Indices: 18415408--18415472 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 25
18415398 ATGGAGGAAG
18415408 TACTTTACTGGTGGCTCTGCCACAA
1 TACTTTACTGGTGGCTCTGCCACAA
*
18415433 TCACTGTTACTGGTGGCT-TGGCTACATA
1 T-ACT-TTACTGGTGGCTCT-GCCACA-A
18415461 TACTATTACTGG
1 TACT-TTACTGG
18415473 CAGCCTTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.12
27 27 0.79
28 2 0.06
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (25 bp):
TACTTTACTGGTGGCTCTGCCACAA
Found at i:18415557 original size:32 final size:32
Alignment explanation
Indices: 18415516--18415762 Score: 176
Period size: 32 Copynumber: 7.7 Consensus size: 32
18415506 GCTGCGATGC
* *
18415516 TACTGATGGCTTTGTGCCGATCGTAGTACCGT
1 TACTGATGGCTTTGTGCCGATCATAATACCGT
* *
18415548 TACTGATGGCTTTATGACGATCATAATACCGT
1 TACTGATGGCTTTGTGCCGATCATAATACCGT
* *
18415580 TACTGATGGCTTTGTGCCGATCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATAATACCGT
** * * * * **
18415612 TACCAATGGCTGTGTACCAATCAT-TTGACTAT
1 TACTGATGGCTTTGTGCCGATCATAAT-ACCGT
* ** ** * *
18415644 TACTGATGGCTGTGTGTTGATCATACCACTGC
1 TACTGATGGCTTTGTGCCGATCATAATACCGT
* ** **
18415676 TACTGATGGGTTTGTGCCGATCATGTTACTAT
1 TACTGATGGCTTTGTGCCGATCATAATACCGT
* * *
18415708 TACTGATGG-TTGTGTGTCGATCAT-ATCACTGC
1 TACTGATGGCTT-TGTGCCGATCATAAT-ACCGT
*
18415740 TACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTGCCGATCA
18415763 CATTACTATA
Statistics
Matches: 171, Mismatches: 39, Indels: 10
0.78 0.18 0.05
Matches are distributed among these distances:
31 5 0.03
32 164 0.96
33 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATAATACCGT
Found at i:18415647 original size:64 final size:64
Alignment explanation
Indices: 18415516--18415782 Score: 245
Period size: 64 Copynumber: 4.2 Consensus size: 64
18415506 GCTGCGATGC
* * * * * * * ** **
18415516 TACTGATGGCTTTGTGCCGATCGTAGT-ACCGTTACTGATGGCTTTATGACGATCATAATACCGT
1 TACTGATGGCTTTGTGTCGATCATA-TCACTGCTACTGATGGCTTTGTGCCAATCATGTTACTAT
* * * ** * *
18415580 TACTGATGGCTTTGTGCCGATCATATTACTGTTACCAATGGCTGTGTACCAATCAT-TTGACTAT
1 TACTGATGGCTTTGTGTCGATCATATCACTGCTACTGATGGCTTTGTGCCAATCATGTT-ACTAT
* * * * *
18415644 TACTGATGGCTGTGTGTTGATCATACCACTGCTACTGATGGGTTTGTGCCGATCATGTTACTAT
1 TACTGATGGCTTTGTGTCGATCATATCACTGCTACTGATGGCTTTGTGCCAATCATGTTACTAT
**
18415708 TACTGATGG-TTGTGTGTCGATCATATCACTGCTACTGATGGCTTTGTGCCAATCACATTACTA-
1 TACTGATGGCTT-TGTGTCGATCATATCACTGCTACTGATGGCTTTGTGCCAATCATGTTACTAT
*
18415771 TACTTATGGCTT
1 TACTGATGGCTT
18415783 GTAGCCATTC
Statistics
Matches: 166, Mismatches: 32, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
63 11 0.07
64 153 0.92
65 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (64 bp):
TACTGATGGCTTTGTGTCGATCATATCACTGCTACTGATGGCTTTGTGCCAATCATGTTACTAT
Found at i:18415731 original size:96 final size:96
Alignment explanation
Indices: 18415580--18415755 Score: 226
Period size: 96 Copynumber: 1.8 Consensus size: 96
18415570 ATAATACCGT
* * * *
18415580 TACTGATGGCTTTGTGCCGATCATATTACTGTTACCAATGGCTGTGTACCAATCATTTGACTATT
1 TACTGATGGCTTTGTGCCGATCATATTACTATTACCAATGGCTGTGTACCAATCATATCACTACT
18415645 ACTGATGGCTGTGTGTTGATCATACCACTGC
66 ACTGATGGCTGTGTGTTGATCATACCACTGC
* * ** * ** * *
18415676 TACTGATGGGTTTGTGCCGATCATGTTACTATTACTGATGGTTGTGTGTCGATCATATCACTGCT
1 TACTGATGGCTTTGTGCCGATCATATTACTATTACCAATGGCTGTGTACCAATCATATCACTACT
*
18415741 ACTGATGGCTTTGTG
66 ACTGATGGCTGTGTG
18415756 CCAATCACAT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
96 66 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (96 bp):
TACTGATGGCTTTGTGCCGATCATATTACTATTACCAATGGCTGTGTACCAATCATATCACTACT
ACTGATGGCTGTGTGTTGATCATACCACTGC
Found at i:18415799 original size:22 final size:21
Alignment explanation
Indices: 18415774--18415838 Score: 51
Period size: 22 Copynumber: 3.0 Consensus size: 21
18415764 ATTACTATAC
18415774 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTT-TAGCCATTCTGT
* * *
18415796 TTATAGCTTAAAGCTC-TCCTGT
1 TTATGGCTT-TAGC-CATTCTGT
*
18415818 TTATGGCTCTTATCCATTCTG
1 TTATGGCT-TTAGCCATTCTG
18415839 ACTACTAGCA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
21 1 0.03
22 29 0.91
23 2 0.06
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.45
Consensus pattern (21 bp):
TTATGGCTTTAGCCATTCTGT
Found at i:18422431 original size:40 final size:40
Alignment explanation
Indices: 18422387--18422648 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
18422377 GCTCCTCGTT
* *
18422387 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
18422427 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18422467 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18422506 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
18422545 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
18422584 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
18422625 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
18422649 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:18434787 original size:22 final size:22
Alignment explanation
Indices: 18434762--18434804 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
18434752 TAGTCATATA
18434762 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
18434784 ATAATTTATTATTTTAATAAA
1 ATAAATTATTAATATAATAAA
18434805 ATTATTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:18434817 original size:21 final size:22
Alignment explanation
Indices: 18434776--18434817 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
18434766 ATTATTAATA
*
18434776 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
*
18434798 TAATAAA-ATTATTTAATATT
1 TAATAAATATAATTTAATATT
18434818 CCAATTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:18440151 original size:17 final size:18
Alignment explanation
Indices: 18440119--18440152 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18440109 AAAAGTTGTG
18440119 ATAATTACACATTTAAAA
1 ATAATTACACATTTAAAA
*
18440137 ATAATTAGA-ATTTAAA
1 ATAATTACACATTTAAA
18440153 TTACAATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAATTACACATTTAAAA
Found at i:18442225 original size:34 final size:34
Alignment explanation
Indices: 18442187--18442263 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
18442177 AAAAAATATA
*
18442187 AAAATAAAATATTTAAAATATTTTAATATAATTT
1 AAAATAAAATATTTAAAACATTTTAATATAATTT
*
18442221 AAAATAAAATATTTTAAACATTTTAATATAATTT
1 AAAATAAAATATTTAAAACATTTTAATATAATTT
*
18442255 AATATAAAA
1 AAAATAAAA
18442264 ATAATTATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (34 bp):
AAAATAAAATATTTAAAACATTTTAATATAATTT
Found at i:18442292 original size:26 final size:26
Alignment explanation
Indices: 18442263--18442349 Score: 84
Period size: 26 Copynumber: 3.2 Consensus size: 26
18442253 TTAATATAAA
18442263 AATAATTATATTAAATTATATTTAAT
1 AATAATTATATTAAATTATATTTAAT
* * *
18442289 AATAATTATATTAAAATATGGTTAAATT
1 AATAATTATATTAAATTAT-ATTTAA-T
* * * *
18442317 ATTTATTTTTATTAAATTATTTTTAAT
1 A-ATAATTATATTAAATTATATTTAAT
18442344 AATAAT
1 AATAAT
18442350 CCTACTAAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
26 21 0.45
27 6 0.13
28 6 0.13
29 14 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
AATAATTATATTAAATTATATTTAAT
Found at i:18450170 original size:29 final size:29
Alignment explanation
Indices: 18450137--18450195 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
18450127 ATAAATAGAT
18450137 GGCACTAGTAGAGTTACATAAGTTTTTGC
1 GGCACTAGTAGAGTTACATAAGTTTTTGC
*
18450166 GGCACTAGTAGAGTTACGTAAGTTTTTGC
1 GGCACTAGTAGAGTTACATAAGTTTTTGC
18450195 G
1 G
18450196 CATACATTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (29 bp):
GGCACTAGTAGAGTTACATAAGTTTTTGC
Found at i:18451700 original size:26 final size:26
Alignment explanation
Indices: 18451628--18451759 Score: 126
Period size: 27 Copynumber: 4.9 Consensus size: 26
18451618 GAGAGGCTGC
* *
18451628 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
18451654 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
*
18451681 CAGATAATTGTGGCA-TGCCACCAGGAT
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
*
18451708 -AGATATATGTGGTAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
* *
18451734 CAGATAATTTGTGGCATATCCACCAG
1 CAGAT-A-TTGTGGCAGAGCCACCAG
18451760 GACGCTTCCT
Statistics
Matches: 89, Mismatches: 8, Indels: 15
0.79 0.07 0.13
Matches are distributed among these distances:
25 2 0.02
26 25 0.28
27 45 0.51
28 16 0.18
29 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:18451703 original size:53 final size:54
Alignment explanation
Indices: 18451646--18451759 Score: 162
Period size: 53 Copynumber: 2.1 Consensus size: 54
18451636 GTGACGAAGT
18451646 CACCAGATACAGATAT-TGTGGCAGAGCCACCAGATCAGATAA-TTGTGGCAT-GC
1 CACCAGAT--AGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGC
* *
18451699 CACCAGGATAGATATATGTGGTAGAGCCACCAGATCAGATAATTTGTGGCATATC
1 CACCA-GATAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGC
18451754 CACCAG
1 CACCAG
18451760 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
52 6 0.11
53 30 0.55
54 13 0.24
55 6 0.11
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (54 bp):
CACCAGATAGATATATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGC
Found at i:18453406 original size:26 final size:26
Alignment explanation
Indices: 18453376--18453454 Score: 140
Period size: 26 Copynumber: 3.0 Consensus size: 26
18453366 TGAAATTCCC
18453376 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
18453402 ATCATGAAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACCCATT
18453428 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
18453454 A
1 A
18453455 CCAATTTGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:18454161 original size:25 final size:24
Alignment explanation
Indices: 18454114--18454169 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
18454104 CGTTAGTGTT
* **
18454114 ATTATATATGAAATATATCAAATTAG
1 ATTATA-ATAAAATATAAAAAATT-G
18454140 ATTATAATAAAATATAAAAAATTG
1 ATTATAATAAAATATAAAAAATTG
18454164 -TTATAA
1 ATTATAA
18454170 CATATTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 6 0.22
24 1 0.04
25 14 0.52
26 6 0.22
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (24 bp):
ATTATAATAAAATATAAAAAATTG
Found at i:18463408 original size:21 final size:23
Alignment explanation
Indices: 18463382--18463427 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
18463372 CATCATTATT
*
18463382 TATATAA-AATA-AATTCAAATA
1 TATATAATAATAGAATTAAAATA
*
18463403 TATATAATTATAGAATTAAAATA
1 TATATAATAATAGAATTAAAATA
18463426 TA
1 TA
18463428 AAATTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 3 0.14
23 11 0.52
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
TATATAATAATAGAATTAAAATA
Found at i:18463432 original size:21 final size:21
Alignment explanation
Indices: 18463392--18463446 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
18463382 TATATAAAAT
*
18463392 AAATTCAAATATATATAATTATA
1 AAATT-AAA-ATATAAAATTATA
*
18463415 GAATTAAAATATAAAATTATA
1 AAATTAAAATATAAAATTATA
18463436 AAATTATAAAT
1 AAATTA-AAAT
18463447 TTATGTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.61
22 7 0.25
23 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATTAAAATATAAAATTATA
Found at i:18483686 original size:680 final size:680
Alignment explanation
Indices: 18482386--18483749 Score: 2710
Period size: 680 Copynumber: 2.0 Consensus size: 680
18482376 NNNNNNNNNN
18482386 TCATGAAGAAATTCTATGAATAAGGTGTCCAATTGGAAAATAAGGACCAAATTGAATAAATTGCA
1 TCATGAAGAAATTCTATGAATAAGGTGTCCAATTGGAAAATAAGGACCAAATTGAATAAATTGCA
18482451 AAACTTGGATTCTAGAAGTAATTTGCATGAAGTTGCTTTAGATTATTAATTAAAAGATCTTAAAG
66 AAACTTGGATTCTAGAAGTAATTTGCATGAAGTTGCTTTAGATTATTAATTAAAAGATCTTAAAG
18482516 AGCAATTTTCCCAATTTCTAAGTTTTGGACAAAAATGGGCATGTATGGATAAAATTTCAAAGAAA
131 AGCAATTTTCCCAATTTCTAAGTTTTGGACAAAAATGGGCATGTATGGATAAAATTTCAAAGAAA
18482581 GGGCTTAAGGGCATTTTGGTCATTTGGCTAATTAATGAAATAAAATGAGAAAATGAAGACAAAAA
196 GGGCTTAAGGGCATTTTGGTCATTTGGCTAATTAATGAAATAAAATGAGAAAATGAAGACAAAAA
18482646 CCAGCTCATCTTTTCCACCTAGCTTCCAAAATTTGAGAGCCACCATAGCTAGGGTTTCTTCATTT
261 CCAGCTCATCTTTTCCACCTAGCTTCCAAAATTTGAGAGCCACCATAGCTAGGGTTTCTTCATTT
*
18482711 TTCAAGCTCAATAGTAAGTGCTCCCTAGCCCTGTTTTTAATGTTCTTCGTATTTTTGAAATCCCG
326 TTCAAGCTCAATAGTAAGTGCTCCCTAGCCCCGTTTTTAATGTTCTTCGTATTTTTGAAATCCCG
*
18482776 GTAGCTTACTCTCTCCATTTTTACCCATATTTTGAGTTAAGGTTCATGTTTTCAAAGTAACCCAT
391 GTAGCTTACTCTCTCCATTTCTACCCATATTTTGAGTTAAGGTTCATGTTTTCAAAGTAACCCAT
18482841 GTGTGACATGCTTATTCTTTGATGTTTTATGGAGGAATATGAAAGTTGGATGTGTGATAAACATC
456 GTGTGACATGCTTATTCTTTGATGTTTTATGGAGGAATATGAAAGTTGGATGTGTGATAAACATC
18482906 TTTTCCTAGGTGATTTTCATGAAAAACCCCTAAAAAGACCTTTTTGCAAAAGGTGTAAAAATATG
521 TTTTCCTAGGTGATTTTCATGAAAAACCCCTAAAAAGACCTTTTTGCAAAAGGTGTAAAAATATG
18482971 TGGTAGAAATGTGAAATAAGGGAAAAATATGAGCTGCCATAAGAGGAAAGAACATTCGACTAGGC
586 TGGTAGAAATGTGAAATAAGGGAAAAATATGAGCTGCCATAAGAGGAAAGAACATTCGACTAGGC
18483036 TTGGGTAATGTATAAAATTCATGCATTTCA
651 TTGGGTAATGTATAAAATTCATGCATTTCA
18483066 TCATGAAGAAATTCTATGAATAAGGTGTCCAATTGGAAAATAAGGACCAAATTGAATAAATTGCA
1 TCATGAAGAAATTCTATGAATAAGGTGTCCAATTGGAAAATAAGGACCAAATTGAATAAATTGCA
18483131 AAACTTGGATTCTAGAAGTAATTTGCATGAAGTTGCTTTAGATTATTAATTAAAAGATCTTAAAG
66 AAACTTGGATTCTAGAAGTAATTTGCATGAAGTTGCTTTAGATTATTAATTAAAAGATCTTAAAG
18483196 AGCAATTTTCCCAATTTCTAAGTTTTGGACAAAAATGGGCATGTATGGATAAAATTTCAAAGAAA
131 AGCAATTTTCCCAATTTCTAAGTTTTGGACAAAAATGGGCATGTATGGATAAAATTTCAAAGAAA
18483261 GGGCTTAAGGGCATTTTGGTCATTTGGCTAATTAATGAAATAAAATGAGAAAATGAAGACAAAAA
196 GGGCTTAAGGGCATTTTGGTCATTTGGCTAATTAATGAAATAAAATGAGAAAATGAAGACAAAAA
18483326 CCAGCTCATCTTTTCCACCTAGCTTCCAAAATTTGAGAGCCACCATAGCTAGGGTTTCTTCATTT
261 CCAGCTCATCTTTTCCACCTAGCTTCCAAAATTTGAGAGCCACCATAGCTAGGGTTTCTTCATTT
18483391 TTCAAGCTCAATAGTAAGTGCTCCCTAGCCCCGTTTTTAATGTTCTTCGTATTTTTGAAATCCCG
326 TTCAAGCTCAATAGTAAGTGCTCCCTAGCCCCGTTTTTAATGTTCTTCGTATTTTTGAAATCCCG
18483456 GTAGCTTACTCTCTCCATTTCTACCCATATTTTGAGTTAAGGTTCATGTTTTCAAAGTAACCCAT
391 GTAGCTTACTCTCTCCATTTCTACCCATATTTTGAGTTAAGGTTCATGTTTTCAAAGTAACCCAT
18483521 GTGTGACATGCTTATTCTTTGATGTTTTATGGAGGAATATGAAAGTTGGATGTGTGATAAACATC
456 GTGTGACATGCTTATTCTTTGATGTTTTATGGAGGAATATGAAAGTTGGATGTGTGATAAACATC
18483586 TTTTCCTAGGTGATTTTCATGAAAAACCCCTAAAAAGACCTTTTTGCAAAAGGTGTAAAAATATG
521 TTTTCCTAGGTGATTTTCATGAAAAACCCCTAAAAAGACCTTTTTGCAAAAGGTGTAAAAATATG
18483651 TGGTAGAAATGTGAAATAAGGGAAAAATATGAGCTGCCATAAGAGGAAAGAACATTCGACTAGGC
586 TGGTAGAAATGTGAAATAAGGGAAAAATATGAGCTGCCATAAGAGGAAAGAACATTCGACTAGGC
18483716 TTGGGTAATGTATAAAATTCATGCATTTCA
651 TTGGGTAATGTATAAAATTCATGCATTTCA
18483746 TCAT
1 TCAT
18483750 ACGAGCCTAG
Statistics
Matches: 682, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
680 682 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (680 bp):
TCATGAAGAAATTCTATGAATAAGGTGTCCAATTGGAAAATAAGGACCAAATTGAATAAATTGCA
AAACTTGGATTCTAGAAGTAATTTGCATGAAGTTGCTTTAGATTATTAATTAAAAGATCTTAAAG
AGCAATTTTCCCAATTTCTAAGTTTTGGACAAAAATGGGCATGTATGGATAAAATTTCAAAGAAA
GGGCTTAAGGGCATTTTGGTCATTTGGCTAATTAATGAAATAAAATGAGAAAATGAAGACAAAAA
CCAGCTCATCTTTTCCACCTAGCTTCCAAAATTTGAGAGCCACCATAGCTAGGGTTTCTTCATTT
TTCAAGCTCAATAGTAAGTGCTCCCTAGCCCCGTTTTTAATGTTCTTCGTATTTTTGAAATCCCG
GTAGCTTACTCTCTCCATTTCTACCCATATTTTGAGTTAAGGTTCATGTTTTCAAAGTAACCCAT
GTGTGACATGCTTATTCTTTGATGTTTTATGGAGGAATATGAAAGTTGGATGTGTGATAAACATC
TTTTCCTAGGTGATTTTCATGAAAAACCCCTAAAAAGACCTTTTTGCAAAAGGTGTAAAAATATG
TGGTAGAAATGTGAAATAAGGGAAAAATATGAGCTGCCATAAGAGGAAAGAACATTCGACTAGGC
TTGGGTAATGTATAAAATTCATGCATTTCA
Found at i:18491063 original size:17 final size:19
Alignment explanation
Indices: 18491041--18491075 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18491031 ATTATAATTC
18491041 ATAAAA-AT-TTTTAAAAA
1 ATAAAATATATTTTAAAAA
18491058 ATAAAATATATTTTAAAA
1 ATAAAATATATTTTAAAA
18491076 TCAACAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAAAATATATTTTAAAAA
Found at i:18492241 original size:56 final size:56
Alignment explanation
Indices: 18492150--18492260 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 56
18492140 AAAAACATCC
*
18492150 TCTGTAGGGAGTATTTTCTTTCTGGCCATTTCAACACCCTAGCCAACTTAATTGCT
1 TCTGCAGGGAGTATTTTCTTTCTGGCCATTTCAACACCCTAGCCAACTTAATTGCT
18492206 TCTGCAGGGAGTATTTTCTTTCTGGCCATTTCAACACCCTAGCCAACTTAATTGC
1 TCTGCAGGGAGTATTTTCTTTCTGGCCATTTCAACACCCTAGCCAACTTAATTGC
18492261 CTTTGAGCCC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (56 bp):
TCTGCAGGGAGTATTTTCTTTCTGGCCATTTCAACACCCTAGCCAACTTAATTGCT
Found at i:18493713 original size:35 final size:35
Alignment explanation
Indices: 18493667--18493748 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
18493657 GTAAAACAAT
*
18493667 CCTTAATAAAAAAATGAAAAAAAAAT-CAATTGAAA
1 CCTTAGTAAAAAAAT-AAAAAAAAATGCAATTGAAA
* *** **
18493702 CCTTAGTAAAAATATAATTTATTATGCAATTGAAA
1 CCTTAGTAAAAAAATAAAAAAAAATGCAATTGAAA
18493737 CCTTAGTAAAAA
1 CCTTAGTAAAAA
18493749 TATACTCTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 5 0.13
35 34 0.87
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.28
Consensus pattern (35 bp):
CCTTAGTAAAAAAATAAAAAAAAATGCAATTGAAA
Found at i:18493760 original size:35 final size:35
Alignment explanation
Indices: 18493693--18493760 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
18493683 AAAAAAAAAT
*
18493693 CAATTGAAACCTTAGTAAAAATATAATTTATTATG
1 CAATTGAAACCTTAGTAAAAATATAATCTATTATG
*
18493728 CAATTGAAACCTTAGTAAAAATATACTCTATTA
1 CAATTGAAACCTTAGTAAAAATATAATCTATTA
18493761 AGTCTTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (35 bp):
CAATTGAAACCTTAGTAAAAATATAATCTATTATG
Found at i:18497571 original size:12 final size:11
Alignment explanation
Indices: 18497543--18497581 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
18497533 AATATAAAAC
18497543 AAAGAAAT--A
1 AAAGAAATAGA
18497552 AAAGAAATAGA
1 AAAGAAATAGA
18497563 AATAGAAATAGA
1 AA-AGAAATAGA
18497575 AAAGAAA
1 AAAGAAA
18497582 GAAAGAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.30
11 8 0.30
12 11 0.41
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (11 bp):
AAAGAAATAGA
Found at i:18497889 original size:18 final size:19
Alignment explanation
Indices: 18497860--18497895 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18497850 TGTGAAATTT
*
18497860 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
18497879 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
18497896 ATTTAGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:18500418 original size:164 final size:164
Alignment explanation
Indices: 18500147--18500470 Score: 603
Period size: 164 Copynumber: 2.0 Consensus size: 164
18500137 TATGATTGCC
*
18500147 TGTAACAGCCCGATTTTGGGCCTAGTTAGAACAGTAGTTTCGGGACCACTATTTCGAGGCCAGAG
1 TGTAACAGCCCGATTTTGGGCCTAGTCAGAACAGTAGTTTCGGGACCACTATTTCGAGGCCAGAG
*
18500212 AAAATTATTTTAGTATTATTTTGTGTTATAATATAATTTTATAAGTGTATGTAAATTTTGGTAAG
66 AAAATTATTTTAGTATTATTTTGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAG
18500277 TTAATTTTAGCGATTTCTAGTCCAATTTCGTAAA
131 TTAATTTTAGCGATTTCTAGTCCAATTTCGTAAA
* *
18500311 TGTAACAGCCCGATTTTGGGCCTAGTCAGAATAGTAGTTTCGGGACCACTATTTCGAGGCCAGAT
1 TGTAACAGCCCGATTTTGGGCCTAGTCAGAACAGTAGTTTCGGGACCACTATTTCGAGGCCAGAG
*
18500376 AAAATTATTTTAGTATTATTTTGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTTGTAAG
66 AAAATTATTTTAGTATTATTTTGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAG
18500441 TTAATTTTAGCGATTTCTAGTCCAATTTCG
131 TTAATTTTAGCGATTTCTAGTCCAATTTCG
18500471 AAAAAGGACT
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
164 155 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (164 bp):
TGTAACAGCCCGATTTTGGGCCTAGTCAGAACAGTAGTTTCGGGACCACTATTTCGAGGCCAGAG
AAAATTATTTTAGTATTATTTTGTGTTATAATATAATTTTATAAGTGCATGTAAATTTTGGTAAG
TTAATTTTAGCGATTTCTAGTCCAATTTCGTAAA
Found at i:18501040 original size:20 final size:18
Alignment explanation
Indices: 18501015--18501051 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
18501005 ATTGCTAAGT
18501015 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
18501035 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
18501052 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:18502054 original size:114 final size:114
Alignment explanation
Indices: 18501854--18502088 Score: 461
Period size: 114 Copynumber: 2.1 Consensus size: 114
18501844 AATGACCATG
18501854 AATGAGTAACTTAGCCTTGACAGATTTGAGTTACTGCAGTAGTGTAACTTTGAAAATACACTAAA
1 AATGAGTAACTTAGCCTTGACAGATTTGAGTTACTGCAGTAGTGTAACTTTGAAAATACACTAAA
18501919 AATAGTGGAAAATGAGTTAGAGGCAGAATAAAATATGGGATTAAAGCTT
66 AATAGTGGAAAATGAGTTAGAGGCAGAATAAAATATGGGATTAAAGCTT
18501968 AATGAGTAACTTAGCCTTGACAGATTTGAGTTACTGCAGTAGTGTAACTTTGAAAATACACTAAA
1 AATGAGTAACTTAGCCTTGACAGATTTGAGTTACTGCAGTAGTGTAACTTTGAAAATACACTAAA
*
18502033 AATAGTGGAAAATGAGTTAGAGGTAGAATAAAATATGGGATTAAAGCTT
66 AATAGTGGAAAATGAGTTAGAGGCAGAATAAAATATGGGATTAAAGCTT
18502082 AATGAGT
1 AATGAGT
18502089 CTATTTTCAC
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 120 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (114 bp):
AATGAGTAACTTAGCCTTGACAGATTTGAGTTACTGCAGTAGTGTAACTTTGAAAATACACTAAA
AATAGTGGAAAATGAGTTAGAGGCAGAATAAAATATGGGATTAAAGCTT
Found at i:18503015 original size:50 final size:50
Alignment explanation
Indices: 18502957--18503061 Score: 194
Period size: 50 Copynumber: 2.1 Consensus size: 50
18502947 TTTTAATGTG
*
18502957 AGTA-TGTAATATTATGATTTAGCCAAAGGCATTGGCTTGTTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTATTATTAAGGT
18503006 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTATTATTAAGGT
1 AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTATTATTAAGGT
18503056 AGTATT
1 AGTATT
18503062 AGTCATGTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 4 0.07
50 50 0.93
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (50 bp):
AGTATTGTAATATTATGATTTAGCCAAAGGCATTGGCTTATTATTAAGGT
Found at i:18504218 original size:47 final size:48
Alignment explanation
Indices: 18504142--18504414 Score: 192
Period size: 49 Copynumber: 5.8 Consensus size: 48
18504132 GACTTCTTAT
18504142 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGACGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGACGA
**
18504190 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C-TCGACGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGACGA
* * * **
18504234 TGATAGCCAGTGTAAGA-CGTGTTTGGGACA-CGCATCGGCTA-AGAG--TT
1 -G-T-GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAGACGA
* * * *
18504281 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACGTATATACGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC--AGAGACGA
* * ** * * * * * *
18504329 GAGCTAGAATAAGACCATGTCTGGGACATGGTATCGACCTCGGTGATGA
1 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCG-GCACAGAGACGA
*
18504378 -TAGCCAGTGTAAGACCGTGTCTGGGACATGGCATCGG
1 GT-GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
18504415 TTACTTATCC
Statistics
Matches: 173, Mismatches: 35, Indels: 34
0.71 0.14 0.14
Matches are distributed among these distances:
43 1 0.01
44 34 0.20
45 3 0.02
46 12 0.07
47 45 0.26
48 25 0.14
49 47 0.27
50 4 0.02
51 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.22
Consensus pattern (48 bp):
GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGACGA
Found at i:18504305 original size:44 final size:44
Alignment explanation
Indices: 18504140--18504313 Score: 190
Period size: 47 Copynumber: 3.8 Consensus size: 44
18504130 CAGACTTCTT
18504140 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAG
1 ATGTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-AGAG
* *
18504186 ACGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGACG
1 A--TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTAAGA-G
* * *
18504233 ATGATAGCCAGTGTAAGACGTGTTTGGGACACGCATCGGCTAAGAG
1 ATG-T-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAG
* *
18504279 TTGTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 ATGTGCCAGTGTAAGACATGTCTGGGACATGCATC
18504314 AGCACGTATA
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
44 27 0.25
45 2 0.02
46 16 0.15
47 49 0.45
48 14 0.13
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.22
Consensus pattern (44 bp):
ATGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAG
Found at i:18506191 original size:26 final size:26
Alignment explanation
Indices: 18506160--18506219 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
18506150 AAAGCTCTAG
*
18506160 AGAGCCATTAATTAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* * *
18506186 AGAGCCTTTAATCGGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
18506212 AGAGCCAT
1 AGAGCCAT
18506220 ATATCGGGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:18506234 original size:26 final size:26
Alignment explanation
Indices: 18506174--18506228 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
18506164 CCATTAATTA
*
18506174 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCCTATAATCG
*
18506200 GGAAGCTCACGAAGAGCC-ATATATCG
1 GGAAGCTCACAAAGAGCCTATA-ATCG
18506226 GGA
1 GGA
18506229 CACTCATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.16
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTATAATCG
Found at i:18510121 original size:36 final size:36
Alignment explanation
Indices: 18510066--18510142 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
18510056 AATATATGTT
* *
18510066 TTAATGTTTTAGTGCGAAATTGTAACTTATCTTTTC
1 TTAATGTTTTAATGCGAAATTGTAACTTATCTTCTC
*
18510102 TTAATGTTTTAATGTGAAATTGTAACTTATCTTCTC
1 TTAATGTTTTAATGCGAAATTGTAACTTATCTTCTC
18510138 TTAAT
1 TTAAT
18510143 ACATACACAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (36 bp):
TTAATGTTTTAATGCGAAATTGTAACTTATCTTCTC
Found at i:18511326 original size:14 final size:14
Alignment explanation
Indices: 18511307--18511334 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18511297 CAAATTACAT
18511307 GTTAGAATAGTATC
1 GTTAGAATAGTATC
18511321 GTTAGAATAGTATC
1 GTTAGAATAGTATC
18511335 ATTGGAAAAA
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:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:18512972 original size:50 final size:50
Alignment explanation
Indices: 18512854--18512977 Score: 205
Period size: 49 Copynumber: 2.5 Consensus size: 50
18512844 TCACAAATTC
*
18512854 CAAATAAATTACATAAAAAAATAAATCTAATAAACCTAAAACACACATGA
1 CAAATAAATTACATAAAAAAATAAATCTAATAAACCTAAAACACACAAGA
* *
18512904 CAAATAACTTACAT-AAAAAATAAATTTAATAAACCTAAAACACACAAGA
1 CAAATAAATTACATAAAAAAATAAATCTAATAAACCTAAAACACACAAGA
*
18512953 CAAATAAATTTCATAAAAAAATAAA
1 CAAATAAATTACATAAAAAAATAAA
18512978 ACATTCTTTC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
49 45 0.66
50 23 0.34
ACGTcount: A:0.63, C:0.15, G:0.02, T:0.21
Consensus pattern (50 bp):
CAAATAAATTACATAAAAAAATAAATCTAATAAACCTAAAACACACAAGA
Found at i:18513329 original size:18 final size:18
Alignment explanation
Indices: 18513306--18513341 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18513296 ATCCCAAACA
*
18513306 CAACTTCTTCTCTTTCCC
1 CAACTTCTTATCTTTCCC
18513324 CAACTTCTTATCTTTCCC
1 CAACTTCTTATCTTTCCC
18513342 TTTCTCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.42, G:0.00, T:0.44
Consensus pattern (18 bp):
CAACTTCTTATCTTTCCC
Found at i:18513983 original size:20 final size:21
Alignment explanation
Indices: 18513954--18514002 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
18513944 AACAGAAATT
*
18513954 TAAAAATTATTT-TAAATTAA
1 TAAAAATTATTTAAAAATTAA
*
18513974 TAAAAGTTATTTAAAAAATTAA
1 TAAAAATTATTT-AAAAATTAA
18513996 TAAAAAT
1 TAAAAAT
18514003 ATTACAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 11 0.46
22 13 0.54
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAAAATTATTTAAAAATTAA
Found at i:18514772 original size:26 final size:26
Alignment explanation
Indices: 18514738--18514790 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
18514728 AAACTATTAA
18514738 TAATGTTAAATATATTTTATTAATTT
1 TAATGTTAAATATATTTTATTAATTT
*
18514764 TAATTTTAAATATATTTTATTAATTT
1 TAATGTTAAATATATTTTATTAATTT
18514790 T
1 T
18514791 TGAAGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
TAATGTTAAATATATTTTATTAATTT
Found at i:18526548 original size:28 final size:28
Alignment explanation
Indices: 18526508--18526564 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
18526498 GACTGGAAAT
18526508 ACTGCAACAAAAAGATATAAAATAAAAC
1 ACTGCAACAAAAAGATATAAAATAAAAC
18526536 ACTGCAACAAAAAGATATAAAATAAAAC
1 ACTGCAACAAAAAGATATAAAATAAAAC
18526564 A
1 A
18526565 GCGATGTCCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.65, C:0.14, G:0.07, T:0.14
Consensus pattern (28 bp):
ACTGCAACAAAAAGATATAAAATAAAAC
Found at i:18530679 original size:22 final size:22
Alignment explanation
Indices: 18530653--18530696 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
18530643 GCATGTAGTT
18530653 ATAGGAATAAAATAGACAGGCC
1 ATAGGAATAAAATAGACAGGCC
18530675 ATAGGAATAAAATAGACAGGCC
1 ATAGGAATAAAATAGACAGGCC
18530697 GTAGCTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.23, T:0.14
Consensus pattern (22 bp):
ATAGGAATAAAATAGACAGGCC
Found at i:18530707 original size:22 final size:22
Alignment explanation
Indices: 18530653--18530701 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
18530643 GCATGTAGTT
*
18530653 ATAGGAATAAAATAGACAGGCC
1 ATAGCAATAAAATAGACAGGCC
*
18530675 ATAGGAATAAAATAGACAGGCC
1 ATAGCAATAAAATAGACAGGCC
*
18530697 GTAGC
1 ATAGC
18530702 TGTAAACCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.14, G:0.24, T:0.14
Consensus pattern (22 bp):
ATAGCAATAAAATAGACAGGCC
Found at i:18531245 original size:36 final size:36
Alignment explanation
Indices: 18531194--18531275 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 36
18531184 ATTGTAAACC
* * * *
18531194 ATGTTAACTTGGTGAATTATATTATTATGGCGAACT
1 ATGTTAATTTAGTGAACTATATTAATATGGCGAACT
* * *
18531230 ATGTTAATTTAGTGAACTGTATTAATATGGTGAATT
1 ATGTTAATTTAGTGAACTATATTAATATGGCGAACT
*
18531266 ATATTAATTT
1 ATGTTAATTT
18531276 GCCAAATTGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.45
Consensus pattern (36 bp):
ATGTTAATTTAGTGAACTATATTAATATGGCGAACT
Found at i:18531254 original size:18 final size:18
Alignment explanation
Indices: 18531225--18531275 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
18531215 TTATTATGGC
*
18531225 GAACTATGTTAATTTAGT
1 GAACTATATTAATTTAGT
* * *
18531243 GAACTGTATTAATATGGT
1 GAACTATATTAATTTAGT
*
18531261 GAATTATATTAATTT
1 GAACTATATTAATTT
18531276 GCCAAATTGT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (18 bp):
GAACTATATTAATTTAGT
Found at i:18534803 original size:38 final size:38
Alignment explanation
Indices: 18534706--18534807 Score: 150
Period size: 38 Copynumber: 2.7 Consensus size: 38
18534696 GGCTTAAAGA
** * *
18534706 CCCGCAGGCTTCGTGCTGGTAAAATATCCAGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCAAGATAAAT
18534744 CCCGCAGGCTTCGTGCTGGTATTATATCCAAGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCAAGATAAAT
* *
18534782 CCCGCAGGCCTAGTGCTGGTATTATA
1 CCCGCAGGCTTCGTGCTGGTATTATA
18534808 ATCGGGCCTT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCAAGATAAAT
Found at i:18534870 original size:43 final size:43
Alignment explanation
Indices: 18534809--18534914 Score: 194
Period size: 43 Copynumber: 2.5 Consensus size: 43
18534799 GGTATTATAA
18534809 TCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTGTAT
1 TCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTGTAT
*
18534852 TCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTAT
1 TCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTGTAT
*
18534895 TCGAGCCTTCGTGCCTAGCA
1 TCGGGCCTTCGTGCCTAGCA
18534915 GGCGTAATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 61 1.00
ACGTcount: A:0.11, C:0.27, G:0.32, T:0.29
Consensus pattern (43 bp):
TCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTGTAT
Found at i:18535362 original size:43 final size:44
Alignment explanation
Indices: 18535249--18535362 Score: 126
Period size: 45 Copynumber: 2.6 Consensus size: 44
18535239 TTGATTTGAT
* * * *
18535249 TATTCGGGCCTTTGAGCTTAGCAGACTATAATGTCGGTAAGATAC
1 TATTCGGGCC-TCGAGCCTAGCAGGCTATAAAGTCGGTAAGATAC
*
18535294 TATTCGGGCTTTCGAGCCTAGCAGGCTATAAAGTCGGTGAA-ATGA-
1 TATTCGGGC-CTCGAGCCTAGCAGGCTATAAAGTCGGT-AAGAT-AC
18535339 TA-TCGGGCCTCGAGCCTAGCAGGC
1 TATTCGGGCCTCGAGCCTAGCAGGC
18535363 GAAATGCCGG
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
43 15 0.25
44 6 0.10
45 36 0.60
46 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (44 bp):
TATTCGGGCCTCGAGCCTAGCAGGCTATAAAGTCGGTAAGATAC
Found at i:18540308 original size:31 final size:29
Alignment explanation
Indices: 18540273--18540330 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 29
18540263 TCAGTTCATA
*
18540273 TTTTACATACTTCAACTTCA-CATTTATATTC
1 TTTTACA-ACTT-AA-TTCAGCATATATATTC
18540304 TTTTACAACTTAATTCAGCATATATAT
1 TTTTACAACTTAATTCAGCATATATAT
18540331 ATGATGCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (29 bp):
TTTTACAACTTAATTCAGCATATATATTC
Found at i:18543885 original size:15 final size:15
Alignment explanation
Indices: 18543858--18543895 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
18543848 GTTTAAAATG
*
18543858 AAAT-AATACATAAT
1 AAATAAATAAATAAT
18543872 AAATAAATAAATAAT
1 AAATAAATAAATAAT
*
18543887 AATTAAATA
1 AAATAAATA
18543896 TATGTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATAAATAAATAAT
Found at i:18543967 original size:12 final size:12
Alignment explanation
Indices: 18543950--18544009 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
18543940 AAAATTATAG
18543950 ATAATATAATGA
1 ATAATATAATGA
*
18543962 ATAATATAAACGTAA
1 ATAATAT-AA--TGA
18543977 ATAATATAAT-A
1 ATAATATAATGA
18543988 GATAATATAATG-
1 -ATAATATAATGA
18544000 ATATATATAA
1 ATA-ATATAA
18544010 CCTATAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
11 4 0.10
12 24 0.59
13 2 0.05
14 2 0.05
15 9 0.22
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (12 bp):
ATAATATAATGA
Found at i:18543995 original size:39 final size:37
Alignment explanation
Indices: 18543940--18544033 Score: 111
Period size: 39 Copynumber: 2.5 Consensus size: 37
18543930 TATAAATTTT
* *
18543940 AAAATTATAGATAATATAATGA-ATAATATAAACGTA-A
1 AAAATAATAGATAATATAATGATAT-ATAT-AACCTATA
18543977 ATAATATAATAGATAATATAATGATATATATAACCTATA
1 A-AA-ATAATAGATAATATAATGATATATATAACCTATA
*
18544016 AAAATAATAAATAATATA
1 AAAATAATAGATAATATA
18544034 GAATAAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
37 15 0.30
38 9 0.18
39 24 0.48
40 2 0.04
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (37 bp):
AAAATAATAGATAATATAATGATATATATAACCTATA
Found at i:18544055 original size:17 final size:19
Alignment explanation
Indices: 18543950--18544058 Score: 61
Period size: 20 Copynumber: 5.7 Consensus size: 19
18543940 AAAATTATAG
*
18543950 ATAATATAATGAATAATATA
1 ATAATATAATAAATAATA-A
* *
18543970 A-ACGTA-AATAATATAATAG
1 ATA-ATATAATAA-ATAATAA
* *
18543989 ATAATATAAT-GAT-ATAT
1 ATAATATAATAAATAATAA
18544006 ATAACCTATAA-AAATAATAA
1 ATAA--TATAATAAATAATAA
18544026 ATAATATAGAATAAA-AATAA
1 ATAATAT--AATAAATAATAA
18544046 A-AATATAATAAAT
1 ATAATATAATAAAT
18544059 GTTATATAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 26
0.67 0.08 0.25
Matches are distributed among these distances:
17 13 0.19
18 5 0.07
19 20 0.29
20 28 0.41
21 3 0.04
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (19 bp):
ATAATATAATAAATAATAA
Found at i:18544057 original size:31 final size:30
Alignment explanation
Indices: 18544015--18544072 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
18544005 TATAACCTAT
18544015 AAAAATAATAAATAATATAGAATAAAAATA
1 AAAAATAATAAATAATATAGAATAAAAATA
** *
18544045 AAAATATAATAAATGTTATATAATAAAA
1 AAAA-ATAATAAATAATATAGAATAAAA
18544073 TATATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (30 bp):
AAAAATAATAAATAATATAGAATAAAAATA
Found at i:18544089 original size:25 final size:25
Alignment explanation
Indices: 18544041--18544108 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
18544031 ATAGAATAAA
18544041 AATAAAAATATAATAAATGTTATAT
1 AATAAAAATATAATAAATGTTATAT
** *
18544066 AATAAAATATATTTTAAATG-TATAGGA
1 AATAAAA-ATATAATAAATGTTATA--T
18544093 AATAAGAAATATAATA
1 AATAA-AAATATAATA
18544109 GTATAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
25 11 0.32
26 10 0.29
27 11 0.32
28 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (25 bp):
AATAAAAATATAATAAATGTTATAT
Found at i:18544233 original size:19 final size:19
Alignment explanation
Indices: 18544178--18544238 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
18544168 ATAATTAATT
*
18544178 AATAT-ATAATACAAGTAAA
1 AATATAATAATA-AAATAAA
*
18544197 AATATAATAATAATATAAA
1 AATATAATAATAAAATAAA
* *
18544216 AATGATAAT-GTAAAATAAT
1 AAT-ATAATAATAAAATAAA
18544235 AATA
1 AATA
18544239 ATTTGTGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.03
19 23 0.66
20 11 0.31
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (19 bp):
AATATAATAATAAAATAAA
Found at i:18544277 original size:12 final size:12
Alignment explanation
Indices: 18544260--18544317 Score: 59
Period size: 12 Copynumber: 4.9 Consensus size: 12
18544250 ATAAAACATA
18544260 ATAAATAATAAT
1 ATAAATAATAAT
18544272 ATAAATAAT-AT
1 ATAAATAATAAT
**
18544283 ATAAAATAATTTT
1 AT-AAATAATAAT
18544296 AT-AATATATAAT
1 ATAAATA-ATAAT
18544308 ATAAA-AATAA
1 ATAAATAATAA
18544318 GGTATAACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 12 0.31
12 22 0.56
13 5 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:18544290 original size:9 final size:10
Alignment explanation
Indices: 18544257--18544308 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
18544247 AAAATAAAAC
*
18544257 ATAATAAATA
1 ATAATATATA
18544267 ATAATATA-A
1 ATAATATATA
18544276 ATAATATATA
1 ATAATATATA
* *
18544286 A-AATAATTTT
1 ATAAT-ATATA
18544296 ATAATATATA
1 ATAATATATA
18544306 ATA
1 ATA
18544309 TAAAAATAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 12 0.35
10 19 0.56
11 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAATATATA
Found at i:18547505 original size:42 final size:42
Alignment explanation
Indices: 18547375--18547505 Score: 97
Period size: 42 Copynumber: 3.1 Consensus size: 42
18547365 TAAGATGCCA
* * * * ** *
18547375 ATGCCATATCCCAGATATGGTCTTACATGGGATCACGTATCG
1 ATGCAATAGCCCAGACATGGTCTTACACGAAATCACATATCG
* ** *
18547417 ATGCCAATAGCCCAG-CTATGCTCTTACACGATGTCTCATAAT-G
1 ATG-CAATAGCCCAGAC-ATGGTCTTACACGAAATCACAT-ATCG
*
18547460 ATGCTAT-GCCCCAGACATGGTCTTACACGAAATCACATATCG
1 ATGCAATAG-CCCAGACATGGTCTTACACGAAATCACATATCG
18547502 ATGC
1 ATGC
18547506 CGATGCCATG
Statistics
Matches: 68, Mismatches: 15, Indels: 12
0.72 0.16 0.13
Matches are distributed among these distances:
41 3 0.04
42 34 0.50
43 29 0.43
44 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (42 bp):
ATGCAATAGCCCAGACATGGTCTTACACGAAATCACATATCG
Found at i:18547530 original size:48 final size:47
Alignment explanation
Indices: 18547460--18547673 Score: 175
Period size: 48 Copynumber: 4.6 Consensus size: 47
18547450 TCTCATAATG
* * * * *
18547460 ATGCTATGCCCCAGACATGGTCTTACACGAAATCACATATCGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACG-GATCACATATCAATGCCA
* * * ** *
18547508 ATGCCATGTCCCAAATATGGTCTTACACTGGCTCACACGTCAAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACAC-GGATCACATATCAATGCCA
* * **
18547556 ATGCCATGTCCCAGACATGGTCTT--A-GCA-CACATATCAACGCTT
1 ATGCCATGTCCCAGACATGGTCTTACACGGATCACATATCAATGCCA
* * * * * *
18547599 ATGCCATGTCCCATACACGGTCTTATACGAGATCTCATCTCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACG-GATCACATATCAATGCCA
*
18547647 ATGCCATGTCCTAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
18547674 TGGGATCTCA
Statistics
Matches: 127, Mismatches: 33, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
43 32 0.25
44 1 0.01
45 1 0.01
46 2 0.02
47 1 0.01
48 89 0.70
49 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACGGATCACATATCAATGCCA
Found at i:18547588 original size:91 final size:91
Alignment explanation
Indices: 18547493--18547671 Score: 209
Period size: 91 Copynumber: 2.0 Consensus size: 91
18547483 TACACGAAAT
* * * * *
18547493 CACATATCGATGCCGATGCCATGTCCCAAATATGGTCTTACACTG-GCTCACA-CGTCAAGGCCA
1 CACATATCAACGCCGATGCCATGTCCCAAACACGGTCTTACAC-GAGATCACATC-TCAAGGCCA
18547556 ATGCCATGTCCCAGACATGGTCTTAGCA
64 ATGCCATGTCCCAGACATGGTCTTAGCA
** * * * * *
18547584 CACATATCAACGCTTATGCCATGTCCCATACACGGTCTTATACGAGATCTCATCTCGATGCCAAT
1 CACATATCAACGCCGATGCCATGTCCCAAACACGGTCTTACACGAGATCACATCTCAAGGCCAAT
*
18547649 GCCATGTCCTAGACATGGTCTTA
66 GCCATGTCCCAGACATGGTCTTA
18547672 CATGGGATCT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
90 1 0.01
91 71 0.97
92 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (91 bp):
CACATATCAACGCCGATGCCATGTCCCAAACACGGTCTTACACGAGATCACATCTCAAGGCCAAT
GCCATGTCCCAGACATGGTCTTAGCA
Found at i:18549826 original size:44 final size:42
Alignment explanation
Indices: 18549735--18549842 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 42
18549725 TTCAATGAAC
* * *
18549735 TCGCACACTTAGTGCCAATTTATTAGCCGAAGCTATAATTATA
1 TCGCACACTTAGTGCC-ATTTATAAACCGAAGCTATAATCATA
18549778 TCGCACACTTAGTGCCATTATAGTAAACCGAA-CTCAT-ATCAGTA
1 TCGCACACTTAGTGCCATT-TA-TAAACCGAAGCT-ATAATCA-TA
*
18549822 TCGCACACATAGTGCCATTTA
1 TCGCACACTTAGTGCCATTTA
18549843 CTTAGCCAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
42 3 0.05
43 25 0.44
44 29 0.51
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGCACACTTAGTGCCATTTATAAACCGAAGCTATAATCATA
Found at i:18549976 original size:31 final size:29
Alignment explanation
Indices: 18549941--18549998 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 29
18549931 TCAGTTCATA
*
18549941 TTTTACATACTTCAACTTCA-CATTTATATTC
1 TTTTACA-ACTT-AA-TTCAGCATATATATTC
18549972 TTTTACAACTTAATTCAGCATATATAT
1 TTTTACAACTTAATTCAGCATATATAT
18549999 ATGATGCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.47
Consensus pattern (29 bp):
TTTTACAACTTAATTCAGCATATATATTC
Found at i:18565056 original size:119 final size:119
Alignment explanation
Indices: 18564704--18565059 Score: 570
Period size: 119 Copynumber: 3.0 Consensus size: 119
18564694 CAAATTGAAG
* * *
18564704 ATAGCAGATCTAGA-CTTCAGACATTTATGCTGAAGCAGATCCAAGATGATTTGGTTTTCTTGTG
1 ATAGCAGATCTA-ACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * * *
18564768 TTTACAAGGAACAAATTGAGGACATAGCATATTTGACTCTCAAATGTTCTCAAAT
65 TTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAATGTTCTTAAAT
* *
18564823 ATAGCAGATCTAACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
*
18564888 TTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTTAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAATGTTCTTAAAT
* * *
18564942 GTAGCAGATCTAACCTTCAAATATTTATACTGAAGCAGATCCAAGATCATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
*
18565007 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTTAAA
66 TTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAATGTTCTTAAA
18565060 CAAACTCAAG
Statistics
Matches: 219, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
118 1 0.00
119 218 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAATGTTCTTAAAT
Found at i:18565245 original size:115 final size:116
Alignment explanation
Indices: 18565066--18565376 Score: 444
Period size: 115 Copynumber: 2.6 Consensus size: 116
18565056 TAAACAAACT
* *
18565066 CAAGAGGGTTTGGCATCCTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTCA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGAC--A-CGAGGACATAGCAGATTTGACTCTCA
* * *
18565131 GACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
63 AAAGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
18565185 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGAC-CGAGGACATAGCAGATTTGACTCTCAAAA
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACACGAGGACATAGCAGATTTGACTCTCAAAA
*
18565249 GTTCTCAAATGTAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
66 GTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
* * * * * *
18565300 CAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAATCGAGGACGTAGCAGATATGACTCTCG
1 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGAC--A-CGAGGACATAGCAGATTTGACTCTCA
*
18565365 AATGTTCTCAAA
63 AAAGTTCTCAAA
18565377 ACAGACTCAA
Statistics
Matches: 175, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
115 107 0.61
119 68 0.39
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (116 bp):
CAAGATGGTTTGGCATCCTTGTGCTTACAAGGGACACGAGGACATAGCAGATTTGACTCTCAAAA
GTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATC
Found at i:18565355 original size:317 final size:319
Alignment explanation
Indices: 18564762--18565386 Score: 957
Period size: 317 Copynumber: 2.0 Consensus size: 319
18564752 ATTTGGTTTT
* * * *
18564762 CTTGTGTTTACAAGGAACAAATTGAGGACATAGCATATTTGACTCTCAAATGTTCTCAAATATAG
1 CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATATAG
* * * *
18564827 CAGATCTAACTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
66 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTAC
*
18564892 AAGGAACAAATCGAGGACATAGCAGATATGACTCTCAAAAGTTCTTAAATGTAGCAGATCTAACC
131 AAGGAAC--A-CGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATGTAGCAGATCTAACC
* * **
18564957 TTCAAATATTTATACTGAAGCAGATCCAAGATCATTTGGTATTCTTGTGTTTACAAGGAACAAAT
193 TTCAAATATTTATACTGAAGCAGATCCAAGATCATTTGGCATCCTTGTACTTACAAGGAACAAAT
* *
18565022 CGAGGACATTGCAGATATGACTCTCAAATGTTCT-TAAACAAACTCAAGAGGGTTTGGCATC
258 CGAGGACATAGCAGATATGACTCTCAAATGTTCTCAAAACAAACTCAAGAGGGTTTGGCATC
* * * *
18565083 CTTGTGCTTACAAGGGACAAATCGAGGACATAGCAGATTTGATTCTCAGACGTTCTCAGATATAG
1 CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATATAG
*
18565148 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTAC
66 CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTAC
* *
18565213 AAGGGAC-CGAGGACATAGCAGATTTGACTCTCAAAAGTTCTCAAATGTAGCAGATCTAACCTTC
131 AAGGAACACGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATGTAGCAGATCTAACCTTC
* * *
18565277 AGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTACTTACAAGGAACAAATCGA
196 AAATATTTATACTGAAGCAGATCCAAGATCATTTGGCATCCTTGTACTTACAAGGAACAAATCGA
* * *
18565342 GGACGTAGCAGATATGACTCTCGAATGTTCTCAAAACAGACTCAA
261 GGACATAGCAGATATGACTCTCAAATGTTCTCAAAACAAACTCAA
18565387 ACTGATTTGG
Statistics
Matches: 275, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
317 141 0.51
318 11 0.04
321 123 0.45
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (319 bp):
CTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATATAG
CAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTAC
AAGGAACACGAGGACATAGCAGATATGACTCTCAAAAGTTCTCAAATGTAGCAGATCTAACCTTC
AAATATTTATACTGAAGCAGATCCAAGATCATTTGGCATCCTTGTACTTACAAGGAACAAATCGA
GGACATAGCAGATATGACTCTCAAATGTTCTCAAAACAAACTCAAGAGGGTTTGGCATC
Found at i:18572473 original size:22 final size:21
Alignment explanation
Indices: 18572448--18572488 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
18572438 TTAAATCTCC
18572448 AAGATTACAAGATCATATCTTA
1 AAGATTAC-AGATCATATCTTA
* *
18572470 AAGATTGCATATCATATCT
1 AAGATTACAGATCATATCT
18572489 AAGATTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (21 bp):
AAGATTACAGATCATATCTTA
Found at i:18572494 original size:19 final size:19
Alignment explanation
Indices: 18572459--18572537 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
18572449 AGATTACAAG
18572459 ATCATATCTTAAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
18572480 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
18572497 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18572516 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18572535 ATC
1 ATC
18572538 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:18572514 original size:36 final size:38
Alignment explanation
Indices: 18572459--18572547 Score: 134
Period size: 36 Copynumber: 2.4 Consensus size: 38
18572449 AGATTACAAG
18572459 ATCATATCTTAAAGATTGCATATCATATCTAAGATTGT
1 ATCATATCTTAAAGATTGCATATCATATCTAAGATTGT
18572497 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG-
1 ATCATATCTTAAAGATTGCATATCATATCTAAGATTGT
18572532 --CATATCCTTAAAGATT
1 ATCATAT-CTTAAAGATT
18572548 ATATTTCCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
33 5 0.10
34 1 0.02
35 1 0.02
36 32 0.67
37 1 0.02
38 8 0.17
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (38 bp):
ATCATATCTTAAAGATTGCATATCATATCTAAGATTGT
Found at i:18573452 original size:206 final size:206
Alignment explanation
Indices: 18572920--18573712 Score: 1210
Period size: 206 Copynumber: 3.9 Consensus size: 206
18572910 AATCTGTTAT
* * *
18572920 CTTCGATCTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * * * * *
18572985 GCGAAAACCAAATCAACTATGTCTTCAATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
* * * ** * *
18573050 CGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTTGAATATG
131 CGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
18573115 GAGACGCCAAA
196 GAGACGCCAAA
* * *
18573126 CTTCGATTTGTTCTCTG-CAATACAGATATGCCAAATCATCTTAGATTTGCTTTATCGTAAGTAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * *
18573190 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGTACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
* ** * *
18573255 CGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTGTCTTCTCTCTGTCGAATATG
131 CGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
18573320 GAGACGCCAAA
196 GAGACGCCAAA
* *
18573331 CTTTGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
18573396 GTGAAAGCCAAATCAGCTATGTCTTCAATTTATTCCTTGTAAGCACAAGGATGCCAAATCACCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
* * **
18573461 AGATCTGCTTTAGTATAAACATATGAAGGCCAGATCAACTATGTGTCTGCTCTCCGTCGAATATG
131 CGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
18573526 GAGACGCCAAA
196 GAGACGCCAAA
*
18573537 CTTCGATTTGTTCTCTGACAATACAGATATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
18573602 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
* * *
18573667 GGCTCTGCTTCAGTATAAACATATGAAGGCCAGATTTGCTATGTGT
131 CGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGT
18573713 GTAATATCCC
Statistics
Matches: 535, Mismatches: 51, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
205 185 0.35
206 350 0.65
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTT
CGATCTGCTTCAGTATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCTCTCCGTCGAATATG
GAGACGCCAAA
Found at i:18576201 original size:49 final size:49
Alignment explanation
Indices: 18575235--18576193 Score: 1749
Period size: 49 Copynumber: 19.5 Consensus size: 49
18575225 TGAGGTCGCA
* * * * *
18575235 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * *** **
18575286 TGTGTAGTATTAAGTGTAGGCTACTA-GTGTATTAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
18575335 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18575384 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18575433 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18575482 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18575531 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18575580 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18575629 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18575678 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18575727 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18575776 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18575825 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18575874 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18575923 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18575972 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18576021 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
18576070 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
18576119 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
18576168 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
18576194 TGCGTACCAG
Statistics
Matches: 886, Mismatches: 20, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
48 1 0.00
49 845 0.95
50 16 0.02
51 24 0.03
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:18580820 original size:6 final size:6
Alignment explanation
Indices: 18580809--18581136 Score: 306
Period size: 6 Copynumber: 54.2 Consensus size: 6
18580799 AACCAAAATG
*
18580809 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
18580857 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
*
18580906 AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC
* *
18580954 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC
*
18581003 AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC AGAATC
* *
18581051 AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* *
18581100 AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC A
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC A
18581137 AAATTACGTG
Statistics
Matches: 269, Mismatches: 22, Indels: 62
0.76 0.06 0.18
Matches are distributed among these distances:
5 22 0.08
6 223 0.83
7 18 0.07
8 6 0.02
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:18580824 original size:30 final size:30
Alignment explanation
Indices: 18580788--18581158 Score: 383
Period size: 30 Copynumber: 12.8 Consensus size: 30
18580778 AAGAAACATT
* *
18580788 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
18580818 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
18580848 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
18580878 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
18580909 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
18580933 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
18580963 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
18580994 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
18581018 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
18581048 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
18581079 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* *
18581103 ATCAGTATTAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
18581133 ATCAAAATTACGTG-ACAGAATCAGAA
1 ATCAGAATTA-G-GAACAGAATCAGAA
18581159 CCAAAATGTG
Statistics
Matches: 294, Mismatches: 17, Indels: 59
0.79 0.05 0.16
Matches are distributed among these distances:
24 64 0.22
27 3 0.01
28 3 0.01
29 1 0.00
30 138 0.47
31 85 0.29
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:18580909 original size:85 final size:85
Alignment explanation
Indices: 18580809--18581158 Score: 673
Period size: 85 Copynumber: 4.1 Consensus size: 85
18580799 AACCAAAATG
18580809 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
18580874 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
18580894 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
18580959 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
18580979 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
18581044 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
*
18581064 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
* *
18581129 CAGAATCAAAATTACGTGAC
66 CAGAATCAGAATTAGGTGAC
18581149 AGAATCAGAA
1 AGAATCAGAA
18581159 CCAAAATGTG
Statistics
Matches: 262, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 262 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
CAGAATCAGAATTAGGTGAC
Found at i:18581331 original size:27 final size:28
Alignment explanation
Indices: 18581288--18581356 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
18581278 GGCTGCCAGA
* * * *
18581288 ACAGATATCGTGTCAGAGTCACTA-GAT
1 ACAGATATTGTGGCAGAGCCACCAGGAT
18581315 ACAGATATTGTGGCAGAGCCACCAGGAT
1 ACAGATATTGTGGCAGAGCCACCAGGAT
*
18581343 -CAGATAATGTGGCA
1 ACAGATATTGTGGCA
18581357 AACCCACCTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 33 0.92
28 3 0.08
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (28 bp):
ACAGATATTGTGGCAGAGCCACCAGGAT
Found at i:18581746 original size:27 final size:26
Alignment explanation
Indices: 18581667--18581748 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 26
18581657 TCGATCGATC
* * *
18581667 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
18581693 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
18581720 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
18581747 AA
1 AA
18581749 TGCTTCCTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:18581978 original size:27 final size:27
Alignment explanation
Indices: 18581948--18582143 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
18581938 GGGGCAAAAT
* * *
18581948 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18581975 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
18582002 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18582029 GATAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18582056 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
18582083 AGTAATTCTACCCTATAAGGATATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
18582110 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
18582137 AGTAATT
1 GGTAATT
18582144 TCACAATCAA
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:18582178 original size:27 final size:27
Alignment explanation
Indices: 18582148--18582638 Score: 555
Period size: 27 Copynumber: 18.2 Consensus size: 27
18582138 GTAATTTCAC
* *
18582148 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
18582175 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
18582202 AA-CTGATGGT-AAACTAGTAATTCTATA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
** * * **
18582229 AATTAAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
18582256 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
18582283 AATCAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
18582310 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
18582337 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
18582364 AA-CTTAGGATAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
18582391 AATCGAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
18582418 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
18582445 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
18582472 AA-CTGAGGGTAAAATGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
18582499 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
18582526 AA-CTGAGGGTAAAACGATAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
18582553 AATCAAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
18582580 AATCGAGGGTAAAACGGTAATTCT-TGA
1 AATCGAGGGTAAAACGGTAATTCTGT-A
18582607 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
18582634 AATCG
1 AATCG
18582639 GGAGTACTTT
Statistics
Matches: 391, Mismatches: 59, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.02
27 373 0.95
28 9 0.02
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:18584847 original size:49 final size:49
Alignment explanation
Indices: 18584758--18584852 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
18584748 TCTATTGTGA
* *
18584758 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* *
18584807 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
18584853 GCTTTGGCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:18585178 original size:64 final size:64
Alignment explanation
Indices: 18585099--18585225 Score: 245
Period size: 64 Copynumber: 2.0 Consensus size: 64
18585089 GTGTTGGACA
18585099 GCAGCAGTTGCATGACTTTGAAAATTCACTAAAAATTTTGGAAGTTGAATAAAAATGCAAATGT
1 GCAGCAGTTGCATGACTTTGAAAATTCACTAAAAATTTTGGAAGTTGAATAAAAATGCAAATGT
*
18585163 GCAGTAGTTGCATGACTTTGAAAATTCACTAAAAATTTTGGAAGTTGAATAAAAATGCAAATG
1 GCAGCAGTTGCATGACTTTGAAAATTCACTAAAAATTTTGGAAGTTGAATAAAAATGCAAATG
18585226 ATATATGAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.30
Consensus pattern (64 bp):
GCAGCAGTTGCATGACTTTGAAAATTCACTAAAAATTTTGGAAGTTGAATAAAAATGCAAATGT
Found at i:18585951 original size:44 final size:44
Alignment explanation
Indices: 18585896--18586177 Score: 232
Period size: 44 Copynumber: 6.4 Consensus size: 44
18585886 TCCTTGTAAG
*
18585896 CACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAA
1 CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAA
** * * * *
18585940 CACAGGGATGCC--ATGCTGAAATCTTCGA-TCTGCTTCGCTGTAAG
1 CACAGGGATGCCAAAT-CTGCTATCTTCAACT-TG-TTCCCTATAAA
* * * * *
18585984 CACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAA
1 CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAA
18586028 CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAA
1 CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAA
* ** * ** * * *
18586072 CACAAGGATGCC--ATGCTGAAATCTTCGATCTACTTCGCTGTAAG
1 CACAGGGATGCCAAAT-CTGCTATCTTC-AACTTGTTCCCTATAAA
** * * * *
18586116 CATTGGAATGTCAGATCTGCTATCTTCAATTTGTTCCCTATAAA
1 CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAA
*
18586160 CACAGGGGTGCCAAATCT
1 CACAGGGATGCCAAATCT
18586178 TGTTTCTTTG
Statistics
Matches: 180, Mismatches: 48, Indels: 20
0.73 0.19 0.08
Matches are distributed among these distances:
42 5 0.03
43 21 0.12
44 127 0.71
45 22 0.12
46 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (44 bp):
CACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAA
Found at i:18586043 original size:132 final size:132
Alignment explanation
Indices: 18585874--18586177 Score: 509
Period size: 132 Copynumber: 2.3 Consensus size: 132
18585864 ATCAGCTATG
* * * * *
18585874 TCTTCGATTTGATCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
* *
18585939 ACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGC
66 ACACAAGGATGCCATGCTGAAATCTTCGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTGC
18586004 TA
131 TA
18586006 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
**
18586071 ACACAAGGATGCCATGCTGAAATCTTCGATCTACTTCGCTGTAAGCATTGGAATGTCAGATCTGC
66 ACACAAGGATGCCATGCTGAAATCTTCGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTGC
18586136 TA
131 TA
* *
18586138 TCTTCAATTTGTTCCCTATAAACACAGGGGTGCCAAATCT
1 TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
18586178 TGTTTCTTTG
Statistics
Matches: 161, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 161 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (132 bp):
TCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAA
ACACAAGGATGCCATGCTGAAATCTTCGATCTACTTCGCTGTAAGCACAGGAATGTCAGATCTGC
TA
Found at i:18593799 original size:19 final size:19
Alignment explanation
Indices: 18593764--18594604 Score: 1655
Period size: 19 Copynumber: 44.2 Consensus size: 19
18593754 AAATTACAAG
*
18593764 ATCATATCTTCAAGATTGTAT
1 ATCATATC-T-AAGATTGCAT
18593785 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18593804 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18593823 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18593842 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18593861 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18593880 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18593899 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18593918 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18593937 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18593956 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18593975 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18593994 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594013 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594032 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594051 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594070 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594089 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594108 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594127 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594146 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594165 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594184 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594203 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594222 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594241 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594260 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594279 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594298 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594317 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594336 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594355 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594374 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594393 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594412 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594431 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594450 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594469 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594488 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594507 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594526 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594545 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594564 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594583 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
18594602 ATC
1 ATC
18594605 CTTAAAGATT
Statistics
Matches: 819, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
19 810 0.99
20 1 0.00
21 8 0.01
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:18595371 original size:27 final size:27
Alignment explanation
Indices: 18595341--18595399 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
18595331 ATATTTCGTC
* *
18595341 GGGACAGTAAACACGTGATAGTCTACT
1 GGGACAGTAAACACGGGATAGTCCACT
** * *
18595368 GGGATGGTAAACATGGGATAGTCCATT
1 GGGACAGTAAACACGGGATAGTCCACT
18595395 GGGAC
1 GGGAC
18595400 CCTAAAAATG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (27 bp):
GGGACAGTAAACACGGGATAGTCCACT
Found at i:18599123 original size:50 final size:50
Alignment explanation
Indices: 18599067--18599203 Score: 157
Period size: 51 Copynumber: 2.7 Consensus size: 50
18599057 ATCTGGTACG
**
18599067 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTACCCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCTACCCATAAGATACA
* * * ** *** * *
18599117 CGTAGTAGCCTGCACTTAGTACTGCACAGGTGATCGAAGTTATAAGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTACCCATAAGATACA
18599168 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACCT
18599204 CACAATAGAT
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
50 31 0.45
51 38 0.55
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACCTACCCATAAGATACA
Found at i:18599517 original size:76 final size:76
Alignment explanation
Indices: 18599432--18599582 Score: 275
Period size: 76 Copynumber: 2.0 Consensus size: 76
18599422 ATTAGTCACA
18599432 TATTCATATGGATCTAAAAATCACATTTTTACAAATTTGCATTTTGACCCCTAAACTTTTGCATA
1 TATTCATATGGATCTAAAAATCACATTTTTACAAATTTGCATTTTGACCCCTAAACTTTTGCATA
18599497 TTTACACTTTC
66 TTTACACTTTC
* * *
18599508 TATTCATATGGGTCTAAAAATCATATTTTTACAAATTTTCATTTTGACCCCTAAACTTTTGCATA
1 TATTCATATGGATCTAAAAATCACATTTTTACAAATTTGCATTTTGACCCCTAAACTTTTGCATA
18599573 TTTACACTTT
66 TTTACACTTT
18599583 TTCCCCAAGG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.44
Consensus pattern (76 bp):
TATTCATATGGATCTAAAAATCACATTTTTACAAATTTGCATTTTGACCCCTAAACTTTTGCATA
TTTACACTTTC
Found at i:18603417 original size:47 final size:47
Alignment explanation
Indices: 18603375--18604243 Score: 1677
Period size: 47 Copynumber: 18.5 Consensus size: 47
18603365 TATACACTTC
* * * *
18603375 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCA-TGTT
18603422 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
*
18603469 CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18603516 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18603563 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18603610 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18603657 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18603704 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18603751 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18603798 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18603845 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18603892 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18603939 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18603986 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18604033 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18604080 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18604127 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18604174 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
1 CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
18604221 CACATTCATCACATTGGCCATTC
1 CACATTCATCACATTGGCCATTC
18604244 GATTGGCCAT
Statistics
Matches: 815, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
46 1 0.00
47 814 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.36
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCAGCCTTATCTCATATATGCATGTT
Found at i:18604255 original size:59 final size:59
Alignment explanation
Indices: 18604186--18604362 Score: 300
Period size: 59 Copynumber: 3.0 Consensus size: 59
18604176 CATTCATCAC
* * * **
18604186 ATTGGCCATTCAGCCTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCG
1 ATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCG
18604245 ATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCG
1 ATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCG
*
18604304 ATTGGCCATTCGGCCTTATCACACATACACATGTTCATATTCATCACATTGGCCATTCG
1 ATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCG
18604363 GCCTTATCAC
Statistics
Matches: 112, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 112 1.00
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.33
Consensus pattern (59 bp):
ATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCG
Found at i:18604301 original size:47 final size:47
Alignment explanation
Indices: 18604245--18604422 Score: 167
Period size: 59 Copynumber: 3.5 Consensus size: 47
18604235 TGGCCATTCG
18604245 ATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTC
1 ATTGGCCATTCGGCCTTATCACACATACACATGTTCACA-T--T--CA-T---CA--C
*
18604303 GATTGGCCATTCGGCCTTATCACACATACACATGTTCATATTCATCAC
1 -ATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCAC
* * * *
18604351 ATTGGCCATTCGGCCTTATCACGCATATATATACTTTCACATTCATCAC
1 ATTGGCCATTCGGCCTTATCACACATACACAT--GTTCACATTCATCAC
* *
18604400 ATTGGCCACTCGGCCCTATCACA
1 ATTGGCCATTCGGCCTTATCACA
18604423 TATATATACT
Statistics
Matches: 108, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
47 29 0.27
48 1 0.01
49 33 0.31
50 2 0.02
53 1 0.01
54 2 0.02
56 1 0.01
58 1 0.01
59 38 0.35
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (47 bp):
ATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCAC
Found at i:18604413 original size:49 final size:48
Alignment explanation
Indices: 18604304--18604433 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 48
18604294 TGGCCATTCG
* * * *
18604304 ATTGGCCATTCGGCCTTATCACACATACACAT--GTTCATATTCATCAC
1 ATTGGCCATTCGGCCTTATCAC-CATATATATACTTTCACATTCATCAC
18604351 ATTGGCCATTCGGCCTTATCACGCATATATATACTTTCACATTCATCAC
1 ATTGGCCATTCGGCCTTATCAC-CATATATATACTTTCACATTCATCAC
* *
18604400 ATTGGCCACTCGGCCCTATCA-CATATATATACTT
1 ATTGGCCATTCGGCCTTATCACCATATATATACTT
18604434 GTACATCAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
47 42 0.57
49 32 0.43
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (48 bp):
ATTGGCCATTCGGCCTTATCACCATATATATACTTTCACATTCATCAC
Found at i:18609833 original size:73 final size:73
Alignment explanation
Indices: 18609747--18609897 Score: 268
Period size: 73 Copynumber: 2.1 Consensus size: 73
18609737 CTAATTAGTC
* * *
18609747 ACAC-TATTCATATGGGTCTAAAAATCATATTTTTACAAATTTTCATTTTGACCCCTAAACTTTT
1 ACACTTATTCATATGGATCTAAAAATCACATTTTTACAAATTTGCATTTTGACCCCTAAACTTTT
18609811 GCATATTT
66 GCATATTT
18609819 ACACTTATTCATATGGATCTAAAAATCACATTTTTACAAATTTGCATTTTGACCCCTAAACTTTT
1 ACACTTATTCATATGGATCTAAAAATCACATTTTTACAAATTTGCATTTTGACCCCTAAACTTTT
18609884 GCATATTT
66 GCATATTT
18609892 ACACTT
1 ACACTT
18609898 TTTCCCTAAG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 4 0.05
73 71 0.95
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (73 bp):
ACACTTATTCATATGGATCTAAAAATCACATTTTTACAAATTTGCATTTTGACCCCTAAACTTTT
GCATATTT
Found at i:18611345 original size:31 final size:32
Alignment explanation
Indices: 18611302--18611370 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
18611292 ATTAAATTGA
*
18611302 TTTTTGTT-TTATATTAAATTATTT-AAA-AT
1 TTTTTATTCTTATATTAAATTATTTGAAATAT
* *
18611331 TTATTTATTCTTATATTTAATTTTTTGAAATAT
1 TT-TTTATTCTTATATTAAATTATTTGAAATAT
18611364 TTTTTAT
1 TTTTTAT
18611371 ATATAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 2 0.06
30 5 0.15
31 14 0.42
32 8 0.24
33 4 0.12
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.65
Consensus pattern (32 bp):
TTTTTATTCTTATATTAAATTATTTGAAATAT
Found at i:18612594 original size:22 final size:22
Alignment explanation
Indices: 18612568--18612610 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18612558 TGACCTAAAT
18612568 TTAAA-TTTAAAAAAATAAAAAA
1 TTAAACTTT-AAAAAATAAAAAA
*
18612590 TTAAACTTTTAAAAATAAAAA
1 TTAAACTTTAAAAAATAAAAA
18612611 TATAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TTAAACTTTAAAAAATAAAAAA
Found at i:18616031 original size:21 final size:22
Alignment explanation
Indices: 18616007--18616047 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
18615997 AAACACTCAT
18616007 TTTCCTTTTT-CAATTGAACAA
1 TTTCCTTTTTCCAATTGAACAA
*
18616028 TTTCCTTTTTCCATTTGAAC
1 TTTCCTTTTTCCAATTGAAC
18616048 CCTAATGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.51
Consensus pattern (22 bp):
TTTCCTTTTTCCAATTGAACAA
Found at i:18618801 original size:16 final size:16
Alignment explanation
Indices: 18618780--18618812 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18618770 TCTTTTAGTA
18618780 TTTATCTATT-CAATTT
1 TTTATCT-TTCCAATTT
18618796 TTTATCTTTCCAATTT
1 TTTATCTTTCCAATTT
18618812 T
1 T
18618813 CATTTCACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTATCTTTCCAATTT
Found at i:18619666 original size:17 final size:19
Alignment explanation
Indices: 18619630--18619669 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18619620 TTTTCAATAA
18619630 AAAATACATAAGATTTTAT
1 AAAATACATAAGATTTTAT
*
18619649 AAAATATATAA-A-TTTAT
1 AAAATACATAAGATTTTAT
18619666 AAAA
1 AAAA
18619670 AGAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 1 0.05
19 10 0.50
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAATACATAAGATTTTAT
Found at i:18628909 original size:40 final size:40
Alignment explanation
Indices: 18628846--18628923 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
18628836 TGCAGTACCT
* * * * *
18628846 TATGGTGTGTAGGGTTGGATGGGTTGATTTTATTCCCATA
1 TATGGTGTGCAGGGATAGATGGGTTAATTTTATCCCCATA
*
18628886 TATGGTGTGCAGGGATAGTTGGGTTAATTTTATCCCCA
1 TATGGTGTGCAGGGATAGATGGGTTAATTTTATCCCCA
18628924 CAAGGTGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.19, C:0.10, G:0.31, T:0.40
Consensus pattern (40 bp):
TATGGTGTGCAGGGATAGATGGGTTAATTTTATCCCCATA
Found at i:18636047 original size:39 final size:39
Alignment explanation
Indices: 18635967--18636162 Score: 225
Period size: 39 Copynumber: 5.0 Consensus size: 39
18635957 AAATCCAATC
* * *
18635967 ACCAACACAAAGCATGCGGGACTTTAAGCCCAGATATAAT
1 ACCAGCACAAAGCCTGCGGGACTTT-AGCCCGGATATAAT
18636007 ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAAT
1 ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAAT
* *
18636046 ACCAGCACAAAGCCTGCAGGACTTTAGCCCGAATATAAT
1 ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAAT
* * * * *
18636085 ACCAGCACGAATGCCTTCGGGGC-TTAACCCGGATATAAC
1 ACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAAT
* * * *
18636124 ACCAGCACGAATGCCTTCAGGAC-TTAGCCCGAATATAAT
1 ACCAGCAC-AAAGCCTGCGGGACTTTAGCCCGGATATAAT
18636163 TCTCTATTAT
Statistics
Matches: 138, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 105 0.76
40 33 0.24
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (39 bp):
ACCAGCACAAAGCCTGCGGGACTTTAGCCCGGATATAAT
Found at i:18639155 original size:26 final size:26
Alignment explanation
Indices: 18639109--18639161 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
18639099 TCAAACATGC
*
18639109 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
18639135 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
18639161 A
1 A
18639162 AAACTGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:18640674 original size:26 final size:26
Alignment explanation
Indices: 18640643--18640750 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
18640633 TGAAATGCCC
18640643 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
18640669 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
18640695 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
18640721 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
18640747 ATCA
1 ATCA
18640751 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:18642631 original size:18 final size:17
Alignment explanation
Indices: 18642594--18642632 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
18642584 ATTTGGACTA
**
18642594 TGTGGGCCACACGGGTG
1 TGTGGGCCACACGGACG
18642611 TGTGGGCCTACACGGACG
1 TGTGGGCC-ACACGGACG
18642629 TGTG
1 TGTG
18642633 AGCCCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.13, C:0.23, G:0.44, T:0.21
Consensus pattern (17 bp):
TGTGGGCCACACGGACG
Found at i:18643022 original size:40 final size:40
Alignment explanation
Indices: 18642959--18643036 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
18642949 TGCAGTACTT
* * *
18642959 TATGGTGTGTAGGGTTGGATGGGTCGATTTTATCCCCATA
1 TATGGTGTGCAGGGATGGATGGGTCGATATTATCCCCATA
* *
18642999 TATGGTTTGCAGGGATGGGTGGGTCGATATTATCCCCA
1 TATGGTGTGCAGGGATGGATGGGTCGATATTATCCCCA
18643037 CAAGGTGTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.18, C:0.14, G:0.33, T:0.35
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATGGGTCGATATTATCCCCATA
Found at i:18655289 original size:28 final size:27
Alignment explanation
Indices: 18655203--18655292 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
18655193 GTGATAGAGT
*
18655203 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
18655232 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
18655259 CACCAGAATAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
18655287 CACCAG
1 CACCAG
18655293 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:18657606 original size:41 final size:41
Alignment explanation
Indices: 18657525--18657606 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
18657515 TTTGTAATAT
* ** *
18657525 TTATATTCAGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGA
1 TTATAATCAGGCTTTGAGCCTAGCAAGCCTAATGCCGGTGA
* *
18657566 TTATAATCGGGCTTT-ATGCCTAGCAGGCCTAATGCCGGTGA
1 TTATAATCAGGCTTTGA-GCCTAGCAAGCCTAATGCCGGTGA
18657607 ATAAATATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.03
41 33 0.97
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.32
Consensus pattern (41 bp):
TTATAATCAGGCTTTGAGCCTAGCAAGCCTAATGCCGGTGA
Found at i:18658556 original size:21 final size:21
Alignment explanation
Indices: 18658514--18658556 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
18658504 AATAATATAC
* *
18658514 ATATTAAGGTATACATAACAA
1 ATATTAAAGTATAAATAACAA
18658535 ATATTAAAG-ATAAATAAGCAA
1 ATATTAAAGTATAAATAA-CAA
18658556 A
1 A
18658557 ATATATGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.26
Consensus pattern (21 bp):
ATATTAAAGTATAAATAACAA
Found at i:18660046 original size:13 final size:13
Alignment explanation
Indices: 18660028--18660053 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18660018 TGATTCGAAA
18660028 CTTGGAATCACGG
1 CTTGGAATCACGG
18660041 CTTGGAATCACGG
1 CTTGGAATCACGG
18660054 TGCTGATGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
CTTGGAATCACGG
Found at i:18661120 original size:205 final size:204
Alignment explanation
Indices: 18660768--18661546 Score: 1168
Period size: 205 Copynumber: 3.8 Consensus size: 204
18660758 ATCTTTGATC
* * * * * *
18660768 TGCTCTCCGCCAATACAAAGATGCCAAATCATCTTAGATTTGCTTTAACATAAACATGTGAAAGC
1 TGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCGTAAACACGTGAAAGC
* *
18660833 CAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAAGATACTAAATCATCTTGGATCTGA
66 CAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACTAAATCATCTTGGATCTGC
* * ** *
18660898 TTCAGTATAAACATCTGAAGGTGAAATCTGCTATGTATCTACTCCCTGTTGAAGTGGAGATGCCA
131 CTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGTTCCCCGTTGAAG-GGAGATGCCA
18660963 GACTTCGATT
195 GACTTCGATT
** *
18660973 TGCTCTCTGACAATACAGAGATGTGAAATCATCTTGGATTTGCTTTATCGTAAACACGTGAAAGC
1 TGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCGTAAACACGTGAAAGC
* * *
18661038 CAAATCAGCTATGTCTTCGATTTGCTCATTGTAAGCAGAAGGATGCTAAATCAT-TTCGGATCTG
66 CAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACTAAATCATCTT-GGATCTG
*
18661102 CCTCAGTATAAACATCTGAAGGTGAGATCTACTATGTATCTGTTCCCCGTTGAAGGGGAGATGCC
130 CCTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGTTCCCCGTTGAA-GGGAGATGCC
18661167 AGACTTCGATT
194 AGACTTCGATT
* * *
18661178 TGCTCTCTTACAATACAGAGATGTCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGC
1 TGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCGTAAACACGTGAAAGC
* *
18661243 CAAATCAGCTATGTCTTCGATTTTCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCTGC
66 CAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACTAAATCATCTTGGATCTGC
18661308 CTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGTTCCCCGTTGAAAGGGAGATGCCA
131 CTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGTTCCCCGTTG-AAGGGAGATGCCA
18661373 GA-TTCGATT
195 GACTTCGATT
* * * * *
18661382 TGTTTTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTTAGCGTAAACACATGAAAGC
1 TGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCGTAAACACGTGAAAGC
* * *
18661447 CAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCAT-TCTGGATCTG
66 CAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACTAAATCATCT-TGGATCTG
* * *
18661511 CTTCAGCATAAATATCTGAAGGTGAGATCTGCTATG
130 CCTCAGTATAAACATCTGAAGGTGAGATCTGCTATG
18661547 CTGCGGCCAA
Statistics
Matches: 525, Mismatches: 44, Indels: 11
0.91 0.08 0.02
Matches are distributed among these distances:
203 1 0.00
204 156 0.30
205 363 0.69
206 5 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (204 bp):
TGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCGTAAACACGTGAAAGC
CAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACTAAATCATCTTGGATCTGC
CTCAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGTTCCCCGTTGAAGGGAGATGCCAG
ACTTCGATT
Found at i:18669524 original size:15 final size:15
Alignment explanation
Indices: 18669482--18669531 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
18669472 ATAACTTTGA
*
18669482 ATGCAAATG-ATGTG
1 ATGCAAATGCATGAG
*
18669496 ATG-AAATCCTATGAG
1 ATGCAAATGC-ATGAG
18669511 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
18669525 ATGCAAA
1 ATGCAAA
18669532 AAGGATATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.33
15 11 0.37
16 5 0.17
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.24
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:18669575 original size:14 final size:14
Alignment explanation
Indices: 18669552--18669581 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18669542 ATTCTGGTTC
18669552 AACTTCATTTAGAA
1 AACTTCATTTAGAA
*
18669566 AACTTTATTTAGAA
1 AACTTCATTTAGAA
18669580 AA
1 AA
18669582 AGAATATCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.37
Consensus pattern (14 bp):
AACTTCATTTAGAA
Found at i:18673706 original size:37 final size:38
Alignment explanation
Indices: 18673665--18673737 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
18673655 CCTCGTTTTT
* *
18673665 TGGGTC-TGGGTATAAACGGGTTTTTGGG-TAGTTTAAC
1 TGGGTCATGGGTAT-AACGGATTATTGGGTTAGTTTAAC
*
18673702 TGGGTCATGGGTGTAACGGATTATTGGGTTAGTTTA
1 TGGGTCATGGGTATAACGGATTATTGGGTTAGTTTA
18673738 GGGTGTCAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 18 0.58
38 13 0.42
ACGTcount: A:0.19, C:0.07, G:0.36, T:0.38
Consensus pattern (38 bp):
TGGGTCATGGGTATAACGGATTATTGGGTTAGTTTAAC
Found at i:18673964 original size:35 final size:35
Alignment explanation
Indices: 18673924--18674084 Score: 169
Period size: 35 Copynumber: 4.6 Consensus size: 35
18673914 GTATGTACAT
18673924 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * * *
18673959 ATGTGATGTTATATTAAACTTGAATATATGACTAC
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * * * *
18673994 ATGTGATGTTATATTGAGCTTGTATAATCGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
* * * *
18674029 ATATGATGATATATTGTACTTGTATATTTGGTCAT
1 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
*
18674064 ATGTGATGATATAATGAACTT
1 ATGTGATGATATATTGAACTT
18674085 TGAGTATTCG
Statistics
Matches: 101, Mismatches: 25, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 101 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGTATATTTGGCCAC
Found at i:18678605 original size:45 final size:42
Alignment explanation
Indices: 18678503--18678626 Score: 115
Period size: 41 Copynumber: 2.9 Consensus size: 42
18678493 ATGCTATCTC
* * * * *
18678503 ATATCGATGCCACTGTCCCGGACAGGGTCTTACACAAATCAA
1 ATATCGATGCCAATGTCCCAGATATGGTCTTACACAAACCAA
* *
18678545 ATA-CGATGCCGATGTCCCAGATATGGTCTTACACGTAACCACA
1 ATATCGATGCCAATGTCCCAGATATGGTCTTACAC-AAACCA-A
* * * *
18678588 TATATCGATGCCAATGTCTCAGATGTGGTATTACTCAAA
1 -ATATCGATGCCAATGTCCCAGATATGGTCTTACACAAA
18678627 AATACATATA
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
41 26 0.40
42 7 0.11
43 1 0.02
44 5 0.08
45 26 0.40
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCCAGATATGGTCTTACACAAACCAA
Found at i:18680343 original size:67 final size:67
Alignment explanation
Indices: 18680202--18680363 Score: 168
Period size: 67 Copynumber: 2.4 Consensus size: 67
18680192 CCATAAGTAA
* * * * *
18680202 TTCA-AGTTACGAGCTTAAC-CCGACTAACGTTTAAACATTAGCTAGGAATATATGTTCGGGAGC
1 TTCAGAGTTACGAGCATAACTCAG-CTAACCTTTAAACATCAGCTAGGAATATAGGTTCGGGAGC
18680265 TAT
65 TAT
* *
18680268 TTCAGAGTTGCGAGCATAACTCAGCTAACCTTTAAACATCAGCTAGGAACT-TAGGTTCGTGAGC
1 TTCAGAGTTACGAGCATAACTCAGCTAACCTTTAAACATCAGCTAGGAA-TATAGGTTCGGGAGC
*
18680332 TGT
65 TAT
** ** *
18680335 TTTGGAGTTACGAGTTTAACTTAGCTAAC
1 TTCAGAGTTACGAGCATAACTCAGCTAAC
18680364 TCGAATAAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
66 4 0.05
67 72 0.91
68 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (67 bp):
TTCAGAGTTACGAGCATAACTCAGCTAACCTTTAAACATCAGCTAGGAATATAGGTTCGGGAGCT
AT
Found at i:18682791 original size:42 final size:43
Alignment explanation
Indices: 18682685--18682802 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 43
18682675 TACCGTGTCA
* * * *
18682685 ATGCCATATCCCGGATATGGTCATACATGAAAT-ATCATATCG
1 ATGCCATATCCCAGATATGGTCTTATACGAAATCATCATATCG
* *
18682727 ATGCCATGTCCCTA-ACATGGTCTTATACGAAATCAT-ATA-CTG
1 ATGCCATATCCC-AGATATGGTCTTATACGAAATCATCATATC-G
*
18682769 ATGCCATATCCCAGATATGGTCTTATACGGAATC
1 ATGCCATATCCCAGATATGGTCTTATACGAAATC
18682803 TCGGTAGTCC
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.03
42 59 0.94
43 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (43 bp):
ATGCCATATCCCAGATATGGTCTTATACGAAATCATCATATCG
Found at i:18688990 original size:42 final size:42
Alignment explanation
Indices: 18688944--18689082 Score: 161
Period size: 42 Copynumber: 3.3 Consensus size: 42
18688934 GTTCCAGACG
** *
18688944 TGGTCTTACATGGGATCTCACATCGATGCCATATCCCAGATA
1 TGGTCTTACATGAAATCTCATATCGATGCCATATCCCAGATA
* * ** * *
18688986 TGGTCTTATATGAAATCTCATTTCGATGCCATGCCCCAAATG
1 TGGTCTTACATGAAATCTCATATCGATGCCATATCCCAGATA
* * * *
18689028 TGGTCTTACACGAAATCTTATATCAACGCCATATCCCAGATA
1 TGGTCTTACATGAAATCTCATATCGATGCCATATCCCAGATA
18689070 TGGTCTTACATGA
1 TGGTCTTACATGA
18689083 TAACACGTAC
Statistics
Matches: 77, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
TGGTCTTACATGAAATCTCATATCGATGCCATATCCCAGATA
Found at i:18695641 original size:18 final size:18
Alignment explanation
Indices: 18695613--18695654 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
18695603 AATATCTGTT
*
18695613 TCTGTAATCTAAATTTGGA
1 TCTG-AATCTAAATTTGAA
18695632 TCTGAATCTAAATTTGAA
1 TCTGAATCTAAATTTGAA
18695650 TCTGA
1 TCTGA
18695655 TTTTGTATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (18 bp):
TCTGAATCTAAATTTGAA
Done.