Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 141 of 297
Found at i:48655044 original size:115 final size:118
Alignment explanation
Indices: 48654882--48655096 Score: 292
Period size: 122 Copynumber: 1.8 Consensus size: 118
48654872 TAGTCAATGT
*** * *
48654882 ATATTCAGCCGATATGTTTTAGGGTTCATAAAAAATTGTGTA-ATT-TTTTTTT-ATTTTTTTAA
1 ATATTCAGCCGATATGTTTTAGGGTTCATAAAAAATCAAGGATATTATTTTTTTGATATTTTTAA
48654944 TTGGATATTGATGAAACATTTCTTTCCCATGTGTAAAATGTATTTAGGTAAAC
66 TTGGATATTGATGAAACATTTCTTTCCCATGTGTAAAATGTATTTAGGTAAAC
* * * *
48654997 ATATTTAGCCGATTTGTTTTAGGGTTCATAAGAAATCAAGGATTTTTTTTATTTTTTTGATATTT
1 ATATTCAGCCGATATGTTTTAGGGTTCATAAAAAATCAAGGA----TATTATTTTTTTGATATTT
48655062 TTAATTGGATATTGATGAAACATTTCTTTCCCATG
62 TTAATTGGATATTGATGAAACATTTCTTTCCCATG
48655097 CATGAATATT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
115 35 0.42
120 2 0.02
121 7 0.08
122 40 0.48
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (118 bp):
ATATTCAGCCGATATGTTTTAGGGTTCATAAAAAATCAAGGATATTATTTTTTTGATATTTTTAA
TTGGATATTGATGAAACATTTCTTTCCCATGTGTAAAATGTATTTAGGTAAAC
Found at i:48656783 original size:3 final size:3
Alignment explanation
Indices: 48656775--48656809 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
48656765 ATTTTTTATG
*
48656775 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48656810 TTAAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:48656784 original size:18 final size:20
Alignment explanation
Indices: 48656757--48656812 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
48656747 TGGTGTATAT
* *
48656757 TTATTTTTATT-TTTTA-TG
1 TTATTATTATTATTTTACTA
48656775 TTATTATTATTATTATTACTA
1 TTATTATTATTATT-TTACTA
48656796 TTATTATTATTATTTTA
1 TTATTATTATTATTTTA
48656813 AAATTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.30
19 2 0.06
20 6 0.18
21 15 0.45
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (20 bp):
TTATTATTATTATTTTACTA
Found at i:48660584 original size:19 final size:19
Alignment explanation
Indices: 48660557--48660600 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
48660547 TTGCATTCAC
* *
48660557 TTCATTCATTTGCATCACAT
1 TTCA-TCATATGCATCAAAT
*
48660577 TTCATCATATGCATTAAAT
1 TTCATCATATGCATCAAAT
48660596 TTCAT
1 TTCAT
48660601 GAAATGACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (19 bp):
TTCATCATATGCATCAAAT
Found at i:48660758 original size:12 final size:12
Alignment explanation
Indices: 48660726--48660778 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
48660716 AAAAGATTAA
48660726 AACAGATGCAAG
1 AACAGATGCAAG
** *
48660738 AGGAAATGCAAG
1 AACAGATGCAAG
48660750 AACAGATGC-AG
1 AACAGATGCAAG
*
48660761 ACACAAATGCAAG
1 A-ACAGATGCAAG
48660774 AACAG
1 AACAG
48660779 TTGGCAAAGA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
11 3 0.10
12 25 0.81
13 3 0.10
ACGTcount: A:0.51, C:0.17, G:0.25, T:0.08
Consensus pattern (12 bp):
AACAGATGCAAG
Found at i:48668049 original size:3 final size:3
Alignment explanation
Indices: 48668038--48668074 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
48668028 AAAGAGAGAG
*
48668038 AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
48668075 AATGGAGAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:48669070 original size:45 final size:45
Alignment explanation
Indices: 48669019--48669154 Score: 111
Period size: 45 Copynumber: 3.0 Consensus size: 45
48669009 TGAGCAGGAG
48669019 TAGAGCAGACTGAAGATTGTAGATCTTATCCCTATGAGGTAGCAA
1 TAGAGCAGACTGAAGATTGTAGATCTTATCCCTATGAGGTAGCAA
** * * *
48669064 TAGAGCAGA-TCGAAGACGGT-GAATCTTATCTCCCTA--AGGCAACAG
1 TAGAGCAGACT-GAAGATTGTAG-ATCTTA--TCCCTATGAGGTAGCAA
* * * *
48669109 TAAAGTAGGCTAAAGATTGTAGATCTTATCTCC-ATGAGGTAGCAA
1 TAGAGCAGACTGAAGATTGTAGATCTTATC-CCTATGAGGTAGCAA
48669154 T
1 T
48669155 GGAGTAGATC
Statistics
Matches: 68, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
43 3 0.04
44 4 0.06
45 53 0.78
46 2 0.03
47 6 0.09
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (45 bp):
TAGAGCAGACTGAAGATTGTAGATCTTATCCCTATGAGGTAGCAA
Found at i:48669314 original size:44 final size:43
Alignment explanation
Indices: 48669264--48669514 Score: 247
Period size: 44 Copynumber: 5.7 Consensus size: 43
48669254 AAGATAGCAG
*
48669264 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATCGAAGCTACA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGCTACA
*
48669307 ATCCTTATCTCCCTGAAGTTGCAATGGAGTAGATCGAAGCTACA
1 AT-CTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGCTACA
* * * *
48669351 ATCCTTATCTCTCTGAAGTTGCAGTGGA-TCAGGTTGAA-ATAACA
1 AT-CTTATCTCCCTGAAGTTGCAGTGGAGT-AGATCGAAGCT-ACA
* *
48669395 AGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGA-CTGAAGATAGCA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATC-GAAGCTA-CA
* ** * *
48669440 GATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTGAAGCCACA
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGCTACA
* * * *
48669484 ATATTTATCTCTCTAAAGTTGTAGTGGAGTA
1 AT-CTTATCTCCCTGAAGTTGCAGTGGAGTA
48669515 AGATAAAAGT
Statistics
Matches: 172, Mismatches: 25, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.03
44 127 0.74
45 38 0.22
46 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGCTACA
Found at i:48669318 original size:88 final size:90
Alignment explanation
Indices: 48669221--48669464 Score: 261
Period size: 88 Copynumber: 2.8 Consensus size: 90
48669211 AAGCCACTAG
* ** *
48669221 CCTTGTCTCCCTG-AGCAGCAGTGAAGTAGGCTGAAGATAGCAGATCTTATCTCCCTGAAGTTGC
1 CCTTATCTCCCTGAAGTTGCAGTGGAGTAGGCTGAAGATAGCAGATCTTATCTCCCTGAAGTTGC
*
48669285 AGTAGAGT-AGATCGAAGCT-ACAA-T
66 AGTAGA-TCAGATCGAA-ATAACAAGT
* * * *
48669309 CCTTATCTCCCTGAAGTTGCAATGGAGTA-GATCGAAGCTA-CA-ATCCTTATCTCTCTGAAGTT
1 CCTTATCTCCCTGAAGTTGCAGTGGAGTAGGCT-GAAGATAGCAGAT-CTTATCTCCCTGAAGTT
* * *
48669371 GCAGTGGATCAGGTTGAAATAACAAGT
64 GCAGTAGATCAGATCGAAATAACAAGT
* * *
48669398 -CTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGATAGCAGATCTTATCTCCTTGAAGTTGC
1 CCTTATCTCCCTGAAGTTGCAGTGGAGTAGGCTGAAGATAGCAGATCTTATCTCCCTGAAGTTGC
48669462 AGT
66 AGT
48669465 GGAGCGGATT
Statistics
Matches: 128, Mismatches: 19, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
87 4 0.03
88 81 0.63
89 41 0.32
90 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (90 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAGTAGGCTGAAGATAGCAGATCTTATCTCCCTGAAGTTGC
AGTAGATCAGATCGAAATAACAAGT
Found at i:48669375 original size:133 final size:133
Alignment explanation
Indices: 48669238--48669514 Score: 330
Period size: 133 Copynumber: 2.1 Consensus size: 133
48669228 TCCCTGAGCA
* *
48669238 GCAGTGAAGTAGGCTGAAGATAGC-AGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGA-TCGAA
1 GCAGTGGAGTAGGCTGAA-ATAACAAG-TCTTATCTCCCTGAAGTTGCAGTAGAGTAGACT-GAA
* * * *
48669301 GCTA-CA-ATCCTTATCTCCCTGAAGTTGCAATGGAGTAGATCGAAGCTACAATCCTTATCTCTC
63 GATAGCAGAT-CTTATCTCCCTGAAGTTGCAATGGAGCAGATCGAAGCCACAATACTTATCTCTC
*
48669364 TGAAGTT
127 TAAAGTT
* * *
48669371 GCAGTGGA-TCAGGTTGAAATAACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGTAGACTGAAGA
1 GCAGTGGAGT-AGGCTGAAATAACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAGA
* * * * *
48669435 TAGCAGATCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTGAAGCCACAATATTTATCTCTCTAA
65 TAGCAGATCTTATCTCCCTGAAGTTGCAATGGAGCAGATCGAAGCCACAATACTTATCTCTCTAA
48669500 AGTT
130 AGTT
*
48669504 GTAGTGGAGTA
1 GCAGTGGAGTA
48669515 AGATAAAAGT
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
132 40 0.33
133 79 0.65
134 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (133 bp):
GCAGTGGAGTAGGCTGAAATAACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGTAGACTGAAGAT
AGCAGATCTTATCTCCCTGAAGTTGCAATGGAGCAGATCGAAGCCACAATACTTATCTCTCTAAA
GTT
Found at i:48671199 original size:3 final size:3
Alignment explanation
Indices: 48671191--48671228 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
48671181 ATTTTTTATG
* *
48671191 TTA TTA TTA TTA TTA ATA TTA CTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48671229 TTAAAATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:48674812 original size:18 final size:17
Alignment explanation
Indices: 48674776--48674943 Score: 237
Period size: 18 Copynumber: 9.5 Consensus size: 17
48674766 AATCATATCT
48674776 TCTAAGATTGTATATCATA
1 TCTAAGATTG-A-ATCATA
48674795 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
48674813 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
48674830 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
48674848 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
48674865 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
*
48674883 TCTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
48674900 TCTAAGATTGCAATCATA
1 TCTAAGATTG-AATCATA
* *
48674918 TTTAAGATTGTATCATA
1 TCTAAGATTGAATCATA
48674935 TCTAAGATT
1 TCTAAGATT
48674944 ACATATCATT
Statistics
Matches: 136, Mismatches: 10, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
17 62 0.46
18 63 0.46
19 11 0.08
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (17 bp):
TCTAAGATTGAATCATA
Found at i:48674834 original size:35 final size:35
Alignment explanation
Indices: 48674776--48674952 Score: 309
Period size: 35 Copynumber: 5.0 Consensus size: 35
48674766 AATCATATCT
48674776 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
48674813 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
48674848 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
48674883 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
48674918 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
48674953 TGAAGATTAT
Statistics
Matches: 137, Mismatches: 2, Indels: 3
0.96 0.01 0.02
Matches are distributed among these distances:
35 122 0.89
36 5 0.04
37 10 0.07
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:48675553 original size:78 final size:79
Alignment explanation
Indices: 48675424--48675570 Score: 244
Period size: 78 Copynumber: 1.9 Consensus size: 79
48675414 ACAAAAATCT
* *
48675424 AATACACTTGCCAATTTCATGTTCACTCTTTTCATATGTAGGACTTCACCAATTTCATGTTAAA-
1 AATACACTTGCCAATTTCATGTTCACTCTTTTCATATATAGGACTTCACCAATTTCATATTAAAC
48675488 AAAAGCTACTATAA
66 AAAAGCTACTATAA
*
48675502 AATACACTTGCCAATTTCATGTTCACTCTTTTCATATAT-GGGCTTTCACCAATTTCATATTAAA
1 AATACACTTGCCAATTTCATGTTCACTCTTTTCATATATAGGAC-TTCACCAATTTCATATTAAA
48675566 CAAAA
65 CAAAA
48675571 AAAAGCTACT
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
77 3 0.05
78 57 0.89
79 4 0.06
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (79 bp):
AATACACTTGCCAATTTCATGTTCACTCTTTTCATATATAGGACTTCACCAATTTCATATTAAAC
AAAAGCTACTATAA
Found at i:48675705 original size:82 final size:82
Alignment explanation
Indices: 48675602--48675804 Score: 325
Period size: 82 Copynumber: 2.5 Consensus size: 82
48675592 GGTATACATC
* * *
48675602 TTTCAAAAAATCATTTTAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAGCAGT
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAACAGT
* * * *
48675667 AAGATGTTAATCAACCA
66 AAAATATTAACCAAACA
*
48675684 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATGCTAACAAAATGATCCTATAACAGT
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAACAGT
48675749 AAAATATTAACCAAACA
66 AAAATATTAACCAAACA
*
48675766 TTTCAACAAGTCATTTCAAAAAACAAACAAAATATGTTA
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTA
48675805 ACCATCTCAA
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 112 1.00
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.27
Consensus pattern (82 bp):
TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAACAGT
AAAATATTAACCAAACA
Found at i:48677237 original size:10 final size:9
Alignment explanation
Indices: 48677207--48677243 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
48677197 CTGGTTAGTG
48677207 TTTAAGTTGT
1 TTTAA-TTGT
*
48677217 TTTAATTTT
1 TTTAATTGT
48677226 TTTAATTGT
1 TTTAATTGT
48677235 TTTAATTGT
1 TTTAATTGT
48677244 GGGTAAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.68
Consensus pattern (9 bp):
TTTAATTGT
Found at i:48680987 original size:25 final size:25
Alignment explanation
Indices: 48680949--48681005 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
48680939 AAGCTTACTT
* *
48680949 TAATTAATA-TTTTTATTAAATTAAA
1 TAATAAATACTTTTTA-TAAAATAAA
*
48680974 TATTAAATACTTTTTATAAAATAAA
1 TAATAAATACTTTTTATAAAATAAA
48680999 TAATAAA
1 TAATAAA
48681006 GAGAACAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TAATAAATACTTTTTATAAAATAAA
Found at i:48681443 original size:32 final size:32
Alignment explanation
Indices: 48681402--48681469 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
48681392 ATTACAACAC
48681402 ATATTTTCTCTTTTTCATGACAACATCACGTA
1 ATATTTTCTCTTTTTCATGACAACATCACGTA
48681434 ATATTTTCTCTTTTTCATGACAACATCACGTA
1 ATATTTTCTCTTTTTCATGACAACATCACGTA
48681466 ATAT
1 ATAT
48681470 CTCATATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.06, T:0.44
Consensus pattern (32 bp):
ATATTTTCTCTTTTTCATGACAACATCACGTA
Found at i:48682341 original size:30 final size:30
Alignment explanation
Indices: 48682305--48682366 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
48682295 CTTATTCTAG
48682305 TGTTAATTTTATTATTAATTTAAAGGCATT
1 TGTTAATTTTATTATTAATTTAAAGGCATT
* *
48682335 TGTTAATTTTATTATTATTTTAGAGGCATT
1 TGTTAATTTTATTATTAATTTAAAGGCATT
48682365 TG
1 TG
48682367 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (30 bp):
TGTTAATTTTATTATTAATTTAAAGGCATT
Found at i:48682504 original size:11 final size:11
Alignment explanation
Indices: 48682488--48682518 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
48682478 TATATATATT
48682488 TAAAAATTATA
1 TAAAAATTATA
*
48682499 TAAAAATAATA
1 TAAAAATTATA
48682510 TAAAAATTA
1 TAAAAATTA
48682519 ATACAAGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:48685664 original size:42 final size:42
Alignment explanation
Indices: 48685557--48685710 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 42
48685547 CGATATGTGT
*
48685557 TTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGA
1 TTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAC-TATGA
* * * *
48685600 TTTAAGTGTAAGACCATGTCTGGGACATTGGCATTGTA-TATTA
1 TTT-CGTGTAAGACCACGTCTGGGACATTGGCATCG-ACTATGA
*
48685643 TTTCGTGTAAGACC-CAGTCTGGGACAGTGGCATCGA-TATTTGA
1 TTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGACTA--TGA
* * * *
48685686 TTACATGTAAGACCACATTTGGGAC
1 TTTCGTGTAAGACCACGTCTGGGAC
48685711 GTTGACATTG
Statistics
Matches: 91, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 3 0.03
42 27 0.30
43 31 0.34
44 29 0.32
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TTTCGTGTAAGACCACGTCTGGGACATTGGCATCGACTATGA
Found at i:48690311 original size:8 final size:9
Alignment explanation
Indices: 48690279--48690313 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
48690269 GAAACAAAAC
48690279 AAAAATTTAT
1 AAAAATTT-T
48690289 AGAAAATTTT
1 A-AAAATTTT
48690299 AAAAATTTT
1 AAAAATTTT
48690308 AAAAAT
1 AAAAAT
48690314 AGGAGTCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 14 0.58
10 3 0.12
11 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (9 bp):
AAAAATTTT
Found at i:48690721 original size:103 final size:102
Alignment explanation
Indices: 48690524--48690710 Score: 266
Period size: 103 Copynumber: 1.8 Consensus size: 102
48690514 CACGTCTGTA
*
48690524 TTGCCAAGCCATGTAATAGGTTGATGCCGTGTGAAAAATCTTGCACCTAAAATCAATAAGAAACA
1 TTGCCAAGCCATGTAACAGGTTGATGCCGTGTGAAAAATCTTGCACCTAAAATCAATAAGAAACA
* * * *
48690589 CTGCTGTGTTTGGAAGCCCCTTATGCACACGACCGTG
66 CGGCCGTGTGTAGAAGCCCCTTATGCACACGACCGTG
* * * * * *
48690626 TTGCCAGGTCATGTAACAGGTTGATGCCTTTTTGAAAAATCTTGCACCTAAAATTAATAAGACAC
1 TTGCCAAGCCATGTAACAGGTTGATGCC-GTGTGAAAAATCTTGCACCTAAAATCAATAAGAAAC
48690691 ACGGCCGTGTGTAGAAGCCC
65 ACGGCCGTGTGTAGAAGCCC
48690711 TATGTGCACA
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
102 25 0.34
103 48 0.66
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (102 bp):
TTGCCAAGCCATGTAACAGGTTGATGCCGTGTGAAAAATCTTGCACCTAAAATCAATAAGAAACA
CGGCCGTGTGTAGAAGCCCCTTATGCACACGACCGTG
Found at i:48697068 original size:33 final size:34
Alignment explanation
Indices: 48697010--48697083 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
48697000 AAAACTGCAT
* * *
48697010 GACTGATACTGATACTGAGATGGGCTAAGGCCCAA
1 GACTG-TACTAATACTGAAAGGGGCTAAGGCCCAA
**
48697045 -ACTGTACTAATACTGAAAGGGGCTTGGGCCCAA
1 GACTGTACTAATACTGAAAGGGGCTAAGGCCCAA
48697078 GACTGT
1 GACTGT
48697084 TTGACTGTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
33 24 0.73
34 9 0.27
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (34 bp):
GACTGTACTAATACTGAAAGGGGCTAAGGCCCAA
Found at i:48698026 original size:38 final size:38
Alignment explanation
Indices: 48697975--48698057 Score: 139
Period size: 38 Copynumber: 2.2 Consensus size: 38
48697965 CTTAAGTTCC
*
48697975 ATCATTTCGCTTATTAATGACACGTTATTTAGTCATGA
1 ATCATTTCGCTTATTAATGACACATTATTTAGTCATGA
*
48698013 ATCATTTCGCTTATTAATTACACATTATTTAGTCATGA
1 ATCATTTCGCTTATTAATGACACATTATTTAGTCATGA
48698051 AGTCATT
1 A-TCATT
48698058 CCACTAAAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 37 0.88
39 5 0.12
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (38 bp):
ATCATTTCGCTTATTAATGACACATTATTTAGTCATGA
Found at i:48704694 original size:20 final size:20
Alignment explanation
Indices: 48704671--48704709 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
48704661 AAAAAACCAT
48704671 ACAAACAACAA-AATTTACAC
1 ACAAACAA-AAGAATTTACAC
*
48704691 ACAAATAAAAGAATTTACA
1 ACAAACAAAAGAATTTACA
48704710 TCCATACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.62, C:0.18, G:0.03, T:0.18
Consensus pattern (20 bp):
ACAAACAAAAGAATTTACAC
Found at i:48706407 original size:34 final size:34
Alignment explanation
Indices: 48706358--48706507 Score: 162
Period size: 34 Copynumber: 4.5 Consensus size: 34
48706348 GTAATATGAC
* * *
48706358 ATGTTTATAACAGATCACTACGATAGTAATTAGT
1 ATGTTTATAACAGATCACTACGGTAGAAATTAAT
** * * *
48706392 ATGTTTATAGTAGATCAATTCGGTAGCAATTAAT
1 ATGTTTATAACAGATCACTACGGTAGAAATTAAT
48706426 ATGTTTATAACAGATCACTACGGTAGAAATTAAT
1 ATGTTTATAACAGATCACTACGGTAGAAATTAAT
* * *
48706460 ATGCTTATAACAGATCAATACAGT--AAA-TAAT
1 ATGTTTATAACAGATCACTACGGTAGAAATTAAT
* *
48706491 ATGTTCATAACAAATCA
1 ATGTTTATAACAGATCA
48706508 ATTCAGTAGC
Statistics
Matches: 98, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
31 18 0.18
32 3 0.03
34 77 0.79
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (34 bp):
ATGTTTATAACAGATCACTACGGTAGAAATTAAT
Found at i:48706432 original size:68 final size:65
Alignment explanation
Indices: 48706358--48706507 Score: 183
Period size: 68 Copynumber: 2.3 Consensus size: 65
48706348 GTAATATGAC
* * * ** * *
48706358 ATGTTTATAACAGATCACTACGATAGTAATTAGTATGTTTATAGTAGATCAATTCGGTAGCAATT
1 ATGTTTATAACAGATCACTACGATAGAAATTAATATGCTTATAACAGATCAATACAGTA--AA-T
48706423 AAT
63 AAT
*
48706426 ATGTTTATAACAGATCACTACGGTAGAAATTAATATGCTTATAACAGATCAATACAGTAAATAAT
1 ATGTTTATAACAGATCACTACGATAGAAATTAATATGCTTATAACAGATCAATACAGTAAATAAT
* *
48706491 ATGTTCATAACAAATCA
1 ATGTTTATAACAGATCA
48706508 ATTCAGTAGC
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
65 19 0.26
66 2 0.03
68 51 0.71
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (65 bp):
ATGTTTATAACAGATCACTACGATAGAAATTAATATGCTTATAACAGATCAATACAGTAAATAAT
Found at i:48707230 original size:12 final size:13
Alignment explanation
Indices: 48707211--48707245 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
48707201 AGAAGAGGAT
48707211 GGAAAAGAAA-AG
1 GGAAAAGAAATAG
*
48707223 GGAGAAGAAATAG
1 GGAAAAGAAATAG
48707236 GGAAAAGAAA
1 GGAAAAGAAA
48707246 GAAAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.03
Consensus pattern (13 bp):
GGAAAAGAAATAG
Found at i:48707843 original size:20 final size:18
Alignment explanation
Indices: 48707796--48707902 Score: 62
Period size: 20 Copynumber: 5.8 Consensus size: 18
48707786 CAAGATAAAC
48707796 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
48707813 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
48707833 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
48707852 ATTAAGA-TAAGTA-TTAA-
1 ATTAA-ATTAA-TATTTAAT
*
48707869 ATTAAATTTAATATTAAACT
1 ATTAAA-TTAATATTTAA-T
*
48707889 ATTAAAATAATATT
1 ATTAAATTAATATT
48707903 ATTTTTGAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 22
0.70 0.08 0.22
Matches are distributed among these distances:
16 1 0.01
17 15 0.21
18 9 0.13
19 21 0.30
20 24 0.34
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:48707890 original size:37 final size:36
Alignment explanation
Indices: 48707796--48707903 Score: 107
Period size: 37 Copynumber: 2.9 Consensus size: 36
48707786 CAAGATAAAC
*
48707796 ATTAAATTAA-ATTTAA-TATTAAGATAATCACTTTAAT
1 ATTAAATTAATATTAAACTATTAAGATAAT-A--TTAAT
*
48707833 ATTAAATTAATA-AAATACTATTAAGATAAGTATTAA-
1 ATTAAATTAATATTAA-ACTATTAAGATAA-TATTAAT
*
48707869 ATTAAATTTAATATTAAACTATTAAAATAATATTA
1 ATTAAA-TTAATATTAAACTATTAAGATAATATTA
48707904 TTTTTGAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
36 11 0.18
37 33 0.54
38 4 0.07
39 12 0.20
40 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (36 bp):
ATTAAATTAATATTAAACTATTAAGATAATATTAAT
Found at i:48710387 original size:11 final size:12
Alignment explanation
Indices: 48710370--48710419 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
48710360 ACCTAATCAC
48710370 TTTAATATTAAA
1 TTTAATATTAAA
48710382 -TTAATA-TAATA
1 TTTAATATTAA-A
*
48710393 TTTATTAGATTAAA
1 TTTA--ATATTAAA
48710407 TTTAATATTAAA
1 TTTAATATTAAA
48710419 T
1 T
48710420 CTTATTACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
12 11 0.35
14 7 0.23
15 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:48710398 original size:20 final size:21
Alignment explanation
Indices: 48710375--48710415 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
48710365 ATCACTTTAA
48710375 TATTAAATT-AATATAATATT
1 TATTAAATTAAATATAATATT
* *
48710395 TATTAGATTAAATTTAATATT
1 TATTAAATTAAATATAATATT
48710416 AAATCTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTAAATTAAATATAATATT
Found at i:48710535 original size:37 final size:37
Alignment explanation
Indices: 48710489--48710565 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
48710479 GATAATCACT
*
48710489 TTAATATTAAAATTAATA-AAATACTATTAAGATAAGTA
1 TTAATATTAAAATTAATATAAA-ACTATTAAAATAA-TA
* *
48710527 TTAA-ATTAAATTTAATATTAAACTATTAAAATAATA
1 TTAATATTAAAATTAATATAAAACTATTAAAATAATA
48710563 TTA
1 TTA
48710566 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 5 0.14
37 24 0.69
38 6 0.17
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (37 bp):
TTAATATTAAAATTAATATAAAACTATTAAAATAATA
Found at i:48713509 original size:10 final size:10
Alignment explanation
Indices: 48713477--48713535 Score: 84
Period size: 10 Copynumber: 5.9 Consensus size: 10
48713467 TTAAATTCTA
48713477 AAAGATAAAT
1 AAAGATAAAT
*
48713487 ACAA-TTAAAT
1 A-AAGATAAAT
*
48713497 AAAGATAATT
1 AAAGATAAAT
48713507 AAAGATAAAT
1 AAAGATAAAT
48713517 AAAGATAAAT
1 AAAGATAAAT
48713527 AAAGATAAA
1 AAAGATAAA
48713536 AGCTAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:48714176 original size:16 final size:16
Alignment explanation
Indices: 48714153--48714192 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
48714143 TAATACATCA
48714153 CTTTTTTTTCTTTT-T
1 CTTTTTTTTCTTTTCT
*
48714168 CTATTTTTTCTTTTCT
1 CTTTTTTTTCTTTTCT
48714184 CTTTTTTTT
1 CTTTTTTTT
48714193 TTTCTTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (16 bp):
CTTTTTTTTCTTTTCT
Found at i:48714181 original size:14 final size:13
Alignment explanation
Indices: 48714155--48714201 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
48714145 ATACATCACT
48714155 TTTTTTTCTTTTTC
1 TTTTTTTC-TTTTC
48714169 TATTTTTTCTTTTC
1 T-TTTTTTCTTTTC
*
48714183 TCTTTTTTTTTTTC
1 T-TTTTTTCTTTTC
48714197 TTTTT
1 TTTTT
48714202 ATCATTATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 4 0.13
14 19 0.63
15 7 0.23
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:48714396 original size:99 final size:99
Alignment explanation
Indices: 48714221--48714399 Score: 259
Period size: 99 Copynumber: 1.8 Consensus size: 99
48714211 GTTATTATTG
* * * * ** *
48714221 CTTAAGAATACATTGAACCTTTTGACATGAAGAGAGATGATAGCCTGGCACCCCACCCCGGTTAC
1 CTTAAGAACACATCGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCCCACCCCGATTAC
*
48714286 TCAGCCTAACATATTCCTAATTTATTATGTTTTT
66 TCAGCCCAACATATTCCTAATTTATTATGTTTTT
* * *
48714320 CTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGTCAAGCACCCCACCCCGATTAC
1 CTTAAGAACACATCGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCCCACCCCGATTAC
48714385 TCAGCCCAACATATT
66 TCAGCCCAACATATT
48714400 ATTAAAATAA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
99 69 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (99 bp):
CTTAAGAACACATCGAACCTTTTGACACGAAGAGAGATGACAGCCAAGCACCCCACCCCGATTAC
TCAGCCCAACATATTCCTAATTTATTATGTTTTT
Found at i:48715628 original size:7 final size:7
Alignment explanation
Indices: 48715609--48715668 Score: 58
Period size: 6 Copynumber: 9.0 Consensus size: 7
48715599 AATATCCAAA
48715609 AATAAAGT
1 AATAAA-T
48715617 AATAAAT
1 AATAAAT
48715624 AATAAAT
1 AATAAAT
48715631 AAT-AAT
1 AATAAAT
48715637 -ATAAGAT
1 AATAA-AT
48715644 AATAAA-
1 AATAAAT
*
48715650 AATAAAG
1 AATAAAT
48715657 AA-AAAT
1 AATAAAT
48715663 AA-AAAT
1 AATAAAT
48715669 TGGGTTGCCT
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
5 2 0.04
6 19 0.40
7 16 0.34
8 10 0.21
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (7 bp):
AATAAAT
Found at i:48715653 original size:16 final size:16
Alignment explanation
Indices: 48715606--48715668 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
48715596 ATCAATATCC
*
48715606 AAAAATAAAGTAATAAAT
1 AAAAATAAA--AATAAAG
*
48715624 AATAAATAATAATATAAG
1 AA-AAATAAAAATA-AAG
*
48715642 -ATAATAAAAATAAAG
1 AAAAATAAAAATAAAG
48715657 AAAAATAAAAAT
1 AAAAATAAAAAT
48715669 TGGGTTGCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
15 3 0.08
16 19 0.51
17 5 0.14
18 4 0.11
19 6 0.16
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (16 bp):
AAAAATAAAAATAAAG
Found at i:48715664 original size:19 final size:19
Alignment explanation
Indices: 48715606--48715664 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 19
48715596 ATCAATATCC
48715606 AAAAATAAAGTAATAAATAAT
1 AAAAATAAAG-AA-AAATAAT
* *
48715627 AAATAATAATA-TAAGATAAT
1 AAA-AATAA-AGAAAAATAAT
48715647 AAAAATAAAGAAAAATAA
1 AAAAATAAAGAAAAATAA
48715665 AAATTGGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
18 1 0.03
19 11 0.35
20 9 0.29
21 4 0.13
22 5 0.16
23 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (19 bp):
AAAAATAAAGAAAAATAAT
Found at i:48718329 original size:11 final size:10
Alignment explanation
Indices: 48718307--48718371 Score: 51
Period size: 10 Copynumber: 6.3 Consensus size: 10
48718297 GATGAAAATT
*
48718307 AAAATCATAA
1 AAAATTATAA
48718317 AAAATT-TATA
1 AAAATTATA-A
48718327 AAAATTATAA
1 AAAATTATAA
*
48718337 AAAGTTATAGA
1 AAAATTATA-A
* *
48718348 AAAACATAAAA
1 AAAA-TTATAA
*
48718359 AAAACTATAA
1 AAAATTATAA
48718369 AAA
1 AAA
48718372 GACTAAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
9 2 0.05
10 28 0.64
11 11 0.25
12 3 0.07
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (10 bp):
AAAATTATAA
Found at i:48718757 original size:19 final size:19
Alignment explanation
Indices: 48718733--48718777 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
48718723 CATATTATTC
48718733 TATAAAACAAATACTTGAA
1 TATAAAACAAATACTTGAA
*
48718752 TATAAAACAAATAGTTGAA
1 TATAAAACAAATACTTGAA
48718771 TATAAAA
1 TATAAAA
48718778 TAAAACTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (19 bp):
TATAAAACAAATACTTGAA
Found at i:48725905 original size:23 final size:23
Alignment explanation
Indices: 48725874--48727353 Score: 1102
Period size: 23 Copynumber: 64.7 Consensus size: 23
48725864 AAATAAGTAC
* *
48725874 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
48725897 TTAAGCACTTCAATTTACTGCAT
1 TTAAACACTTCAATTTACAGCAT
**
48725920 TTAAACACTTCAATTTGTAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
48725943 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
48725967 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
48725989 TTAAACACCTCAA-TTATAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
48726011 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
48726034 CTAAACACTTCAATTTACAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
48726057 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
48726080 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
48726103 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
48726126 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
48726150 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
48726172 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * *
48726194 TAAAACA-TCTCAATATCCAGCCA-
1 TTAAACACT-TCAATTTACAG-CAT
* * * *
48726217 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
48726240 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
48726263 TTAAGCACATCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
48726286 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
48726309 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
48726333 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
48726355 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* * *
48726379 TT-TACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
48726401 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * *
48726423 TAAAACA-TCTCAATATCCAGCCA-
1 TTAAACACT-TCAATTTACAG-CAT
* * * *
48726446 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
48726469 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
48726492 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
48726515 TTAAACACTTCAATTTGCAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
48726538 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
48726562 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
48726584 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* * *
48726608 TT-TACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
48726630 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * *
48726652 TAAAACA-TCTCAATGTCCAGCAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
48726675 CTAAACACTTCAATTTACAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
48726698 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
48726721 TTAAGCACATCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
48726744 TTAAACACTTCAACTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
48726767 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
48726791 TT-AACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
*
48726813 TTAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* * *
48726837 TT-AGCA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
48726859 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * * *
48726881 TAAAACA-TCTCAATGTCCAACAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
48726904 CTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
*
48726927 TTAAGCACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
48726950 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* *
48726973 TCAAACACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
*
48726997 TT-AACACTTCAATTTACAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
48727019 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
48727043 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
48727065 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * * * *
48727087 TAAAACA-TCTCAATGTCCAACAA
1 TTAAACACT-TCAATTTACAGCAT
* * *
48727110 CTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
48727133 TTAAGCACTTCAATTTGCAGCACT
1 TTAAACACTTCAATTTACAGCA-T
* *
48727157 TT-AACA-TCTCAATTAACAACAT
1 TTAAACACT-TCAATTTACAGCAT
* *
48727179 TTATACACCTCAA-TTACAGCGA-
1 TTAAACACTTCAATTTACAGC-AT
* * *
48727201 TAAAACA-TCTCAATATCCAGCCA-
1 TTAAACACT-TCAATTTACAG-CAT
* * * *
48727224 CTAAACACTTCAATTTGCAGTAC
1 TTAAACACTTCAATTTACAGCAT
* *
48727247 TTAAACACTTCAATTTGCAACAT
1 TTAAACACTTCAATTTACAGCAT
* *
48727270 TTAAGCATTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
48727293 TTAAACACTTCAATTTACAGCAT
1 TTAAACACTTCAATTTACAGCAT
* * *
48727316 TCAAACACTTCAGTTTGCAGCAGT
1 TTAAACACTTCAATTTACAGCA-T
*
48727340 TT-AACACCTCAATT
1 TTAAACACTTCAATT
48727354 AACAATATTT
Statistics
Matches: 1150, Mismatches: 232, Indels: 150
0.75 0.15 0.10
Matches are distributed among these distances:
22 145 0.13
23 966 0.84
24 39 0.03
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.31
Consensus pattern (23 bp):
TTAAACACTTCAATTTACAGCAT
Found at i:48726182 original size:183 final size:183
Alignment explanation
Indices: 48725869--48727040 Score: 912
Period size: 183 Copynumber: 6.4 Consensus size: 183
48725859 ACCCAAAATA
*
48725869 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACTGCATTTAAACACTTCAAT
1 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
*
48725934 TTGTAGCATTCAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTAAACACCT
66 TTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTAAACACCT
* *
48725999 CAATTATAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTAC
131 CAATTACAGCGATAAAACATCTCAATATCCAGCAACTAAACACTTCAATTTAC
48726052 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
1 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
*
48726117 TTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTATACACCT
66 TTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTAAACACCT
* *
48726182 CAATTACAGCGATAAAACATCTCAATATCCAGCCACTAAACACTTCAATTTGC
131 CAATTACAGCGATAAAACATCTCAATATCCAGCAACTAAACACTTCAATTTAC
*
48726235 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACATCAATTTACAGCATTTAAACACTTCAAT
1 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
* * * *
48726300 TTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACA-CTTCAATTTACAGCATTTAAGCACT
66 TTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACATC-TCAATTAACAACATTTAAACACC
* *** * * ** * *
48726364 TCAATTTGCAGC-ACTTTTACATCTCAAT-TAACAACATTTATACACCTCAA-TTAC
130 TCAA-TTACAGCGA-TAAAACATCTCAATAT-CCAGCAACTAAACACTTCAATTTAC
* * * * * * * * * *
48726418 AGCGA-TAAAACA-TCTCAATATCCAGCCA-CTAAACACTTCAATTTGCAGTACTTAAACACTTC
1 AG-TACTTAAACACT-TCAATTTGCA-ACATTTAAGCACTTCAATTTACAGCATTTAAACACTTC
* * * * ** * *
48726480 AATTTGCAACATTTAAGCACTTCAATTTACAGCA-TTTAAACA-CTTCAATTTGCAGCATTCAAA
63 AATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTT-AACATC-TCAATTAACAACATTTAAA
* * ** * * ** * *
48726543 CACTTCAATTTGCAGC-ACTTTAACA-CTTCAATTTACAGCATTTAAGCACTTCAATTTGC
126 CACCTCAA-TTACAGCGA-TAAAACATC-TCAATATCCAGCAACTAAACACTTCAATTTAC
* ** ** * *
48726602 AGCACTTTTACA-TCTCAATTAACAACATTTATA-CACCTCAA-TTACAGCGA-TAAAACA-TCT
1 AGTACTTAAACACT-TCAATTTGCAACATTTA-AGCACTTCAATTTACAGC-ATTTAAACACT-T
* * * * * * **
48726662 CAATGTCCAGCA-ACTAAACACTTCAATTTACAGTACTTAAACA-CTTCAATTTGCAACATTTAA
62 CAATTTGCAGCATTC-AAACACTTCAATTTGCAGCACTTTAACATC-TCAATTAACAACATTTAA
* * * * * *
48726725 GCACATCAATTTACAGC-ATTTAAACA-CTTCAACT-TACAGC-ATTCAAACACTTCAATTTGC
125 ACACCTCAA-TTACAGCGA-TAAAACATC-TCAA-TATCCAGCAACT-AAACACTTCAATTTAC
* * * * * * *
48726785 AGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTT-AGCA-TCTCA
1 AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCA-TTTAAACACT-TCA
** * * * * * ** * **
48726848 ATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACATCTCAATGT-CCAACAACTAAAC
64 ATTTGCAGCATTCAAACACTTCAATTTGCAGC-ACTTTAACATCTCAAT-TAACAACATTTAAAC
* * * * * * * **
48726910 ACTTCAATTTGCAAC-ATTTAAGCA-CTTCAATTTACAGCATTTAAACACTTCAATTTAC
127 ACCTCAA-TTACAGCGA-TAAAACATC-TCAATATCCAGCAACTAAACACTTCAATTTAC
* * * *
48726968 AGCA-TTCAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAACATTTAAGCACTTCA
1 AGTACTT-AAACACTTCAATTTGCAACA-TTTAAGCACTTCAATTTACAGCATTTAAACACTTCA
48727031 ATTTGCAGCA
64 ATTTGCAGCA
48727041 CTTTAACATC
Statistics
Matches: 841, Mismatches: 113, Indels: 70
0.82 0.11 0.07
Matches are distributed among these distances:
182 16 0.02
183 717 0.85
184 106 0.13
185 2 0.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (183 bp):
AGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAAT
TTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATTTAAACACCT
CAATTACAGCGATAAAACATCTCAATATCCAGCAACTAAACACTTCAATTTAC
Found at i:48726295 original size:229 final size:229
Alignment explanation
Indices: 48726043--48727296 Score: 1642
Period size: 229 Copynumber: 5.5 Consensus size: 229
48726033 ACTAAACACT
* * * * * *
48726043 TCAATTTACAGTACTTAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCA-TTTAA
1 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTT-A
* *
48726107 ACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACAT
65 ACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACAT
*
48726172 TTATACACCTCAATTACAGCGATAAAACATCTCAATATCCAGCCACTAAACACTTCAATTTGCAG
130 TTATACACCTCAATTACAGCGATAAAACATCTCAATATCCAGCAACTAAACACTTCAATTTGCAG
48726237 TACTTAAACACTTCAATTTGCAACATTTAAGCACA
195 TACTTAAACACTTCAATTTGCAACATTTAAGCACA
48726272 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAA
1 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAA
* *
48726337 CACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATT
66 CACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATT
*
48726402 TATACACCTCAATTACAGCGATAAAACATCTCAATATCCAGCCACTAAACACTTCAATTTGCAGT
131 TATACACCTCAATTACAGCGATAAAACATCTCAATATCCAGCAACTAAACACTTCAATTTGCAGT
*
48726467 ACTTAAACACTTCAATTTGCAACATTTAAGCACT
196 ACTTAAACACTTCAATTTGCAACATTTAAGCACA
48726501 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAA
1 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAA
* *
48726566 CACTTCAATTTACAGCATTTAAGCACTTCAATTTGCAGCACTTTTACATCTCAATTAACAACATT
66 CACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATT
* *
48726631 TATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAGCAACTAAACACTTCAATTTACAGT
131 TATACACCTCAATTACAGCGATAAAACATCTCAATATCCAGCAACTAAACACTTCAATTTGCAGT
48726696 ACTTAAACACTTCAATTTGCAACATTTAAGCACA
196 ACTTAAACACTTCAATTTGCAACATTTAAGCACA
* *
48726730 TCAATTTACAGCATTTAAACACTTCAACTTACAGCATTCAAACACTTCAATTTGCAGCACTTTAA
1 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAA
*
48726795 CACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAGCATCTCAATTAACAACATT
66 CACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATT
* * **
48726860 TATACACCTCAATTACAGCGATAAAACATCTCAATGTCCAACAACTAAACACTTCAATTTGCAAC
131 TATACACCTCAATTACAGCGATAAAACATCTCAATATCCAGCAACTAAACACTTCAATTTGCAGT
* * * * * *
48726925 ATTTAAGCACTTCAATTTACAGCATTTAAACACT
196 ACTTAAACACTTCAATTTGCAACATTTAAGCACA
* * * *
48726959 TCAATTTACAGCATTCAAACACTTCAATTTGCAGCACTT-TAACACTTCAATTTACAACA-TTTA
1 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCA-TTCAAACACTTCAATTTGCAGCACTTTA
* ** * *
48727022 AGCACTTCAATTTGCAGCACTTT-AACA-TCTCAATTAACAACA-TTTATACACCTCAATT-ACA
65 A-CACTTCAATTTACAGCA-TTTAAACACT-TCAATTTGCAGCACTTTA-ACATCTCAATTAACA
* * * * * * * * * * ** *
48727083 GCGA-TAAAACATCTCAATGTCCAACAACT-AAACA-CTTCAATTTGCAACATTTAAGCACTTCA
126 AC-ATTTATACACCTCAAT-TACAGCGA-TAAAACATC-TCAATATCCAGCAACTAAACACTTCA
* * ** *
48727145 ATTTGCAGCACTTTAACA-TCTCAATTAACAACATTTATA-CACC
187 ATTTGCAGTACTTAAACACT-TCAATTTGCAACATTTA-AGCACA
* * * * *
48727188 TCAA-TTACAGCGA-TAAAACA-TCTCAATATCCAGCCACT-AAACACTTCAATTTGCAGTACTT
1 TCAATTTACAGC-ATTTAAACACT-TCAATTTGCAG-CATTCAAACACTTCAATTTGCAGCACTT
* * * * * *
48727249 AAACACTTCAATTTGCAACATTTAAGCATTTCAATTTACAGCA-TTTAA
63 TAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAA
48727297 ACACTTCAAT
Statistics
Matches: 933, Mismatches: 74, Indels: 38
0.89 0.07 0.04
Matches are distributed among these distances:
227 5 0.01
228 100 0.11
229 818 0.88
230 10 0.01
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.31
Consensus pattern (229 bp):
TCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTTAA
CACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATT
TATACACCTCAATTACAGCGATAAAACATCTCAATATCCAGCAACTAAACACTTCAATTTGCAGT
ACTTAAACACTTCAATTTGCAACATTTAAGCACA
Found at i:48727012 original size:206 final size:206
Alignment explanation
Indices: 48725875--48727353 Score: 1148
Period size: 206 Copynumber: 7.2 Consensus size: 206
48725865 AATAAGTACT
* * **
48725875 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACTGCATTTAAACACTTCAATTTGTAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTGCAGCATTTAAACACTTCAATTTACAG
* *
48725940 CATTCAAACACTTCAATTTGCAGCACTTTAACA-TCTCAATTAACAACATTTAAACACCTCAA-T
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACATTTAAACACTTCAATT
* * * * * *
48726003 TATAGCGATAAAACATCTCAATGT-CCAGCAACTAAACACTTCAATTTACAG-TACTTAAACACT
130 TACAGC-ATTAAACATCTCAAT-TAACAGC-ATTAAACACCTCAATTTACAGCGACTTAAACACT
* **
48726066 TCAATTTGCAACATT
192 TCAATTTACAACAAC
* * * * * *
48726081 TAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTGCAGCATTTAAACACTTCAATTTACAG
* ** * * * *
48726146 CACTT-TAACA-TCTCAATTAACAACA-TTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTC
66 CA-TTCAAACACT-TCAATTTGCAGCACTTTA-ACACTTCAATTTACAAC-ATTTAAACACT-TC
* * * ** * * * * * *
48726205 AATATCCAGCCACTAAACA-CTTCAATTTGCAGTACTTAAACACTTCAATTTGCAAC-ATTTAAG
126 AATTTACAG-CATTAAACATC-TCAATTAACAGCA-TTAAACACCTCAATTTACAGCGACTTAAA
* * **
48726268 CACATCAATTTACAGCATT
188 CACTTCAATTTACAACAAC
* * *
48726287 TAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTACA
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTGCAGCA-TTTAAACACTTCAATTTACA
* * * * * *
48726351 GCATTTAAGCACTTCAATTTGCAGCACTTTTACA-TCTCAATTAACAACATTTATACACCTCAA-
65 GCATTCAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTTACAACATTTAAACACTTCAAT
* * * * * *
48726414 TTACAGCGATAAAACATCTCAA-TATCCAGCCACTAAACACTTCAATTTGCAG-TACTTAAACAC
129 TTACAGC-ATTAAACATCTCAATTA-ACAG-CATTAAACACCTCAATTTACAGCGACTTAAACAC
* **
48726477 TTCAATTTGCAACATT
191 TTCAATTTACAACAAC
* * * * * *
48726493 TAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCATTCAAACACTTCAATTTGCAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTGCAGCATTTAAACACTTCAATTTACAG
* * * * *
48726558 CACTT-TAACACTTCAATTTACAGCA-TTTAAGCACTTCAATTTGCAGCACTTT-TACA-TCTCA
66 CA-TTCAAACACTTCAATTTGCAGCACTTTAA-CACTTCAATTTACAACA-TTTAAACACT-TCA
* * * * * * * * *
48726619 ATTAACAACATTTATACACCTCAATT-ACAGCGATAAAACATCTCAATGTCCAGCAAC-TAAACA
127 ATTTACAGCA-TTAAACATCTCAATTAACAGC-ATTAAACACCTCAATTTACAGCGACTTAAACA
**
48726682 CTTCAATTTAC-AGTAC
190 CTTCAATTTACAACAAC
* * *
48726698 TTAAACACTTCAATTTGCAACATTTAAGCACATCAATTTACAGCATTTAAACACTTCAACTTACA
1 -TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTGCAGCATTTAAACACTTCAATTTACA
*
48726763 GCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATT
65 GCATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATT
* * * * * *
48726828 TGCAGCACTTTAGCATCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TC
130 TACAGCA-TTAAACATCTCAATTAACAGCA-TTAAACACCTCAATTTACAGCGACTTAAACACT-
* *
48726890 TCAATGTCCAACAAC
192 TCAATTTACAACAAC
*
48726905 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTACAGCATTTAAACACTTCAATTTACAG
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTGCAGCATTTAAACACTTCAATTTACAG
*
48726970 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAAGCACTTCAATTT
66 CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATTT
* * * * *
48727035 GCAGCACTTTAACATCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCT
131 ACAGCA-TTAAACATCTCAATTAACAGCA-TTAAACACCTCAATTTACAGCGACTTAAACACT-T
* *
48727097 CAATGTCCAACAAC
193 CAATTTACAACAAC
*
48727111 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTGCAGCACTTT-AACA-TCTCAATTAAC
1 TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTGCAGCA-TTTAAACACT-TCAATTTAC
* * * * * ** * * * *
48727174 AACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATATCCAGCCA-CTAAACACTTC
64 AGCATTCAAACACTTCAATTTGCAGC-ACTTTAACACT-TCAATTTACA-ACATTTAAACACTTC
* * ** * * ** *
48727235 AATTTGCAGTACTTAAACA-CTTCAATTTGCAACATTTAAGCATTTCAATTTACAGC-ATTTAAA
126 AATTTACAGCA-TTAAACATC-TCAATTAACAGCA-TTAAACACCTCAATTTACAGCGACTTAAA
* *
48727298 CACTTCAATTTACAGC-AT
188 CACTTCAATTTACAACAAC
* * *
48727316 TCAAACACTTCAGTTTGCAGCAGTTTAA-CACCTCAATT
1 T-AAACACTTCAATTTGCAACA-TTTAAGCACTTCAATT
48727354 AACAATATTT
Statistics
Matches: 1054, Mismatches: 162, Indels: 114
0.79 0.12 0.09
Matches are distributed among these distances:
204 2 0.00
205 111 0.11
206 860 0.82
207 80 0.08
208 1 0.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.31
Consensus pattern (206 bp):
TAAACACTTCAATTTGCAACATTTAAGCACTTCAATTTGCAGCATTTAAACACTTCAATTTACAG
CATTCAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAAACACTTCAATTT
ACAGCATTAAACATCTCAATTAACAGCATTAAACACCTCAATTTACAGCGACTTAAACACTTCAA
TTTACAACAAC
Found at i:48727132 original size:114 final size:114
Alignment explanation
Indices: 48726909--48727313 Score: 491
Period size: 114 Copynumber: 3.5 Consensus size: 114
48726899 AACAACTAAA
* * *
48726909 CACTTCAATTTGCAACATTTAAGCA-CTTCAATTTACAGCATTTAAACACTTCAATTTACAGC-A
1 CACTTCAATTTGCAACATTTAAGCATC-TCAATTAACAACATTTAAACACCTCAATTTACAGCGA
* * * * *
48726972 TTCAAACA-CTTCAATTTGCAGCACTTTAACACTTCAATTTACAACATTTAAG
65 -TAAAACATC-TCAATATCCAGCAC-TAAACACTTCAATTTGCAACATTTAAG
* *
48727024 CACTTCAATTTGCAGCACTTTAA-CATCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA
1 CACTTCAATTTGCAACA-TTTAAGCATCTCAATTAACAACATTTAAACACCTCAATTTACAGCGA
* *
48727087 TAAAACATCTCAATGTCCAACAACTAAACACTTCAATTTGCAACATTTAAG
65 TAAAACATCTCAATATCCAGC-ACTAAACACTTCAATTTGCAACATTTAAG
* *
48727138 CACTTCAATTTGCAGCACTTTAA-CATCTCAATTAACAACATTTATACACCTCAA-TTACAGCGA
1 CACTTCAATTTGCAACA-TTTAAGCATCTCAATTAACAACATTTAAACACCTCAATTTACAGCGA
** * *
48727201 TAAAACATCTCAATATCCAGCCACTAAACACTTCAATTTGCAGTACTTAAA
65 TAAAACATCTCAATATCCAG-CACTAAACACTTCAATTTGCAACATTTAAG
* * * *
48727252 CACTTCAATTTGCAACATTTAAGCATTTCAATTTACAGCATTTAAACACTTCAATTTACAGC
1 CACTTCAATTTGCAACATTTAAGCATCTCAATTAACAACATTTAAACACCTCAATTTACAGC
48727314 ATTCAAACAC
Statistics
Matches: 259, Mismatches: 23, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
113 5 0.02
114 195 0.75
115 53 0.20
116 6 0.02
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (114 bp):
CACTTCAATTTGCAACATTTAAGCATCTCAATTAACAACATTTAAACACCTCAATTTACAGCGAT
AAAACATCTCAATATCCAGCACTAAACACTTCAATTTGCAACATTTAAG
Found at i:48730311 original size:29 final size:28
Alignment explanation
Indices: 48730262--48730317 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
48730252 TTTATATTGA
48730262 ATAAATATAAACATTTATATATGCAATAT
1 ATAAATATAAACATTTATATAT-CAATAT
48730291 ATAAATATAAA-ATGATT-TATATCAATA
1 ATAAATATAAACAT--TTATATATCAATA
48730318 ATTGTGTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 7 0.28
29 16 0.64
30 2 0.08
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (28 bp):
ATAAATATAAACATTTATATATCAATAT
Found at i:48730788 original size:15 final size:15
Alignment explanation
Indices: 48730754--48730801 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
48730744 TTTAAACCCC
* *
48730754 AACCCTTAAACCAT-
1 AACCCATAATCCATA
*
48730768 AACCCATAATCCCTA
1 AACCCATAATCCATA
48730783 AACCCATAATCCATA
1 AACCCATAATCCATA
48730798 AACC
1 AACC
48730802 TTAAAATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.44, C:0.38, G:0.00, T:0.19
Consensus pattern (15 bp):
AACCCATAATCCATA
Found at i:48730806 original size:22 final size:21
Alignment explanation
Indices: 48730757--48730830 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
48730747 AAACCCCAAC
*
48730757 CCTTAAACCATAACCCATAAT
1 CCTTAAACCATAACCCATAAA
* *
48730778 CCCTAAACCCATAATCCATAAA
1 CCTTAAA-CCATAACCCATAAA
** *
48730800 CCTTAAAATAGTAACTCATAAA
1 CCTTAAACCA-TAACCCATAAA
*
48730822 CATTAAACC
1 CCTTAAACC
48730831 CTTAATCGTA
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
21 7 0.17
22 33 0.82
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (21 bp):
CCTTAAACCATAACCCATAAA
Found at i:48730847 original size:7 final size:7
Alignment explanation
Indices: 48730837--48730887 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
48730827 AACCCTTAAT
48730837 CGTATAC
1 CGTATAC
48730844 CGTATAC
1 CGTATAC
*
48730851 CGTAAAC
1 CGTATAC
*
48730858 CCTATA-
1 CGTATAC
*
48730864 C-TATAT
1 CGTATAC
48730870 CGTATAC
1 CGTATAC
48730877 CGTATAC
1 CGTATAC
48730884 CGTA
1 CGTA
48730888 AGCCCTATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 4 0.11
6 2 0.05
7 32 0.84
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.29
Consensus pattern (7 bp):
CGTATAC
Found at i:48730872 original size:33 final size:33
Alignment explanation
Indices: 48730835--48730901 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
48730825 TAAACCCTTA
48730835 ATCGTATACCGTATACCGTAAACCCTATACTAT
1 ATCGTATACCGTATACCGTAAACCCTATACTAT
*
48730868 ATCGTATACCGTATACCGTAAGCCCTATACTAT
1 ATCGTATACCGTATACCGTAAACCCTATACTAT
48730901 A
1 A
48730902 ATGATAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (33 bp):
ATCGTATACCGTATACCGTAAACCCTATACTAT
Found at i:48731580 original size:155 final size:154
Alignment explanation
Indices: 48731388--48731789 Score: 619
Period size: 155 Copynumber: 2.6 Consensus size: 154
48731378 CGTTTGAATG
48731388 AAAAACGCCT-CTAAAGATCGAGCATTAGCGGCGTTTTTTAATAAGCACCGCTAAAGGTGTACCT
1 AAAAACG-CTGCTAAAGATCGAGCATTAGCGGCGTTTTTTAATAAGCACCGCTAAAGGTGTACCT
* *
48731452 ATAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATATAAAACGACTTCGTTTT
65 ATAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTT
*
48731517 ACAAAAATCTTTTGCGGCATTTTTAA
130 ACAAAAATCTTTTGCGGC-TCTTTAA
48731543 AAAAACGCTGCTAAAGATCGAGCATTAGCGGCGTTTTTTAATAAGCACCGCTAAAGGTGTACCTA
1 AAAAACGCTGCTAAAGATCGAGCATTAGCGGCGTTTTTTAATAAGCACCGCTAAAGGTGTACCTA
* *
48731608 TAGTGGCGATTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTTA
66 TAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTTA
* * **
48731673 CAAAACTCTTTTGCTGCTCTTTCT
131 CAAAAATCTTTTGCGGCTCTTTAA
* * * * * * *
48731697 GAAAACGCCGCTAAAGATCGAGCATTAGCCGCGCTTTTTAAAAAACGCCGCTAAAGGTGTACCTA
1 AAAAACGCTGCTAAAGATCGAGCATTAGCGGCGTTTTTTAATAAGCACCGCTAAAGGTGTACCTA
48731762 TAGCGGCGTTTTTAATAAA-CGCCGCTAA
66 TAGCGGCGTTTTTAA-AAAGCGCCGCTAA
48731790 TGCTCGATCT
Statistics
Matches: 227, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
154 86 0.38
155 141 0.62
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (154 bp):
AAAAACGCTGCTAAAGATCGAGCATTAGCGGCGTTTTTTAATAAGCACCGCTAAAGGTGTACCTA
TAGCGGCGTTTTTAAAAAGCGCCGCTAAAGCCACTAAAAGGTCAATACAAAACGACGTCGTTTTA
CAAAAATCTTTTGCGGCTCTTTAA
Found at i:48731809 original size:39 final size:39
Alignment explanation
Indices: 48731699--48731831 Score: 124
Period size: 39 Copynumber: 3.3 Consensus size: 39
48731689 CTCTTTCTGA
* * * *
48731699 AAACGCCGCTAAAGATCGAGCATTAGCCGCGCTTTTTAAA
1 AAACGCCGCTAAAGATCGACCTTTAGCGGCG-TTTTTAAT
* *
48731739 AAACGCCGCTAAAGGT-GTACCTATAGCGGCGTTTTTAAT
1 AAACGCCGCTAAAGATCG-ACCTTTAGCGGCGTTTTTAAT
* * * * *
48731778 AAACGCCGCTAATGCTCGATCTTTAGAGGCGTTTTTCATT
1 AAACGCCGCTAAAGATCGACCTTTAGCGGCGTTTTT-AAT
48731818 CAAACGCCGCTAAA
1 -AAACGCCGCTAAA
48731832 AATGCCGCTA
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
39 37 0.49
40 27 0.36
41 12 0.16
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (39 bp):
AAACGCCGCTAAAGATCGACCTTTAGCGGCGTTTTTAAT
Found at i:48736201 original size:13 final size:13
Alignment explanation
Indices: 48736183--48736207 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48736173 ATTTAAAAGA
48736183 TTACATAATCAAT
1 TTACATAATCAAT
48736196 TTACATAATCAA
1 TTACATAATCAA
48736208 ATCAAATCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:48741854 original size:37 final size:36
Alignment explanation
Indices: 48741799--48741930 Score: 112
Period size: 37 Copynumber: 3.6 Consensus size: 36
48741789 AGGACATAGG
48741799 TTTAGCTCGA-ACGAGTAACCTAATGTTGTTTTAAAAT
1 TTTAGCTCGACA-G-GTAACCTAATGTTGTTTTAAAAT
* *
48741836 TTTAGCTCAGACAGGTAACTTGATATG-TG-TTT-ATAT
1 TTTAGCTC-GACAGGTAACCT-A-ATGTTGTTTTAAAAT
*
48741872 TATTAGCTCGA-ACGAGTAACCTAATGTTGTTTTAAAAG
1 T-TTAGCTCGACA-G-GTAACCTAATGTTGTTTTAAAAT
*
48741910 TTTAGCTCGGACGGGTAACCT
1 TTTAGCTC-GACAGGTAACCT
48741931 GATATGTGTT
Statistics
Matches: 77, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
35 4 0.05
36 10 0.13
37 47 0.61
38 12 0.16
39 4 0.05
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (36 bp):
TTTAGCTCGACAGGTAACCTAATGTTGTTTTAAAAT
Found at i:48741889 original size:74 final size:74
Alignment explanation
Indices: 48741800--48741958 Score: 282
Period size: 74 Copynumber: 2.1 Consensus size: 74
48741790 GGACATAGGT
* *
48741800 TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAATTTTAGCTCAGACAGGTAACTTGATATGTG
1 TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACAGGTAACCTGATATGTG
48741865 TTTATATTA
66 TTTATATTA
* *
48741874 TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCGGACGGGTAACCTGATATGTG
1 TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACAGGTAACCTGATATGTG
48741939 TTTATATTA
66 TTTATATTA
48741948 TTAGCTCGAAC
1 TTAGCTCGAAC
48741959 AAGCAATTGG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 81 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (74 bp):
TTAGCTCGAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACAGGTAACCTGATATGTG
TTTATATTA
Found at i:48741952 original size:37 final size:37
Alignment explanation
Indices: 48741837--48741955 Score: 127
Period size: 37 Copynumber: 3.2 Consensus size: 37
48741827 TTTTAAAATT
* * *
48741837 TTAGCTCAGACAGGTAACTTGATATGTGTTTATATTA
1 TTAGCTCGGACGGGTAACCTGATATGTGTTTATATTA
* * **
48741874 TTAGCTCGAACGAGTAACCT-A-ATGTTGTTT-TAAAA
1 TTAGCTCGGACGGGTAACCTGATATG-TGTTTATATTA
48741909 GTTTAGCTCGGACGGGTAACCTGATATGTGTTTATATTA
1 --TTAGCTCGGACGGGTAACCTGATATGTGTTTATATTA
48741948 TTAGCTCG
1 TTAGCTCG
48741956 AACAAGCAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
35 6 0.09
36 6 0.09
37 41 0.63
38 6 0.09
39 6 0.09
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (37 bp):
TTAGCTCGGACGGGTAACCTGATATGTGTTTATATTA
Found at i:48748288 original size:47 final size:47
Alignment explanation
Indices: 48748203--48748760 Score: 1035
Period size: 47 Copynumber: 11.7 Consensus size: 47
48748193 GTATATTTGA
48748203 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
48748252 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
48748299 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
48748346 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
48748393 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
48748440 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
48748487 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
48748534 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
48748581 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
48748628 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
48748675 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCAATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
48748724 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
48748761 CATGTCCGGG
Statistics
Matches: 504, Mismatches: 3, Indels: 4
0.99 0.01 0.01
Matches are distributed among these distances:
47 421 0.84
49 83 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:48749138 original size:37 final size:37
Alignment explanation
Indices: 48748762--48749129 Score: 700
Period size: 37 Copynumber: 9.9 Consensus size: 37
48748752 TAAGGCCTAC
48748762 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
1 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
48748799 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
1 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
48748836 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
1 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
48748873 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
1 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
48748910 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
1 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
48748947 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
1 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
48748984 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
1 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
48749021 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
1 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
*
48749058 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGATT
1 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
* * *
48749095 TTGTCCGGGTAAGACCCGATAACTTCGTGTGGAGA
1 ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGA
48749130 TTTCGTCCGA
Statistics
Matches: 327, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 327 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (37 bp):
ATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAGT
Found at i:48750284 original size:25 final size:25
Alignment explanation
Indices: 48750250--48750302 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
48750240 GATGCAATTT
48750250 TGAAAGAGTGTTATGACTATAAATG
1 TGAAAGAGTGTTATGACTATAAATG
*
48750275 TGAAAGAGTGTTATGACTATTAATG
1 TGAAAGAGTGTTATGACTATAAATG
48750300 TGA
1 TGA
48750303 TTTTTGTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.34
Consensus pattern (25 bp):
TGAAAGAGTGTTATGACTATAAATG
Found at i:48750830 original size:40 final size:40
Alignment explanation
Indices: 48750427--48750818 Score: 577
Period size: 40 Copynumber: 9.8 Consensus size: 40
48750417 GAGAATTGAG
48750427 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
48750467 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
48750507 AGTGATGTATCCGGGCTAAGTCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
48750547 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
48750587 AGTGATATATCCGGGCTAAATCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
48750627 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
48750667 AGTGATATATCCGGGCTAAATCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
48750707 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
48750747 AGTGATATATCCGTGCTAAGTTCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
48750787 GGTGTTATATCTGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
48750819 ATCATGCTGG
Statistics
Matches: 314, Mismatches: 38, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 314 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:48755076 original size:37 final size:37
Alignment explanation
Indices: 48755026--48755111 Score: 136
Period size: 37 Copynumber: 2.3 Consensus size: 37
48755016 GCAAATATAT
* * *
48755026 TCCGGGTAAGACCCGATGACTACGTGTGGGGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
*
48755063 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
48755100 TCCGGGTAAGAC
1 TCCGGGTAAGAC
48755112 TTCGTAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:48759106 original size:16 final size:15
Alignment explanation
Indices: 48759076--48759104 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48759066 GTGTCTCCTT
48759076 TTTTTAAAATATTTA
1 TTTTTAAAATATTTA
48759091 TTTTTAAAATATTT
1 TTTTTAAAATATTT
48759105 TACTATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTTAAAATATTTA
Found at i:48762466 original size:21 final size:21
Alignment explanation
Indices: 48762419--48762468 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
48762409 GAAACTAGTG
*
48762419 AGAATT-TATTTTCTGAGTAC
1 AGAATTCTATTTTCTGAATAC
48762439 A-AATTCTATTTTCTGGAATA-
1 AGAATTCTATTTTCT-GAATAC
48762459 AGAATTCTAT
1 AGAATTCTAT
48762469 CGGTTTCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.15
20 10 0.38
21 12 0.46
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (21 bp):
AGAATTCTATTTTCTGAATAC
Found at i:48766137 original size:46 final size:47
Alignment explanation
Indices: 48766057--48766149 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 47
48766047 CTTCAAATCT
48766057 TTCCCTATTTTGCTGCTAGGCAACTTTTACCTCTTCAATTTAAAAAATA
1 TTCCCTATTTTGC-GCTAGGCAACTTTTACCTCTTCAA-TTAAAAAATA
*
48766106 TTCCCTATTTTGC-C-AGGCAACTTTTATCTCTTCAATTAAAAAAT
1 TTCCCTATTTTGCGCTAGGCAACTTTTACCTCTTCAATTAAAAAAT
48766150 TATTTATCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
45 9 0.21
46 20 0.47
47 1 0.02
49 13 0.30
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.41
Consensus pattern (47 bp):
TTCCCTATTTTGCGCTAGGCAACTTTTACCTCTTCAATTAAAAAATA
Found at i:48770004 original size:43 final size:41
Alignment explanation
Indices: 48769957--48770104 Score: 120
Period size: 43 Copynumber: 3.5 Consensus size: 41
48769947 TATTCTTGTA
* * *
48769957 TAAGACCACGTCTGGAACGTTTGCATCGATATGTGATTATGTG
1 TAAGACCACGTCTGGAACATTGGCATCG-TATGTGATT-CGTG
* * *
48770000 TAAGACCATGTCTGGGACATTGGCATCGTATTTGATTCGTG
1 TAAGACCACGTCTGGAACATTGGCATCGTATGTGATTCGTG
* * * *
48770041 TAAGACC-C-TAACTGGGACAGTGGCATCGATATGTGATAGCATG
1 TAAGACCACGT--CTGGAACATTGGCATCG-TATGTGAT-TCGTG
* *
48770084 TAAGACCACGTTTGGGACATT
1 TAAGACCACGTCTGGAACATT
48770105 TGAATTGTAC
Statistics
Matches: 86, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
39 1 0.01
41 26 0.30
42 15 0.17
43 42 0.49
44 1 0.01
45 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (41 bp):
TAAGACCACGTCTGGAACATTGGCATCGTATGTGATTCGTG
Found at i:48770056 original size:41 final size:43
Alignment explanation
Indices: 48769979--48770091 Score: 133
Period size: 41 Copynumber: 2.7 Consensus size: 43
48769969 TGGAACGTTT
* ** *
48769979 GCATCGATATGTGATTATGTGTAAGACCATGTCTGGGACATTG
1 GCATCGATATGTGATTACGTGTAAGACCATAACTGGGACAGTG
* *
48770022 GCATCG-TATTTGATT-CGTGTAAGACCCTAACTGGGACAGTG
1 GCATCGATATGTGATTACGTGTAAGACCATAACTGGGACAGTG
*
48770063 GCATCGATATGTGA-TAGCATGTAAGACCA
1 GCATCGATATGTGATTA-CGTGTAAGACCA
48770092 CGTTTGGGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 28 0.48
42 14 0.24
43 16 0.28
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
GCATCGATATGTGATTACGTGTAAGACCATAACTGGGACAGTG
Found at i:48786694 original size:11 final size:11
Alignment explanation
Indices: 48786678--48786721 Score: 70
Period size: 11 Copynumber: 4.0 Consensus size: 11
48786668 AATGTAATCA
48786678 CAATAAAAATG
1 CAATAAAAATG
48786689 CAATAAAAATG
1 CAATAAAAATG
*
48786700 CAATGAAAATG
1 CAATAAAAATG
*
48786711 CAATGAAAATG
1 CAATAAAAATG
48786722 TGTACTTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.59, C:0.09, G:0.14, T:0.18
Consensus pattern (11 bp):
CAATAAAAATG
Found at i:48786813 original size:21 final size:22
Alignment explanation
Indices: 48786767--48786814 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
48786757 ATGCATGAAT
48786767 ACTACAGGTAAAGCTTAAAATAA
1 ACTACAGGTAAAGCTT-AAATAA
* *
48786790 ACTACAGGTGAAGCTT-ATTAA
1 ACTACAGGTAAAGCTTAAATAA
48786811 ACTA
1 ACTA
48786815 ACTCAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
23 15 0.65
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (22 bp):
ACTACAGGTAAAGCTTAAATAA
Found at i:48786879 original size:14 final size:15
Alignment explanation
Indices: 48786853--48786882 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48786843 CTGCACAATG
48786853 TTTCTTCCTCCTCCT
1 TTTCTTCCTCCTCCT
48786868 TTTCTT-CTCCTCCT
1 TTTCTTCCTCCTCCT
48786882 T
1 T
48786883 CTTTCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTCTTCCTCCTCCT
Found at i:48790291 original size:43 final size:43
Alignment explanation
Indices: 48790154--48790318 Score: 149
Period size: 43 Copynumber: 3.8 Consensus size: 43
48790144 CATAGGATTT
* * *
48790154 TCGATATGTGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCA
1 TCGATATTTGATTTCTTGTAAGACCATGTCTGGGACAG-AGGCA
* * * **
48790197 T-TA-ATTTGAGATTTATGTGTAAGACCATTTCTGGGACATCGGCA
1 TCGATATTT--GATTTCT-TGTAAGACCATGTCTGGGACAGAGGCA
* *
48790241 TC-ATATTTGATTTCTTGTAAGACCCTGTCGGGGACAGAGGCA
1 TCGATATTTGATTTCTTGTAAGACCATGTCTGGGACAGAGGCA
* * *
48790283 TCGATATTTGATTACATGTAAGACCACGTCTGGGAC
1 TCGATATTTGATTTCTTGTAAGACCATGTCTGGGAC
48790319 TTTGGCATTG
Statistics
Matches: 97, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
41 3 0.03
42 25 0.26
43 40 0.41
44 25 0.26
45 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTTCTTGTAAGACCATGTCTGGGACAGAGGCA
Found at i:48796144 original size:25 final size:25
Alignment explanation
Indices: 48796116--48796227 Score: 98
Period size: 25 Copynumber: 4.5 Consensus size: 25
48796106 CGCCATACAG
48796116 GCTTTCCAGATAACATGCCACAAAA
1 GCTTTCCAGATAACATGCCACAAAA
* * * *
48796141 GCTTTCTAGATAACATGCAACACAG
1 GCTTTCCAGATAACATGCCACAAAA
* * * *
48796166 GCTATCTAGATAACATGTCACAAAG
1 GCTTTCCAGATAACATGCCACAAAA
* * * *
48796191 GTTTTCCGGATAATATGTCACAAAA
1 GCTTTCCAGATAACATGCCACAAAA
**
48796216 AATTTCCAGATA
1 GCTTTCCAGATA
48796228 TTATGATACA
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 70 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (25 bp):
GCTTTCCAGATAACATGCCACAAAA
Found at i:48800697 original size:12 final size:12
Alignment explanation
Indices: 48800680--48800706 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48800670 ATTCCGAAGT
48800680 ATATATATATAC
1 ATATATATATAC
48800692 ATATATATATAC
1 ATATATATATAC
48800704 ATA
1 ATA
48800707 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:48801237 original size:27 final size:28
Alignment explanation
Indices: 48801153--48801250 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
48801143 CATGAGATTG
* * * *
48801153 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
48801182 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48801210 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48801237 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48801251 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48801261 original size:27 final size:27
Alignment explanation
Indices: 48801181--48801263 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
48801171 TAAATTGTAC
* *
48801181 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
48801209 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
48801236 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
48801263 A
1 A
48801264 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:48812352 original size:46 final size:46
Alignment explanation
Indices: 48812285--48812375 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
48812275 CATGGGAGAT
*
48812285 TTTGACTAATAAACTGTACTAAGTGGCCGAACCAAAAATTCTAGAG
1 TTTGACTAATAAACTGTACTAAGTGGCCCAACCAAAAATTCTAGAG
*
48812331 TTTGACTAATAAACTGTACTAATTGGCCCAACCAAAAATTCTAGA
1 TTTGACTAATAAACTGTACTAAGTGGCCCAACCAAAAATTCTAGA
48812376 AAAAAATATG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (46 bp):
TTTGACTAATAAACTGTACTAAGTGGCCCAACCAAAAATTCTAGAG
Found at i:48819080 original size:27 final size:28
Alignment explanation
Indices: 48818996--48819093 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
48818986 CATGAGATTG
* * * *
48818996 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
48819025 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48819053 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48819080 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48819094 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48819104 original size:27 final size:27
Alignment explanation
Indices: 48819024--48819106 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
48819014 TAAATTGTAC
* *
48819024 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
48819052 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
48819079 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
48819106 A
1 A
48819107 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:48824637 original size:17 final size:17
Alignment explanation
Indices: 48824615--48824649 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
48824605 CTCATGGTAC
48824615 ACATGTTCAAGTTCACA
1 ACATGTTCAAGTTCACA
48824632 ACATGTTCAAGTTCACA
1 ACATGTTCAAGTTCACA
48824649 A
1 A
48824650 TTGAATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (17 bp):
ACATGTTCAAGTTCACA
Found at i:48829995 original size:42 final size:42
Alignment explanation
Indices: 48829907--48830057 Score: 191
Period size: 42 Copynumber: 3.7 Consensus size: 42
48829897 TGATGAATCA
* * *
48829907 GCTATATGTGGCACTTAGTGTGTGAGA-TCGAGATAGCTTCG
1 GCTATATATGGCACTTAATGTGCGAGATTCGAGATAGCTTCG
*
48829948 GCTATATATGGCACTTAATGTGCGAGATTCGACATAGCTTCG
1 GCTATATATGGCACTTAATGTGCGAGATTCGAGATAGCTTCG
* * *
48829990 GCTATATATGGCACTTAGTGTGC--GATTTGAGATAGCGTCG
1 GCTATATATGGCACTTAATGTGCGAGATTCGAGATAGCTTCG
* * *
48830030 GCTATGTATGGCACTTAAAGTGTGAGAT
1 GCTATATATGGCACTTAATGTGCGAGAT
48830058 ATAGAGTATG
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
40 33 0.35
41 24 0.25
42 38 0.40
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (42 bp):
GCTATATATGGCACTTAATGTGCGAGATTCGAGATAGCTTCG
Found at i:48830084 original size:28 final size:28
Alignment explanation
Indices: 48830035--48830094 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
48830025 CGTCGGCTAT
* *
48830035 GTATGGCACTTAAAGTGTGAGATATAGA
1 GTATGGCACTTAAAGTGCGAGACATAGA
** *
48830063 GTATGGCACTTAGTGTGCGAGACATTGA
1 GTATGGCACTTAAAGTGCGAGACATAGA
48830091 GTAT
1 GTAT
48830095 TCAATGGCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (28 bp):
GTATGGCACTTAAAGTGCGAGACATAGA
Found at i:48841967 original size:93 final size:93
Alignment explanation
Indices: 48841855--48842026 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
48841845 GCCCATAAGT
* *
48841855 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48841920 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
48841948 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
48842013 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
48842027 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:48842022 original size:46 final size:46
Alignment explanation
Indices: 48841847--48842022 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
48841837 TGTAACCCGC
* *
48841847 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
48841893 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
48841939 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
48841986 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
48842023 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:48844467 original size:30 final size:30
Alignment explanation
Indices: 48844423--48844511 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
48844413 CAAAGATAAC
48844423 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
48844452 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
48844482 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
48844512 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:48844471 original size:15 final size:15
Alignment explanation
Indices: 48844423--48844502 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
48844413 CAAAGATAAC
*
48844423 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
48844437 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
48844452 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
48844467 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
48844482 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
48844497 AAGAAA
1 AAGAAA
48844503 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:48844511 original size:15 final size:15
Alignment explanation
Indices: 48844434--48844511 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
48844424 AGAAAACCGA
48844434 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
48844449 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
48844463 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
48844478 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
48844494 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
48844509 ATA
1 ATA
48844512 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:48848148 original size:24 final size:27
Alignment explanation
Indices: 48848102--48848150 Score: 77
Period size: 24 Copynumber: 1.9 Consensus size: 27
48848092 ATATTACAGT
48848102 TTGTATATTAAATAAGCTTTAATATAA
1 TTGTATATTAAATAAGCTTTAATATAA
48848129 TTGTAT-TTAAAT-A-CTTTAATAT
1 TTGTATATTAAATAAGCTTTAATAT
48848151 TTCATAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
25 1 0.05
26 6 0.27
27 6 0.27
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (27 bp):
TTGTATATTAAATAAGCTTTAATATAA
Found at i:48852852 original size:11 final size:12
Alignment explanation
Indices: 48852826--48852855 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
48852816 TACCTCGATG
48852826 AAAACAGTTATA
1 AAAACAGTTATA
48852838 AAAACAGTTATA
1 AAAACAGTTATA
48852850 AAAACA
1 AAAACA
48852856 AAGTTGACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.63, C:0.10, G:0.07, T:0.20
Consensus pattern (12 bp):
AAAACAGTTATA
Found at i:48860064 original size:477 final size:477
Alignment explanation
Indices: 48859170--48860123 Score: 1908
Period size: 477 Copynumber: 2.0 Consensus size: 477
48859160 TGAGGGCCGC
48859170 TCATGGCGGGATCCACCTGTTGTGAAAGAGAGTCTCAACGGAGGTTCTGGTAGTAGAAAGCCTCC
1 TCATGGCGGGATCCACCTGTTGTGAAAGAGAGTCTCAACGGAGGTTCTGGTAGTAGAAAGCCTCC
48859235 GTTGAGCGGTGGAGGTAGCAGGGGCAGTAATTATGCAAATAATAATGAAGGGTGGGATAGTTGGG
66 GTTGAGCGGTGGAGGTAGCAGGGGCAGTAATTATGCAAATAATAATGAAGGGTGGGATAGTTGGG
48859300 ATAATGACGATTCTTTTAGATCTTCGAATGATATGAGGAGGAACCAATCGGCGACTGATTTTAGA
131 ATAATGACGATTCTTTTAGATCTTCGAATGATATGAGGAGGAACCAATCGGCGACTGATTTTAGA
48859365 GGAGGGAATAAACATGGGGGTGCTCCGATGAGGTCAAGGTCCACGGAGGATATATACACGAAATC
196 GGAGGGAATAAACATGGGGGTGCTCCGATGAGGTCAAGGTCCACGGAGGATATATACACGAAATC
48859430 CGAATTGGAGGCTTCGGCGGCTAACAAGGAGAGCTTTTTTGCGAGGAAGATGGCAGAGAATGAAT
261 CGAATTGGAGGCTTCGGCGGCTAACAAGGAGAGCTTTTTTGCGAGGAAGATGGCAGAGAATGAAT
48859495 CTAGGCCTGAAGGACTACCACCTTCTCAAGGAGGGAAATATGTTGGGTTTGGATCGAGTCCTATG
326 CTAGGCCTGAAGGACTACCACCTTCTCAAGGAGGGAAATATGTTGGGTTTGGATCGAGTCCTATG
48859560 CCTACCCAGAGGAATGATGATTCTCAGGGGGATGTGCTCTCCGTTGTATCTCAGGTTAAGAAATT
391 CCTACCCAGAGGAATGATGATTCTCAGGGGGATGTGCTCTCCGTTGTATCTCAGGTTAAGAAATT
48859625 ATTTCTTTATAATTTTTTATGA
456 ATTTCTTTATAATTTTTTATGA
48859647 TCATGGCGGGATCCACCTGTTGTGAAAGAGAGTCTCAACGGAGGTTCTGGTAGTAGAAAGCCTCC
1 TCATGGCGGGATCCACCTGTTGTGAAAGAGAGTCTCAACGGAGGTTCTGGTAGTAGAAAGCCTCC
48859712 GTTGAGCGGTGGAGGTAGCAGGGGCAGTAATTATGCAAATAATAATGAAGGGTGGGATAGTTGGG
66 GTTGAGCGGTGGAGGTAGCAGGGGCAGTAATTATGCAAATAATAATGAAGGGTGGGATAGTTGGG
48859777 ATAATGACGATTCTTTTAGATCTTCGAATGATATGAGGAGGAACCAATCGGCGACTGATTTTAGA
131 ATAATGACGATTCTTTTAGATCTTCGAATGATATGAGGAGGAACCAATCGGCGACTGATTTTAGA
48859842 GGAGGGAATAAACATGGGGGTGCTCCGATGAGGTCAAGGTCCACGGAGGATATATACACGAAATC
196 GGAGGGAATAAACATGGGGGTGCTCCGATGAGGTCAAGGTCCACGGAGGATATATACACGAAATC
48859907 CGAATTGGAGGCTTCGGCGGCTAACAAGGAGAGCTTTTTTGCGAGGAAGATGGCAGAGAATGAAT
261 CGAATTGGAGGCTTCGGCGGCTAACAAGGAGAGCTTTTTTGCGAGGAAGATGGCAGAGAATGAAT
48859972 CTAGGCCTGAAGGACTACCACCTTCTCAAGGAGGGAAATATGTTGGGTTTGGATCGAGTCCTATG
326 CTAGGCCTGAAGGACTACCACCTTCTCAAGGAGGGAAATATGTTGGGTTTGGATCGAGTCCTATG
48860037 CCTACCCAGAGGAATGATGATTCTCAGGGGGATGTGCTCTCCGTTGTATCTCAGGTTAAGAAATT
391 CCTACCCAGAGGAATGATGATTCTCAGGGGGATGTGCTCTCCGTTGTATCTCAGGTTAAGAAATT
48860102 ATTTCTTTATAATTTTTTATGA
456 ATTTCTTTATAATTTTTTATGA
48860124 AATTGGTGAT
Statistics
Matches: 477, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
477 477 1.00
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (477 bp):
TCATGGCGGGATCCACCTGTTGTGAAAGAGAGTCTCAACGGAGGTTCTGGTAGTAGAAAGCCTCC
GTTGAGCGGTGGAGGTAGCAGGGGCAGTAATTATGCAAATAATAATGAAGGGTGGGATAGTTGGG
ATAATGACGATTCTTTTAGATCTTCGAATGATATGAGGAGGAACCAATCGGCGACTGATTTTAGA
GGAGGGAATAAACATGGGGGTGCTCCGATGAGGTCAAGGTCCACGGAGGATATATACACGAAATC
CGAATTGGAGGCTTCGGCGGCTAACAAGGAGAGCTTTTTTGCGAGGAAGATGGCAGAGAATGAAT
CTAGGCCTGAAGGACTACCACCTTCTCAAGGAGGGAAATATGTTGGGTTTGGATCGAGTCCTATG
CCTACCCAGAGGAATGATGATTCTCAGGGGGATGTGCTCTCCGTTGTATCTCAGGTTAAGAAATT
ATTTCTTTATAATTTTTTATGA
Found at i:48863769 original size:28 final size:29
Alignment explanation
Indices: 48863711--48863769 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 29
48863701 CTTTTTTTAC
* *
48863711 TTTTGTCATTTCTCTTACATTTGTTTTTT
1 TTTTGTCATTTATCTTACATTTATTTTTT
* *
48863740 TTTTGTC-TTTATCTT-TATTTATTTTAT
1 TTTTGTCATTTATCTTACATTTATTTTTT
48863767 TTT
1 TTT
48863770 ATTTTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 12 0.46
28 7 0.27
29 7 0.27
ACGTcount: A:0.12, C:0.10, G:0.05, T:0.73
Consensus pattern (29 bp):
TTTTGTCATTTATCTTACATTTATTTTTT
Found at i:48863856 original size:20 final size:23
Alignment explanation
Indices: 48863818--48863862 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
48863808 ATTTGAAATG
48863818 TTTTATAATATATATTTTTTAAA
1 TTTTATAATATATATTTTTTAAA
48863841 TTTTA-AATAT-TA-TTTTTAAA
1 TTTTATAATATATATTTTTTAAA
48863861 TT
1 TT
48863863 ACTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 2 0.09
22 5 0.23
23 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTATAATATATATTTTTTAAA
Found at i:48863859 original size:13 final size:14
Alignment explanation
Indices: 48863841--48863877 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
48863831 ATTTTTTAAA
48863841 TTTTAAATATTA-T
1 TTTTAAATATTACT
48863854 TTTT-AA-ATTACT
1 TTTTAAATATTACT
48863866 TTTTAAATATTA
1 TTTTAAATATTA
48863878 AATATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.19
12 7 0.33
13 6 0.29
14 4 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAAATATTACT
Found at i:48863969 original size:57 final size:56
Alignment explanation
Indices: 48863908--48864129 Score: 127
Period size: 45 Copynumber: 4.1 Consensus size: 56
48863898 AAACATTTAA
48863908 ATATTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATTTTAAATAT
1 ATATTTTAAAGATATGACCTTTCAAATTTA-TATTAGTTTTATAATATTTTAAATAT
* * *
48863965 ATA-TTT---GAAATG---TTTTATAA--TATA-TA-TTTTTTAA-ATTTTAAATAT
1 ATATTTTAAAGATATGACCTTTCA-AATTTATATTAGTTTTATAATATTTTAAATAT
* * * * * ** *
48864010 -TATTTTTAA-AT-T-ACTTTTTAAATATTAAATATATTTTTAATAATA-TAAAACATTTAA
1 ATATTTTAAAGATATGACCTTTCAAAT-TTATAT-TAGTTTT-ATAATATTTTAA-A--TAT
* *
48864067 ATATTTTAAAGATATGACCTTTCAAATTTATTATTAGTTTTATAATATATTAAATGT
1 ATATTTTAAAGATATGACCTTTCAAATTTA-TATTAGTTTTATAATATTTTAAATAT
48864124 ATATTT
1 ATATTT
48864130 GGAATGTTTT
Statistics
Matches: 121, Mismatches: 19, Indels: 50
0.64 0.10 0.26
Matches are distributed among these distances:
44 2 0.02
45 14 0.12
46 8 0.07
47 5 0.04
48 7 0.06
49 2 0.02
50 7 0.06
51 2 0.02
52 2 0.02
53 9 0.07
54 6 0.05
55 2 0.02
56 3 0.02
57 12 0.10
58 8 0.07
59 9 0.07
60 12 0.10
61 11 0.09
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (56 bp):
ATATTTTAAAGATATGACCTTTCAAATTTATATTAGTTTTATAATATTTTAAATAT
Found at i:48863986 original size:159 final size:159
Alignment explanation
Indices: 48863800--48864288 Score: 924
Period size: 159 Copynumber: 3.1 Consensus size: 159
48863790 AAAAAACTTG
48863800 AAATGTATATTTGAAATGTTTTATAATATATATTTTTTAAATTTTAAATATTATTTTTAAATTAC
1 AAATGTATATTTGAAATGTTTTATAATATATATTTTTTAAATTTTAAATATTATTTTTAAATTAC
48863865 TTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTAAAGATATGACCTTT
66 TTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTAAAGATATGACCTTT
48863930 CAAATTTATTATTAGTTTTATAATATTTT
131 CAAATTTATTATTAGTTTTATAATATTTT
*
48863959 AAATATATATTTGAAATGTTTTATAATATATATTTTTTAAATTTTAAATATTATTTTTAAATTAC
1 AAATGTATATTTGAAATGTTTTATAATATATATTTTTTAAATTTTAAATATTATTTTTAAATTAC
48864024 TTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTAAAGATATGACCTTT
66 TTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTAAAGATATGACCTTT
*
48864089 CAAATTTATTATTAGTTTTATAATATATT
131 CAAATTTATTATTAGTTTTATAATATTTT
*
48864118 AAATGTATATTTGGAATGTTTTATAATATATATTTTTTAAATTTTAAATATTATTTTTAAATTAC
1 AAATGTATATTTGAAATGTTTTATAATATATATTTTTTAAATTTTAAATATTATTTTTAAATTAC
* *
48864183 TTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTAAAAATATGAACTTT
66 TTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTAAAGATATGACCTTT
48864248 CAAATTTATTATTAGTTTTATAATATTTT
131 CAAATTTATTATTAGTTTTATAATATTTT
*
48864277 AAATGTCTATTT
1 AAATGTATATTT
48864289 TTAATTTTTA
Statistics
Matches: 322, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
159 322 1.00
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (159 bp):
AAATGTATATTTGAAATGTTTTATAATATATATTTTTTAAATTTTAAATATTATTTTTAAATTAC
TTTTTAAATATTAAATATATTTTTAATAATATAAAACATTTAAATATTTTAAAGATATGACCTTT
CAAATTTATTATTAGTTTTATAATATTTT
Found at i:48864174 original size:20 final size:23
Alignment explanation
Indices: 48864136--48864180 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
48864126 ATTTGGAATG
48864136 TTTTATAATATATATTTTTTAAA
1 TTTTATAATATATATTTTTTAAA
48864159 TTTTA-AATAT-TA-TTTTTAAA
1 TTTTATAATATATATTTTTTAAA
48864179 TT
1 TT
48864181 ACTTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 2 0.09
22 5 0.23
23 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTATAATATATATTTTTTAAA
Found at i:48864177 original size:13 final size:14
Alignment explanation
Indices: 48864159--48864195 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
48864149 ATTTTTTAAA
48864159 TTTTAAATATTA-T
1 TTTTAAATATTACT
48864172 TTTT-AA-ATTACT
1 TTTTAAATATTACT
48864184 TTTTAAATATTA
1 TTTTAAATATTA
48864196 AATATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.19
12 7 0.33
13 6 0.29
14 4 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAAATATTACT
Found at i:48864763 original size:23 final size:21
Alignment explanation
Indices: 48864729--48864796 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
48864719 AAAATATTTA
* *
48864729 AATATTTTATATTATTAAAAAT
1 AATATTTAATATT-TAAAAAAT
48864751 ATATATTTAATATTTAAAAAAT
1 A-ATATTTAATATTTAAAAAAT
* *
48864773 AATATTCAAAATTTAAAAAAT
1 AATATTTAATATTTAAAAAAT
48864794 AAT
1 AAT
48864797 TTCAAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
21 21 0.51
22 9 0.22
23 11 0.27
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATTTAATATTTAAAAAAT
Found at i:48864767 original size:21 final size:20
Alignment explanation
Indices: 48864743--48864803 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
48864733 TTTTATATTA
*
48864743 TTAAAAATATATATTTAATAT
1 TTAAAAA-ATATATTTAAAAT
*
48864764 TTAAAAAATAATATTCAAAAT
1 TTAAAAAAT-ATATTTAAAAT
*
48864785 TTAAAAAATA-ATTTCAAAT
1 TTAAAAAATATATTTAAAAT
48864804 ATATATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 7 0.20
20 3 0.09
21 25 0.71
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
TTAAAAAATATATTTAAAAT
Found at i:48864874 original size:23 final size:22
Alignment explanation
Indices: 48864804--48864874 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 22
48864794 AATTTCAAAT
48864804 ATATATATTTAAAATTTTTAAAA
1 ATATATATTTAAAATTTTT-AAA
* *
48864827 ATATATATTATAAAATATTTCAA
1 ATATATATT-TAAAATTTTTAAA
*
48864850 ATATACATTTCAAAATTTTTAAA
1 ATATATATTT-AAAATTTTTAAA
48864873 AT
1 AT
48864875 TAATAATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
22 1 0.02
23 31 0.76
24 9 0.22
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATATATTTAAAATTTTTAAA
Found at i:48864888 original size:46 final size:48
Alignment explanation
Indices: 48864786--48864889 Score: 140
Period size: 47 Copynumber: 2.2 Consensus size: 48
48864776 ATTCAAAATT
* * *
48864786 TAAAAAATAATTTCAAATATATATATTTAAAATTTTTAAAAATATATAT
1 TAAAAAAT-ATTTCAAATATACATATTCAAAATTTTTAAAAATATATAA
* *
48864835 TATAAAATATTTCAAATATACAT-TTCAAAATTTTTAAAATTA-ATAA
1 TAAAAAATATTTCAAATATACATATTCAAAATTTTTAAAAATATATAA
48864881 TAAAAAATA
1 TAAAAAATA
48864890 AGTAAAATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
46 11 0.22
47 17 0.35
48 14 0.29
49 7 0.14
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (48 bp):
TAAAAAATATTTCAAATATACATATTCAAAATTTTTAAAAATATATAA
Found at i:48864957 original size:16 final size:16
Alignment explanation
Indices: 48864933--48864966 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
48864923 AAAAGGGACG
48864933 AAAGTAAAAAAGTAAAA
1 AAAGTAAAAAAG-AAAA
48864950 AAAG-AAAAAAGAAAA
1 AAAGTAAAAAAGAAAA
48864965 AA
1 AA
48864967 GAAGCAGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 7 0.41
17 4 0.24
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAGTAAAAAAGAAAA
Found at i:48868251 original size:24 final size:24
Alignment explanation
Indices: 48868219--48868278 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
48868209 ATCTTCTTTG
*
48868219 TCTTCACCTCCACC-CTCGTACTCA
1 TCTTCACCTCAACCGC-CGTACTCA
*
48868243 TCTTCACCTCAACCGCCGTATTCA
1 TCTTCACCTCAACCGCCGTACTCA
*
48868267 TATTCACCTCAA
1 TCTTCACCTCAA
48868279 TCGTCATCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.22, C:0.43, G:0.05, T:0.30
Consensus pattern (24 bp):
TCTTCACCTCAACCGCCGTACTCA
Found at i:48879776 original size:46 final size:47
Alignment explanation
Indices: 48879643--48879863 Score: 197
Period size: 46 Copynumber: 4.7 Consensus size: 47
48879633 GTTAGGTACT
* * * **
48879643 GATGCCATGTCCCAGACATGGTCTTACACAAGTTCTGACATATCTGT-GCC
1 GATGCCATGTCCCAGACATGGTCTTACAC-TG-GC--ACATCTCAATAGCC
*
48879693 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTC-ATAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCACATCTCAATAGCC
* * *
48879739 GATG-CATGTCCCAGATAT-GTCTTACACTGGCTTACATCTCGA-GGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC--ACATCTCAATAGCC
* * * *
48879785 AATG-CATATCCCAGACAT-GTCTTACACTAGCAATCGTCTCAATA-CC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-A-CATCTCAATAGCC
48879831 GATGCCATGTCCCAGACATGGTCTTACACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
48879864 TCTTATAATG
Statistics
Matches: 145, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
44 12 0.08
45 15 0.10
46 61 0.42
47 14 0.10
48 13 0.09
49 1 0.01
50 29 0.20
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCACATCTCAATAGCC
Found at i:48888874 original size:26 final size:25
Alignment explanation
Indices: 48888824--48888895 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
48888814 ACAAGCAGAC
*
48888824 TTTTTTTTATATTAAAATATTTTTT
1 TTTTTTTTATAATAAAATATTTTTT
48888849 TGTTTTTTTA-AATAAAATATTATTTT
1 T-TTTTTTTATAATAAAATATT-TTTT
* *
48888875 TTATTTTTATTA-AAAATATTT
1 TTTTTTTTATAATAAAATATTT
48888896 AAATTTATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 1 0.02
25 26 0.63
26 14 0.34
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (25 bp):
TTTTTTTTATAATAAAATATTTTTT
Found at i:48888882 original size:28 final size:25
Alignment explanation
Indices: 48888824--48888888 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 25
48888814 ACAAGCAGAC
*
48888824 TTTTTTTTATATTAAAATATTTTTTT
1 TTTTTTTTA-AATAAAATATTTTTTT
*
48888850 GTTTTTTTAAATAAAATATTATTTTT
1 TTTTTTTTAAATAAAATATT-TTTTT
48888876 TATTTTTATTAAA
1 T-TTTTT-TTAAA
48888889 AATATTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 10 0.30
26 13 0.39
27 5 0.15
28 5 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (25 bp):
TTTTTTTTAAATAAAATATTTTTTT
Found at i:48889119 original size:17 final size:17
Alignment explanation
Indices: 48889097--48889132 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
48889087 CCCCTACTGA
48889097 CTGCTGCTT-TCAGCTGG
1 CTGCTGCTTGT-AGCTGG
48889114 CTGCTGCTTGTAGCTGG
1 CTGCTGCTTGTAGCTGG
48889131 CT
1 CT
48889133 ACTGTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.94
18 1 0.06
ACGTcount: A:0.06, C:0.28, G:0.31, T:0.36
Consensus pattern (17 bp):
CTGCTGCTTGTAGCTGG
Found at i:48889253 original size:9 final size:10
Alignment explanation
Indices: 48889224--48889290 Score: 50
Period size: 11 Copynumber: 6.6 Consensus size: 10
48889214 ACCACCCACT
*
48889224 AGAAGAGAGAA
1 AGAAAAGAG-A
48889235 AGAAAAGAG-
1 AGAAAAGAGA
*
48889244 AGAAAGGAGA
1 AGAAAAGAGA
*
48889254 AGAAAAAAAGA
1 AG-AAAAGAGA
48889265 AGAAGAAGAAGA
1 AGAA-AAG-AGA
48889277 AG-AAAGA-A
1 AGAAAAGAGA
48889285 AGAAAA
1 AGAAAA
48889291 AATAAAAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
8 3 0.07
9 12 0.26
10 7 0.15
11 19 0.41
12 5 0.11
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AGAAAAGAGA
Found at i:48889260 original size:20 final size:20
Alignment explanation
Indices: 48889237--48889288 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 20
48889227 AGAGAGAAAG
*
48889237 AAAAGAGAGAAAGGAGAAGA
1 AAAAGAGAGAAAGAAGAAGA
48889257 AAAA-A-AG-AAGAAGAAGA
1 AAAAGAGAGAAAGAAGAAGA
* *
48889274 AGAAGAAAGAAAGAA
1 AAAAGAGAGAAAGAA
48889289 AAAATAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 12 0.44
18 3 0.11
19 3 0.11
20 9 0.33
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
AAAAGAGAGAAAGAAGAAGA
Found at i:48889277 original size:23 final size:23
Alignment explanation
Indices: 48889224--48889288 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
48889214 ACCACCCACT
48889224 AGAAGAGAGAAAGAAAAG-AGAGAA
1 AGAAGA-AGAAA-AAAAGAAGAGAA
*
48889248 AGGAGAAGAAAAAAAGAAGA-AGA
1 AGAAGAAGAAAAAAAGAAGAGA-A
*
48889271 AGAAGAAGAAAGAAAGAA
1 AGAAGAAGAAAAAAAGAA
48889289 AAAATAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 6 0.17
23 25 0.69
24 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (23 bp):
AGAAGAAGAAAAAAAGAAGAGAA
Found at i:48895802 original size:24 final size:23
Alignment explanation
Indices: 48895775--48895819 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
48895765 TTCCGTTCAA
*
48895775 CTAAAATTTGTTTCTGTTGCTCTG
1 CTAAAATTTGTGTCTG-TGCTCTG
*
48895799 CTAAATTTTGTGTCTGTGCTC
1 CTAAAATTTGTGTCTGTGCTC
48895820 ATTTGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (23 bp):
CTAAAATTTGTGTCTGTGCTCTG
Found at i:48896015 original size:27 final size:27
Alignment explanation
Indices: 48895886--48896015 Score: 143
Period size: 27 Copynumber: 4.8 Consensus size: 27
48895876 CCCGCCATTT
*
48895886 GCGCCTCTGAGATAGGCACAATTAGTC
1 GCGCCTCTGAGATAGGCACAACTAGTC
* * *
48895913 GTGCCTTTGAGATAGGCACAATTAGTC
1 GCGCCTCTGAGATAGGCACAACTAGTC
* * * *
48895940 GCGCCTCTGAAAAAGACTCAACTAGTC
1 GCGCCTCTGAGATAGGCACAACTAGTC
* * *
48895967 GCGCCTCTGAGAAAGACTCAACTAGTC
1 GCGCCTCTGAGATAGGCACAACTAGTC
* *
48895994 GCGCCTCAGAGATAGGCGCAAC
1 GCGCCTCTGAGATAGGCACAAC
48896016 CTGTATTCGT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.20
Consensus pattern (27 bp):
GCGCCTCTGAGATAGGCACAACTAGTC
Found at i:48896091 original size:28 final size:27
Alignment explanation
Indices: 48896051--48896110 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
48896041 ATACTGATCC
*
48896051 AAAAATAAAAAATAATATCTT-ATTTAA
1 AAAAATAAAAAAT-ATATCTTAATATAA
*
48896078 AAAAATAAAAAAATATATTTTAATATAA
1 AAAAAT-AAAAAATATATCTTAATATAA
48896106 AAAAA
1 AAAAA
48896111 AGTCGCGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 12 0.41
28 17 0.59
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (27 bp):
AAAAATAAAAAATATATCTTAATATAA
Found at i:48896095 original size:27 final size:28
Alignment explanation
Indices: 48896051--48896110 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
48896041 ATACTGATCC
*
48896051 AAAAATAAAAAATAATATCTT-ATTTAA
1 AAAAATAAAAAATAATATCTTAATATAA
*
48896078 AAAAATAAAAAA-ATATATTTTAATATAA
1 AAAAATAAAAAATA-ATATCTTAATATAA
48896106 AAAAA
1 AAAAA
48896111 AGTCGCGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 1 0.03
27 18 0.62
28 10 0.34
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (28 bp):
AAAAATAAAAAATAATATCTTAATATAA
Found at i:48897636 original size:15 final size:15
Alignment explanation
Indices: 48897601--48897630 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48897591 TTTAATCATT
*
48897601 TATAAATTATAAATA
1 TATAAATTATAAAAA
48897616 TATAAATTATAAAAA
1 TATAAATTATAAAAA
48897631 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTATAAAAA
Found at i:48900689 original size:10 final size:10
Alignment explanation
Indices: 48900639--48900680 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
48900629 TATAATCTTT
48900639 AAAAATA-AA
1 AAAAATATAA
*
48900648 AAAACTATAA
1 AAAAATATAA
* *
48900658 ATAATTATAA
1 AAAAATATAA
48900668 AAAAATATAA
1 AAAAATATAA
48900678 AAA
1 AAA
48900681 TATTTAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 6 0.22
10 21 0.78
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAATATAA
Found at i:48901175 original size:19 final size:19
Alignment explanation
Indices: 48901135--48901177 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
48901125 AATTAGTAAC
** *
48901135 TTTTTTATATTTTTGTATT
1 TTTTTTATATTTTTCCAAT
48901154 TTTTTTATATTTTTCCAAT
1 TTTTTTATATTTTTCCAAT
48901173 TTTTT
1 TTTTT
48901178 AAAATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTATATTTTTCCAAT
Found at i:48904733 original size:29 final size:28
Alignment explanation
Indices: 48904644--48904789 Score: 109
Period size: 29 Copynumber: 5.2 Consensus size: 28
48904634 GACATGTTGC
* *
48904644 AAAAAAATGATAAAAA-A-TAAAAATCA
1 AAAAAAATTATAAAAATATTAAAAATTA
* * * **
48904670 ATAAAATTTATAAAATTATTAAATTTCTA
1 AAAAAAATTATAAAAATATTAAAAAT-TA
*
48904699 ATAAAAA-TATAAAAATATTAAAAATTA
1 AAAAAAATTATAAAAATATTAAAAATTA
** *
48904726 GAAAAAAATTATAAAAATCGTAAAAAGCTA
1 -AAAAAAATTATAAAAATATTAAAAA-TTA
* *
48904756 TAAAAAATTATAAAAATCATAAAAAATTA
1 AAAAAAATTATAAAAAT-ATTAAAAATTA
*
48904785 TAAAA
1 AAAAA
48904790 TGCATCAAAA
Statistics
Matches: 93, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
26 12 0.13
27 3 0.03
28 26 0.28
29 45 0.48
30 7 0.08
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (28 bp):
AAAAAAATTATAAAAATATTAAAAATTA
Found at i:48904789 original size:9 final size:9
Alignment explanation
Indices: 48904646--48904789 Score: 73
Period size: 9 Copynumber: 15.4 Consensus size: 9
48904636 CATGTTGCAA
*
48904646 AAAAATGAT
1 AAAAATTAT
48904655 AAAAA--AT
1 AAAAATTAT
*
48904662 AAAAATCAAT
1 AAAAAT-TAT
*
48904672 AAAATTTAT
1 AAAAATTAT
48904681 -AAAATTATT
1 AAAAATTA-T
**
48904690 AAATTTCTAAT
1 AAAAAT-T-AT
48904701 AAAAA-TAT
1 AAAAATTAT
48904709 AAAAA-TATT
1 AAAAATTA-T
*
48904718 AAAAATTAGAA
1 AAAAATT--AT
48904729 AAAAATTAT
1 AAAAATTAT
**
48904738 AAAAATCGT
1 AAAAATTAT
*
48904747 AAAAAGCTAT
1 AAAAA-TTAT
48904757 AAAAAATTAT
1 -AAAAATTAT
*
48904767 AAAAATCAT
1 AAAAATTAT
48904776 AAAAAATTAT
1 -AAAAATTAT
48904786 AAAA
1 AAAA
48904790 TGCATCAAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
7 7 0.07
8 15 0.14
9 40 0.38
10 23 0.22
11 17 0.16
12 2 0.02
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Done.