Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 161 of 172
Found at i:47250612 original size:18 final size:18
Alignment explanation
Indices: 47250575--47250618 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
47250565 TTTTCATAAT
*
47250575 ATTAAATTATATAATATA
1 ATTATATTATATAATATA
* * *
47250593 ATTTTATTATATATTTTA
1 ATTATATTATATAATATA
47250611 ATTATATT
1 ATTATATT
47250619 TATTTTTTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTATATTATATAATATA
Found at i:47252938 original size:20 final size:20
Alignment explanation
Indices: 47252913--47252952 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47252903 AATATTTTCT
*
47252913 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
47252933 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
47252953 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:47252955 original size:34 final size:35
Alignment explanation
Indices: 47252901--47252967 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
47252891 CAAACAGCAA
* *
47252901 AAAATATTTTCTAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
47252936 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
47252968 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:47253572 original size:25 final size:25
Alignment explanation
Indices: 47253544--47253616 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 25
47253534 TAATAGTTCT
47253544 ATGTGACAGTCCAAATAGGTTTTAA
1 ATGTGACAGTCCAAATAGGTTTTAA
* * ** *
47253569 ATGTCA-ACT-TGAAT--GTTCT--
1 ATGTGACAGTCCAAATAGGTTTTAA
47253588 ATGTGACAGTCCAAATAGGTTTTAA
1 ATGTGACAGTCCAAATAGGTTTTAA
47253613 ATGT
1 ATGT
47253617 CAACTTGGAT
Statistics
Matches: 32, Mismatches: 10, Indels: 12
0.59 0.19 0.22
Matches are distributed among these distances:
19 5 0.16
20 2 0.06
21 7 0.22
23 7 0.22
24 2 0.06
25 9 0.28
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (25 bp):
ATGTGACAGTCCAAATAGGTTTTAA
Found at i:47253602 original size:44 final size:44
Alignment explanation
Indices: 47253539--47253647 Score: 191
Period size: 44 Copynumber: 2.5 Consensus size: 44
47253529 CGTAATAATA
47253539 GTTCTATGTGACAGTCCAAATAGGTTTTAAATGTCAACTTGAAT
1 GTTCTATGTGACAGTCCAAATAGGTTTTAAATGTCAACTTGAAT
*
47253583 GTTCTATGTGACAGTCCAAATAGGTTTTAAATGTCAACTTGGAT
1 GTTCTATGTGACAGTCCAAATAGGTTTTAAATGTCAACTTGAAT
* *
47253627 GTCCTATGTGACAGTCTAAAT
1 GTTCTATGTGACAGTCCAAAT
47253648 TAAATTTATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (44 bp):
GTTCTATGTGACAGTCCAAATAGGTTTTAAATGTCAACTTGAAT
Found at i:47257284 original size:22 final size:23
Alignment explanation
Indices: 47257231--47257286 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
47257221 TTTAATTAAA
* * *
47257231 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
47257254 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
47257276 ATTAAAATTAA
1 ATTAAAATTAA
47257287 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:47257299 original size:16 final size:16
Alignment explanation
Indices: 47257262--47257301 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
47257252 TTAATAAAAT
* *
47257262 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
47257278 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
47257294 TAAAATTA
1 TAAAATTA
47257302 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:47257380 original size:59 final size:59
Alignment explanation
Indices: 47257312--47257481 Score: 313
Period size: 59 Copynumber: 2.9 Consensus size: 59
47257302 TCAAATTATT
*
47257312 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
47257371 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAATATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
47257430 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
47257482 ACAAACTTGA
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 107 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:47266009 original size:109 final size:104
Alignment explanation
Indices: 47265820--47266039 Score: 298
Period size: 109 Copynumber: 2.1 Consensus size: 104
47265810 GTGTGAATAT
47265820 GTTGCTTTAATTTGTTGTGTGCCTGTTTTTTTTCTAGAGATGCATGTTATTGTTTGAAGCTAAAT
1 GTTGCTTTAATTTGTTGTGTGCCTGTTTTTTTTCTAGAGAT-CATGTTATTGTTTGAAGCTAAAT
**
47265885 GTGCTGATGTATATTCCAGACCTACATGGGAAATATATTG
65 GTGCTGATGTATATTCCAGACCTACACAGGAAATATATTG
* * *
47265925 GTTGCTTTAATTTGTTGTGTGGCTGTTTGTTTTTTTTCTAGGGAT-ATGTATTGTTGTTTGAAGC
1 GTTGCTTTAATTTGTTGTGT-GC---CTGTTTTTTTTCTAGAGATCATG--TTATTGTTTGAAGC
* *
47265989 TAAATGTGTTGATGTTTATTCCAGACCTACACAGGAAATATATTG
60 TAAATGTGCTGATGTATATTCCAGACCTACACAGGAAATATATTG
*
47266034 ATTGCT
1 GTTGCT
47266040 GTAAATCCTT
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
105 20 0.20
106 2 0.02
107 3 0.03
109 76 0.75
ACGTcount: A:0.22, C:0.10, G:0.22, T:0.45
Consensus pattern (104 bp):
GTTGCTTTAATTTGTTGTGTGCCTGTTTTTTTTCTAGAGATCATGTTATTGTTTGAAGCTAAATG
TGCTGATGTATATTCCAGACCTACACAGGAAATATATTG
Found at i:47266238 original size:18 final size:18
Alignment explanation
Indices: 47266215--47266252 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
47266205 CTTCATGTGC
47266215 TTATTGATGTAATAAGTG
1 TTATTGATGTAATAAGTG
47266233 TTATTGATGTAATAAGTG
1 TTATTGATGTAATAAGTG
47266251 TT
1 TT
47266253 CTGAACAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (18 bp):
TTATTGATGTAATAAGTG
Found at i:47273170 original size:66 final size:66
Alignment explanation
Indices: 47273064--47273441 Score: 607
Period size: 66 Copynumber: 5.7 Consensus size: 66
47273054 CAGGTTGACC
* *
47273064 TTGAGGAATCAAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTACAAAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
47273129 T
66 T
* * *
47273130 TTGAGGAATCCAAGAAAA-AGGAAAGTGCAAGGTTTGAATCTAATTTGC-AAAGAAGGAACTTGA
1 TTGAGGAATCCAA-AAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGA
47273193 GT
65 GT
* *
47273195 TTGAGGAATCCAAAAAACAGGAAAGTGAAAGGTTTGAATCTACTTTGCACAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
47273260 T
66 T
* * * *
47273261 TTGAGGAATCCAAGAAACAGGAAAGTGAAAGGTTTGAATCTACTTTCCACAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
47273326 T
66 T
**
47273327 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTACGCAAAAGATGCAACTTGAG
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
47273392 T
66 T
*
47273393 TTGAGGAATCCAAAAAACAGGAAAGAGCAAGGTTTGAATCTACTTTGCA
1 TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCA
47273442 CAGAAAGGAA
Statistics
Matches: 288, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
64 4 0.01
65 56 0.19
66 224 0.78
67 4 0.01
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (66 bp):
TTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTTTGCAAAAGATGCAACTTGAG
T
Found at i:47273489 original size:21 final size:21
Alignment explanation
Indices: 47273450--47273501 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
47273440 CACAGAAAGG
* * *
47273450 AACTTCAGTTTCAGCAACTGC
1 AACTTGAGTTGCAGAAACTGC
*
47273471 AATTTGAGTTGCAGAAACTGC
1 AACTTGAGTTGCAGAAACTGC
*
47273492 AGCTTGAGTT
1 AACTTGAGTT
47273502 TGAGGAATCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (21 bp):
AACTTGAGTTGCAGAAACTGC
Found at i:47273585 original size:66 final size:66
Alignment explanation
Indices: 47273494--47273640 Score: 249
Period size: 66 Copynumber: 2.2 Consensus size: 66
47273484 GAAACTGCAG
*
47273494 CTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAGGA
1 CTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAGGA
47273559 A
66 A
* * * *
47273560 CTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGTACAAGAAGGA
1 CTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAGGA
47273625 A
66 A
47273626 CTTGAGTTTCAGGAA
1 CTTGAGTTTCAGGAA
47273641 CTGCAAGTTG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 76 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (66 bp):
CTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAAGAAGGA
A
Found at i:47273610 original size:174 final size:174
Alignment explanation
Indices: 47273314--47273679 Score: 518
Period size: 174 Copynumber: 2.1 Consensus size: 174
47273304 TTTCCACAAG
* * *** *
47273314 ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGTGCAAGGTTTGAATCTACTACGCAAAA
1 ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAA
* * **
47273379 GATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGCAAGGTTTGAATCTACTTTGCAC-
66 GAAGCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACA
*
47273443 AGAAAGGAACTTCAGTTTCAGCAACTGCAATTTGAGTTGCAGAAA
131 AG-AAGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAA
* * ** *
47273488 CTGCAGCTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTTTGCACAA
1 ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAA
* *
47273553 GAAGGAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGTACA
66 GAAGCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACA
* * *
47273618 AGAAGGAACTTGAGTTTCAGGAACTGCAAGTTGAGTTTCAGAAA
131 AGAAGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAA
*
47273662 ATGCAACTTGAGCTTGAG
1 ATGCAACTTGAGTTTGAG
47273680 AAAACAAAAG
Statistics
Matches: 167, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
174 165 0.99
175 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (174 bp):
ATGCAACTTGAGTTTGAGGAATCCAAAAAACAGGAAAGAGAAACACTAGAATCTACTACGCAAAA
GAAGCAACTTGAGTTTCAGGAATCCAAAAAACAGGAAAGAGCAACATTTGAATCTACTTTGCACA
AGAAGGAACTTCAGTTTCAGCAACTGCAAGTTGAGTTGCAGAAA
Found at i:47273653 original size:21 final size:21
Alignment explanation
Indices: 47273624--47273683 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
47273614 TACAAGAAGG
* *
47273624 AACTTGAGTTTCAGGAACTGC
1 AACTTGAGTTTCAGAAAATGC
*
47273645 AAGTTGAGTTTCAGAAAATGC
1 AACTTGAGTTTCAGAAAATGC
* *
47273666 AACTTGAGCTTGAGAAAA
1 AACTTGAGTTTCAGAAAA
47273684 CAAAAGAGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (21 bp):
AACTTGAGTTTCAGAAAATGC
Found at i:47274470 original size:33 final size:33
Alignment explanation
Indices: 47274423--47274512 Score: 146
Period size: 33 Copynumber: 2.7 Consensus size: 33
47274413 ATCCCCGTTG
*
47274423 TTGATGATGAATCAATGAATAAACCTACCGA-TA
1 TTGAAGATGAATCAATGAATAAACCTACC-ATTA
47274456 TTGAAGATGAATCAATGAATAAACCTACCATTA
1 TTGAAGATGAATCAATGAATAAACCTACCATTA
*
47274489 TTGACGATGAATCAATGAATAAAC
1 TTGAAGATGAATCAATGAATAAAC
47274513 TTGATGAATC
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 1 0.02
33 53 0.98
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (33 bp):
TTGAAGATGAATCAATGAATAAACCTACCATTA
Found at i:47274518 original size:21 final size:21
Alignment explanation
Indices: 47274494--47274535 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
47274484 CATTATTGAC
47274494 GATGAATCAATGAATAAACTT
1 GATGAATCAATGAATAAACTT
47274515 GATGAATCAATGAATAAACTT
1 GATGAATCAATGAATAAACTT
47274536 ACTGCTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.29
Consensus pattern (21 bp):
GATGAATCAATGAATAAACTT
Found at i:47275283 original size:347 final size:346
Alignment explanation
Indices: 47274515--47275320 Score: 1434
Period size: 347 Copynumber: 2.3 Consensus size: 346
47274505 GAATAAACTT
47274515 GATGAATCAATGAATAAACTTACTGCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTG
1 GATGAATCAATGAATAAACTTACTGCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTG
*
47274580 CTTCAAATACTATCTCAGGTTTGACTAAAGGCTTTCTTGATGTCATTTGGAAAAAAGATTTTGGA
66 CTTCGAATACTATCTCAGGTTTGACTAAAGGCTTTCTTGATGTCATTTGGAAAAAAGATTTTGGA
* *
47274645 CATGGGAGCTGAGGACCAGAAACCACAGCAGCAGGCCATGCCGAGTTCACTGAGTACTACCATTT
131 CATGGGAGCTGAGGACCAGAAACCACAGCAGCAGGCCATGCCGAGTTCACTGAGTACAACCATGT
*
47274710 CAGAGGTGACATCTGCAGTAAGATATATCTCAACATTCTTTCCTTTTATTTTATTGAGTAGAATA
196 CAGAGGTGACATCTGCAGTAAGATAAATCTCAACATTCTTTCCTTTTATTTTATTGAGTAGAATA
47274775 TTCTTTCCTTATCTCAACAAGTTCCTGTGGTTCAGGAGATCCCTGTTATTGACAATGAATCAAAG
261 TTCTTTCCTTATCTCAACAAGTTCCTGTGGTTCAGGAGATCCCTGTTATTGACAATGAATCAAAG
**
47274840 AATAAACCTACCGTTATTGGT
326 AATAAACCTACCGTTATTGAC
*
47274861 GATGAATCAATGAATAAACTTACTGCTGAAAAAGAACAGCTGAAGGTATTGTTAGACATTTGTTG
1 GATGAATCAATGAATAAACTTACTGCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTG
*
47274926 CTTTGAATACTATCTCAGGTTTGACTAAAGGCTTTCTTGATGTCATTTGGAAAAAAGATTTTGGA
66 CTTCGAATACTATCTCAGGTTTGACTAAAGGCTTTCTTGATGTCATTTGGAAAAAAGATTTTGGA
47274991 CATGGGAGCTGAGGACCAGAAACCACAGCAGCA-GCCATGCCGAGTTCACTGAGTACAACCATGT
131 CATGGGAGCTGAGGACCAGAAACCACAGCAGCAGGCCATGCCGAGTTCACTGAGTACAACCATGT
*
47275055 CAGAGGTGACATCTGCAGTAAGATAAATCTCAACATTGTTTCCTTTTATTTTTATTGAGTAGAAT
196 CAGAGGTGACATCTGCAGTAAGATAAATCTCAACATTCTTTCCTTTTA-TTTTATTGAGTAGAAT
47275120 AATTCTTTCCTTATCTCAACAAGTTCCTGTGGTTCAGGAGATCCCTGTTATTGACAATGAATCAA
260 -ATTCTTTCCTTATCTCAACAAGTTCCTGTGGTTCAGGAGATCCCTGTTATTGACAATGAATCAA
*
47275185 TGAATAAACCTACCGTTATTGAC
324 AGAATAAACCTACCGTTATTGAC
* * * *
47275208 GATGAATCAATAAATAGACTTACTGCTGAAAATGAGCAGCTGAAGGTATTGTTAGACATTTTTTG
1 GATGAATCAATGAATAAACTTACTGCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTG
* * *
47275273 CTTCGAATACTATCTTAGTTTTGACTAAAAGCTTTCTTGATGTCATTT
66 CTTCGAATACTATCTCAGGTTTGACTAAAGGCTTTCTTGATGTCATTT
47275321 TTAAACTTGG
Statistics
Matches: 439, Mismatches: 19, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
345 75 0.17
346 176 0.40
347 188 0.43
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (346 bp):
GATGAATCAATGAATAAACTTACTGCTGAAAATGAACAGCTGAAGGTATTGTTAGACATTTGTTG
CTTCGAATACTATCTCAGGTTTGACTAAAGGCTTTCTTGATGTCATTTGGAAAAAAGATTTTGGA
CATGGGAGCTGAGGACCAGAAACCACAGCAGCAGGCCATGCCGAGTTCACTGAGTACAACCATGT
CAGAGGTGACATCTGCAGTAAGATAAATCTCAACATTCTTTCCTTTTATTTTATTGAGTAGAATA
TTCTTTCCTTATCTCAACAAGTTCCTGTGGTTCAGGAGATCCCTGTTATTGACAATGAATCAAAG
AATAAACCTACCGTTATTGAC
Found at i:47288152 original size:16 final size:16
Alignment explanation
Indices: 47288131--47288164 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
47288121 ATTCGAAAGG
47288131 AAAAAAA-TAAAGAGAA
1 AAAAAAACTAAA-AGAA
47288147 AAAAAAACTAAAAGAA
1 AAAAAAACTAAAAGAA
47288163 AA
1 AA
47288165 TAAATATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.82, C:0.03, G:0.09, T:0.06
Consensus pattern (16 bp):
AAAAAAACTAAAAGAA
Found at i:47288153 original size:17 final size:16
Alignment explanation
Indices: 47288131--47288164 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
47288121 ATTCGAAAGG
47288131 AAAAAAATAAAGAGAAA
1 AAAAAAATAAA-AGAAA
*
47288148 AAAAAACTAAAAGAAA
1 AAAAAAATAAAAGAAA
47288164 A
1 A
47288165 TAAATATACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.82, C:0.03, G:0.09, T:0.06
Consensus pattern (16 bp):
AAAAAAATAAAAGAAA
Found at i:47288403 original size:8 final size:8
Alignment explanation
Indices: 47288383--47288413 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
47288373 GCGAGCGGCA
47288383 GAGCAGGT
1 GAGCAGGT
47288391 GGAGCAGGT
1 -GAGCAGGT
47288400 GAGCAGGT
1 GAGCAGGT
47288408 GAGCAG
1 GAGCAG
47288414 CGATGGGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.26, C:0.13, G:0.52, T:0.10
Consensus pattern (8 bp):
GAGCAGGT
Found at i:47288951 original size:46 final size:45
Alignment explanation
Indices: 47288892--47289271 Score: 249
Period size: 41 Copynumber: 8.7 Consensus size: 45
47288882 TCTGGCTTCA
* * *
47288892 ATCTGCTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTGCAATT-TTCG
* * * * *
47288938 GTCTACTACACTGTAACCTCAGAGAGATAAGACCTG--A--TGCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTGCAATTTTCG
* ** *
47288979 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTT-A
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGAT-CTGCAATTTTCG
* * * *
47289023 ACCCACTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTGCAATT-TTCG
* * * *
47289069 GTCTACTCCACTGTAACCTCAGAGAGATAAGACCTG--A--TGCG
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTGCAATTTTCG
* ** *
47289110 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTATTTT-A
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGAT-CTGCAATTTTCG
** * * * *
47289154 ATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-TACTATCTTT-G
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTGCAAT-TTTCG
* * * *
47289198 ATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTG--A-TGT-G
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCTGCAATTTTCG
* *
47289239 ATCTTCTCTACTGTAACTTCAGAGAGATAAGAT
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGAT
47289272 TTGAAATCTT
Statistics
Matches: 263, Mismatches: 53, Indels: 41
0.74 0.15 0.11
Matches are distributed among these distances:
41 93 0.35
42 6 0.02
43 9 0.03
44 92 0.35
45 5 0.02
46 58 0.22
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (45 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCTGCAATTTTCG
Found at i:47289125 original size:218 final size:218
Alignment explanation
Indices: 47288746--47289143 Score: 552
Period size: 218 Copynumber: 1.8 Consensus size: 218
47288736 CTTCAGGGAA
* *
47288746 ATAAGACTTGATGCGACCTACTCTGCTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCAC
1 ATAAGACCTGATGCGACCTACTCTACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCAC
* * * * * * *
47288811 TCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAATCTCGGGGAGAT
66 TCCACTGTAACTTCAGGGAGATAAGATAATGTCTTCGATCTACTCCACTGTAACCTCAGAGAGAT
* * * * *
47288876 AAGATCTCTGGCTTCAATCTGCTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTC
131 AAGATCTCTGGATGCAATCTACTCCACTGTAACTTCAGAGAGATAAGATCTGCAATTCTTCGGTC
47288941 TACTACACTGTAACCTCAGAGAG
196 TACTACACTGTAACCTCAGAGAG
* *
47288964 ATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCCAC
1 ATAAGACCTGATGCGACCTACTCTACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCAC
* *
47289029 TCCACTGTAACTTCAGGGGGATAAGATCTGCAAT-TCTTCGGTCTACTCCACTGTAACCTCAGAG
66 TCCACTGTAACTTCAGGGAGATAAGA--T--AATGTCTTCGATCTACTCCACTGTAACCTCAGAG
* *
47289093 AGATAAGA-C-CT-GATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
127 AGATAAGATCTCTGGATGCAATCTACTCCACTGTAACTTCAGAGAGATAAGATC
47289144 CTTTATTTTA
Statistics
Matches: 156, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
218 118 0.76
219 2 0.01
220 2 0.01
221 32 0.21
222 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (218 bp):
ATAAGACCTGATGCGACCTACTCTACTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCAC
TCCACTGTAACTTCAGGGAGATAAGATAATGTCTTCGATCTACTCCACTGTAACCTCAGAGAGAT
AAGATCTCTGGATGCAATCTACTCCACTGTAACTTCAGAGAGATAAGATCTGCAATTCTTCGGTC
TACTACACTGTAACCTCAGAGAG
Found at i:47289260 original size:129 final size:131
Alignment explanation
Indices: 47288891--47289271 Score: 595
Period size: 131 Copynumber: 2.9 Consensus size: 131
47288881 CTCTGGCTTC
* *
47288891 AATCTGCTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTACACTGTAACC
1 AATCCGCTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACC
47288956 TCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
66 TCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
47289021 T
131 T
* *
47289022 AACCCACTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACC
1 AATCCGCTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACC
47289087 TCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
66 TCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
47289152 T
131 T
* * * * * * * * *
47289153 AATCCGCTCCACTGTAACTTCAGGGAGATAGGAT-TACTA-TCTTTGATCTGCTCCGCTGTAATC
1 AATCCGCTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACC
* * * *
47289216 TCAGGGAGATAAGATCTGATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGAT
66 TCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGAT
47289272 TTGAAATCTT
Statistics
Matches: 231, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
129 71 0.31
130 3 0.01
131 157 0.68
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (131 bp):
AATCCGCTCCACTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTAACC
TCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
T
Found at i:47289271 original size:41 final size:42
Alignment explanation
Indices: 47288771--47289271 Score: 287
Period size: 44 Copynumber: 11.5 Consensus size: 42
47288761 ACCTACTCTG
* * * * *
47288771 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCA
1 CTGTAACTTCAGAGAGATAAGAT-C-TGATTTTGATCTACTCCA
* * * * * *
47288815 CTGTAACTTCAGGGAGATAGGATAGTG-TCTTCGATCTGCTCCG
1 CTGTAACTTCAGAGAGATAAGAT-CTGAT-TTTGATCTACTCCA
* * ** ** *
47288858 CTGTAA-TCTCGGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACT-TCAGAGAGATAAGA--TCTGATTTTGATCTACTCCA
* * * *
47288902 CTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTACA
1 CTGTAACTTCAGAGAGATAAGATCTG--ATT-TT-GATCTACTCCA
* * ** *
47288948 CTGTAACCTCAGAGAGATAAGACCTGA-TGCGATCTACTCTA
1 CTGTAACTTCAGAGAGATAAGATCTGATTTTGATCTACTCCA
* * * *
47288989 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCCACTCCA
1 CTGTAACTTCAGAGAGATAAGAT-C-TGATTTTGATCTACTCCA
* * *
47289033 CTGTAACTTCAGGGGGATAAGATCTGCAATTCTTCGGTCTACTCCA
1 CTGTAACTTCAGAGAGATAAGATCTG--ATT-TT-GATCTACTCCA
* * ** *
47289079 CTGTAACCTCAGAGAGATAAGACCTGA-TGCGATCTACTCTA
1 CTGTAACTTCAGAGAGATAAGATCTGATTTTGATCTACTCCA
* * **
47289120 CTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACTTCAGAGAGATAAGAT-C-TGATTTTGATCTACTCCA
* * * *
47289164 CTGTAACTTCAGGGAGATAGGATTACT-ATCTTTGATCTGCTCCG
1 CTGTAACTTCAGAGAGATAAGA-T-CTGAT-TTTGATCTACTCCA
* * * *
47289208 CTGTAA-TCTCAGGGAGATAAGATCTGA-TGTGATCTTCTCTA
1 CTGTAACT-TCAGAGAGATAAGATCTGATTTTGATCTACTCCA
47289249 CTGTAACTTCAGAGAGATAAGAT
1 CTGTAACTTCAGAGAGATAAGAT
47289272 TTGAAATCTT
Statistics
Matches: 351, Mismatches: 81, Indels: 53
0.72 0.17 0.11
Matches are distributed among these distances:
41 89 0.25
42 12 0.03
43 39 0.11
44 146 0.42
45 7 0.02
46 58 0.17
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (42 bp):
CTGTAACTTCAGAGAGATAAGATCTGATTTTGATCTACTCCA
Found at i:47289341 original size:129 final size:127
Alignment explanation
Indices: 47288939--47289341 Score: 409
Period size: 131 Copynumber: 3.1 Consensus size: 127
47288929 AATTCTTCGG
*
47288939 TCTACTACACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
1 TCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
* * * * * * *
47289004 GATAAGATCCTTTATTTTAACCCACTCCACTGTAACTTCAGGGGGATA-AGATCTGCAATTCTTC
66 GATAAGAT-CTTAATTTCAATCCACTCCACTGTAAC-TCAGGGAGATAGA-AT-TACTA-GCTTC
**
47289068 GG
126 AA
47289070 TCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
1 TCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
* * * * * **
47289135 GATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTACTATCTTTGA
66 GATAAGAT-CTTAATTTCAATCCACTCCACTGTAAC-TCAGGGAGATAGAATTACTAGCTTCAA
* * * * * * *
47289199 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGATGTGATCTTCTCTACTGTAACTTCAGAGA
1 TCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
* * * *
47289264 GATAAGAT-TTGAAATCTTCAATCTATTCCATTGTTAAC-CAGGGAGATAGAATTA-TCGGCTTC
66 GATAAGATCTT--AAT-TTCAATCCACTCCACTG-TAACTCAGGGAGATAGAATTACT-AGCTTC
47289326 AA
126 AA
*
47289328 TGTACTCCACTGTA
1 TCTACTCCACTGTA
47289342 GTCACAGTGA
Statistics
Matches: 236, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
127 2 0.01
128 1 0.00
129 103 0.44
130 15 0.06
131 115 0.49
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (127 bp):
TCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCTTAATTTCAATCCACTCCACTGTAACTCAGGGAGATAGAATTACTAGCTTCAA
Found at i:47289745 original size:44 final size:43
Alignment explanation
Indices: 47289610--47289937 Score: 190
Period size: 43 Copynumber: 7.5 Consensus size: 43
47289600 TAATGCAGGA
* * * *
47289610 AGGCAAGATCTGCT-TCTTTAACTAGCTCCATCACAACCGAAAG
1 AGGCAAGATTTG-TGTCTTCAACCAGCTCTATCACAACCGAAAG
* * * * **
47289653 AGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCA-ATGC-AGAA-
1 AGGCAAGATTTGTGTCTTCAACCAGC-T--CTATCACAACCGA-AAG
*
47289697 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
1 AGGCAAGAT-TTGTGTCTTCAACCAGCTCTATCACAACCGAAAG
* * * * **
47289741 AGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCA-ATGC-AGAA-
1 AGGCAAGATTTGTGTCTTCAACCAGC-T--CTATCACAACCGA-AAG
*
47289785 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAG
1 AGGCAAGAT-TTGTGTCTTCAACCAGCTCTATCACAACCGAAAG
* * * * * **
47289829 AGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA-ATGC-AGAA-
1 AGGCAAGATTTGTGTCTTCAACCAGC-T--CTATCACAACCGA-AAG
* *
47289873 AGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAAAG
1 AGGCAAGAT-TTGTGTCTTCAACCAGCTCTATCACAACCGAAAG
*
47289917 AGGCAAGGTTTGTGTCTTCAA
1 AGGCAAGATTTGTGTCTTCAA
47289938 TCTGCTTCGC
Statistics
Matches: 210, Mismatches: 50, Indels: 50
0.68 0.16 0.16
Matches are distributed among these distances:
42 15 0.07
43 68 0.32
44 60 0.29
45 53 0.25
46 14 0.07
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
AGGCAAGATTTGTGTCTTCAACCAGCTCTATCACAACCGAAAG
Found at i:47289753 original size:88 final size:88
Alignment explanation
Indices: 47289543--47289973 Score: 674
Period size: 88 Copynumber: 4.9 Consensus size: 88
47289533 TGTAACCTTT
* ** ** * *
47289543 AACCAGCTCCAAT-GCAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATG
1 AACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCAATCTGCTTCGCTGTCAATG
* ** *
47289605 CAGGAAGGCAAGATCTGCT-TCTTT
64 CAGAAAGGCAAGATCTTTTGTCTTC
*
47289629 AACTAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGCA
47289694 GAAAGGCAAGATCTTTTGTCTTC
66 GAAAGGCAAGATCTTTTGTCTTC
*
47289717 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGCA
47289782 GAAAGGCAAGATCTTTTGTCTTC
66 GAAAGGCAAGATCTTTTGTCTTC
* *
47289805 AACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGCA
47289870 GAAAGGCAAGATCTTTTGTCTTC
66 GAAAGGCAAGATCTTTTGTCTTC
47289893 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGCA
1 AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGCA
47289958 GAAAGGCAAGAT-TTTT
66 GAAAGGCAAGATCTTTT
47289974 AACTTCATTG
Statistics
Matches: 324, Mismatches: 17, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
85 7 0.02
86 26 0.08
87 39 0.12
88 252 0.78
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (88 bp):
AACCAGCTCCATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGCA
GAAAGGCAAGATCTTTTGTCTTC
Found at i:47289980 original size:44 final size:44
Alignment explanation
Indices: 47289653--47289973 Score: 234
Period size: 44 Copynumber: 7.3 Consensus size: 44
47289643 CAACCGAAAG
* *
47289653 AGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGCAGAA
1 AGGCAAGATTTTTGTCTTCAATCTGCTTCGCTGTCAATGCAGAA
* * * * *
47289697 AGGCAAGATCTTTTGTCTTCAACCAGC-T--CTATCACA-ACCGAAA
1 AGGCAAGAT-TTTTGTCTTCAATCTGCTTCGCTGTCA-ATGCAG-AA
* *
47289740 GAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGCAGAA
1 -AGGCAAGATTTTTGTCTTCAATCTGCTTCGCTGTCAATGCAGAA
* * * * *
47289785 AGGCAAGATCTTTTGTCTTCAACCAGC-T--CTATCACA-ACCGAAA
1 AGGCAAGAT-TTTTGTCTTCAATCTGCTTCGCTGTCA-ATGCAG-AA
* * *
47289828 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAA
1 -AGGCAAGATTTTTGTCTTCAATCTGCTTCGCTGTCAATGCAGAA
* * * * *
47289873 AGGCAAGATCTTTTGTCTTCAACCAGC-TC-C-ATCACA-ACCGAAA
1 AGGCAAGAT-TTTTGTCTTCAATCTGCTTCGCTGTCA-ATGCAG-AA
* *
47289916 GAGGCAAGGTTTGTGTCTTCAATCTGCTTCGCTGTCAATGCAGAA
1 -AGGCAAGATTTTTGTCTTCAATCTGCTTCGCTGTCAATGCAGAA
47289961 AGGCAAGATTTTT
1 AGGCAAGATTTTT
47289974 AACTTCATTG
Statistics
Matches: 207, Mismatches: 46, Indels: 48
0.69 0.15 0.16
Matches are distributed among these distances:
42 19 0.09
43 51 0.25
44 67 0.32
45 51 0.25
46 19 0.09
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (44 bp):
AGGCAAGATTTTTGTCTTCAATCTGCTTCGCTGTCAATGCAGAA
Found at i:47292127 original size:7 final size:8
Alignment explanation
Indices: 47292103--47292131 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
47292093 CTATTTTGAC
47292103 TTTGATTT
1 TTTGATTT
47292111 TTTGATTT
1 TTTGATTT
47292119 TTTGATTT
1 TTTGATTT
47292127 TTTGA
1 TTTGA
47292132 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.72
Consensus pattern (8 bp):
TTTGATTT
Found at i:47298023 original size:16 final size:16
Alignment explanation
Indices: 47298002--47298035 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
47297992 ATTCGAAAGG
47298002 AAAAAAA-TAAAGAGAA
1 AAAAAAACTAAA-AGAA
47298018 AAAAAAACTAAAAGAA
1 AAAAAAACTAAAAGAA
47298034 AA
1 AA
47298036 TAAATATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.82, C:0.03, G:0.09, T:0.06
Consensus pattern (16 bp):
AAAAAAACTAAAAGAA
Found at i:47298024 original size:17 final size:16
Alignment explanation
Indices: 47298002--47298035 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
47297992 ATTCGAAAGG
47298002 AAAAAAATAAAGAGAAA
1 AAAAAAATAAA-AGAAA
*
47298019 AAAAAACTAAAAGAAA
1 AAAAAAATAAAAGAAA
47298035 A
1 A
47298036 TAAATATACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.82, C:0.03, G:0.09, T:0.06
Consensus pattern (16 bp):
AAAAAAATAAAAGAAA
Found at i:47298276 original size:8 final size:8
Alignment explanation
Indices: 47298256--47298286 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
47298246 GCGAGCGGCA
47298256 GAGCAGGT
1 GAGCAGGT
47298264 GGAGCAGGT
1 -GAGCAGGT
47298273 GAGCAGGT
1 GAGCAGGT
47298281 GAGCAG
1 GAGCAG
47298287 CGATGGGACG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.26, C:0.13, G:0.52, T:0.10
Consensus pattern (8 bp):
GAGCAGGT
Found at i:47305156 original size:38 final size:36
Alignment explanation
Indices: 47305080--47305161 Score: 85
Period size: 40 Copynumber: 2.2 Consensus size: 36
47305070 CGGGTTTAAA
* *
47305080 ATTTTTAAAAATATATATTTATATTATTTTTTAATTT
1 ATTTTTAAAAATATATATTTATATTAATATTT-ATTT
*
47305117 ATTTGTTAAAAATTTATATATTTATCTTAATATTT-TTT
1 ATTT-TTAAAAA--TATATATTTATATTAATATTTATTT
*
47305155 ATGTTTA
1 ATTTTTA
47305162 GATTATAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
37 7 0.18
38 13 0.34
40 18 0.47
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (36 bp):
ATTTTTAAAAATATATATTTATATTAATATTTATTT
Found at i:47306614 original size:3 final size:3
Alignment explanation
Indices: 47306599--47306647 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
47306589 TTTAGGGTTA
* * *
47306599 AAG AAG AAT AAG AAG AAG AAA AAG AAG AAG AAG AAG AAG AAG GAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
47306647 A
1 A
47306648 GGAAAAATAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:47306987 original size:36 final size:35
Alignment explanation
Indices: 47306947--47307049 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 35
47306937 TTGAAAACCG
*
47306947 GCTTATGTTTTGTAATATTGTTGCTGGTATATTGTT
1 GCTTATGTTTTGTAA-ATGGTTGCTGGTATATTGTT
* *
47306983 GCTTATG-TTGGTATACATGGTTGTTGGTATATTGTT
1 GCTTATGTTTTGTA-A-ATGGTTGCTGGTATATTGTT
*
47307019 GCTTATGTTGTTATAAATGGTTGCTGGTATA
1 GCTTATGTT-TTGTAAATGGTTGCTGGTATA
47307050 CATGGCTAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
35 5 0.09
36 47 0.82
37 2 0.04
38 3 0.05
ACGTcount: A:0.18, C:0.06, G:0.25, T:0.50
Consensus pattern (35 bp):
GCTTATGTTTTGTAAATGGTTGCTGGTATATTGTT
Found at i:47306996 original size:20 final size:20
Alignment explanation
Indices: 47306971--47307033 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
47306961 ATATTGTTGC
47306971 TGGTATATTGTTGCTTATGT
1 TGGTATATTGTTGCTTATGT
*
47306991 TGGTATACATG--G--T-TGT
1 TGGTATA-TTGTTGCTTATGT
47307007 TGGTATATTGTTGCTTATGT
1 TGGTATATTGTTGCTTATGT
*
47307027 TGTTATA
1 TGGTATA
47307034 AATGGTTGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
15 2 0.06
16 10 0.29
17 2 0.06
19 2 0.06
20 16 0.47
21 2 0.06
ACGTcount: A:0.17, C:0.05, G:0.25, T:0.52
Consensus pattern (20 bp):
TGGTATATTGTTGCTTATGT
Found at i:47308477 original size:28 final size:28
Alignment explanation
Indices: 47308431--47308484 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
47308421 CACACCCCTA
* * *
47308431 AAAAAATAGTCACTACATGTATATTATT
1 AAAAAATACTCAATACATGCATATTATT
*
47308459 AAAAAATACTCAATGCATGCATATTA
1 AAAAAATACTCAATACATGCATATTA
47308485 AAAAATAGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (28 bp):
AAAAAATACTCAATACATGCATATTATT
Found at i:47311652 original size:65 final size:65
Alignment explanation
Indices: 47311548--47311687 Score: 226
Period size: 65 Copynumber: 2.2 Consensus size: 65
47311538 ATATCAAGAT
* ** *
47311548 GCTCACAAAGAGCTGTGTTTGTGTCTGCAACATATGTAGGATTACAACCGATCATAAAACAGGAC
1 GCTCACAAAGAGCTGCGTTTGTGTCCACAACATATGTAGGATCACAACCGATCATAAAACAGGAC
* *
47311613 GCTCACAAAGAGCTGCGTTTGTGTCCACAATATATGTAGGATCACAACCGATCATATAACAGGAC
1 GCTCACAAAGAGCTGCGTTTGTGTCCACAACATATGTAGGATCACAACCGATCATAAAACAGGAC
47311678 GCTCACAAAG
1 GCTCACAAAG
47311688 TGTTGCGGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (65 bp):
GCTCACAAAGAGCTGCGTTTGTGTCCACAACATATGTAGGATCACAACCGATCATAAAACAGGAC
Found at i:47314153 original size:12 final size:12
Alignment explanation
Indices: 47314136--47314208 Score: 67
Period size: 12 Copynumber: 6.1 Consensus size: 12
47314126 AGTGAGTGTT
47314136 TCAAAATTGAAA
1 TCAAAATTGAAA
*
47314148 TCAAAATCGAAA
1 TCAAAATTGAAA
**
47314160 TCAAAATCAAAA
1 TCAAAATTGAAA
47314172 TCAAAATT-AGAA
1 TCAAAATTGA-AA
* *
47314184 TCGAAATTAAAA
1 TCAAAATTGAAA
**
47314196 TTGAAATTGAAA
1 TCAAAATTGAAA
47314208 T
1 T
47314209 AACCCTAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
11 1 0.02
12 51 0.96
13 1 0.02
ACGTcount: A:0.58, C:0.10, G:0.08, T:0.25
Consensus pattern (12 bp):
TCAAAATTGAAA
Found at i:47314185 original size:18 final size:18
Alignment explanation
Indices: 47314136--47314197 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
47314126 AGTGAGTGTT
47314136 TCAAAATT-GAAATCAAAA
1 TCAAAATTAG-AATCAAAA
* * *
47314154 TCGAAATCAAAATCAAAA
1 TCAAAATTAGAATCAAAA
*
47314172 TCAAAATTAGAATCGAAA
1 TCAAAATTAGAATCAAAA
*
47314190 TTAAAATT
1 TCAAAATT
47314198 GAAATTGAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.24
Consensus pattern (18 bp):
TCAAAATTAGAATCAAAA
Found at i:47314197 original size:6 final size:6
Alignment explanation
Indices: 47314145--47314178 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
47314135 TTCAAAATTG
*
47314145 AAATCA AAATCG AAATCA AAATCA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
47314179 TAGAATCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.65, C:0.15, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATCA
Found at i:47314676 original size:21 final size:21
Alignment explanation
Indices: 47314652--47314691 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
47314642 AACGTGGCAA
47314652 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAGCTG
*
47314673 GTTAACTTGCCACGTCAGC
1 GTTAACTTGCCACATCAGC
47314692 GATCCCGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCTG
Found at i:47315025 original size:26 final size:28
Alignment explanation
Indices: 47314966--47315027 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 28
47314956 TATTCAAAAG
*
47314966 TTTTCATTTAAGTCACTAAACTATTTGCAAA
1 TTTTCATTTAAGTCACTAAACTAGTT---AA
*
47314997 TTTTCATTTAAGTCACTAAACT-GTTAT
1 TTTTCATTTAAGTCACTAAACTAGTTAA
47315024 TTTT
1 TTTT
47315028 TTTAAAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 5 0.17
30 2 0.07
31 22 0.76
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (28 bp):
TTTTCATTTAAGTCACTAAACTAGTTAA
Found at i:47316686 original size:6 final size:7
Alignment explanation
Indices: 47316670--47316701 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
47316660 AACTTTTAAG
*
47316670 TTTTGAT
1 TTTTTAT
47316677 TTTTTAT
1 TTTTTAT
47316684 TTTTTAT
1 TTTTTAT
47316691 TTTTTAT
1 TTTTTAT
47316698 TTTT
1 TTTT
47316702 GAATTTTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.84
Consensus pattern (7 bp):
TTTTTAT
Found at i:47316687 original size:14 final size:14
Alignment explanation
Indices: 47316670--47316708 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
47316660 AACTTTTAAG
47316670 TTTTGATTTTTTAT
1 TTTTGATTTTTTAT
*
47316684 TTTTTATTTTTTAT
1 TTTTGATTTTTTAT
47316698 TTTTGAATTTT
1 TTTTG-ATTTT
47316709 GACTTTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (14 bp):
TTTTGATTTTTTAT
Found at i:47316695 original size:22 final size:23
Alignment explanation
Indices: 47316670--47316724 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
47316660 AACTTTTAAG
* * *
47316670 TTTTGATTTTTTATTTTTTA-TT
1 TTTTGATTTTTGAATTTTGACTT
47316692 TTTT-ATTTTTGAATTTTGACTT
1 TTTTGATTTTTGAATTTTGACTT
47316714 TTTTG-TTTTTG
1 TTTTGATTTTTG
47316725 GATTCGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.13, C:0.02, G:0.09, T:0.76
Consensus pattern (23 bp):
TTTTGATTTTTGAATTTTGACTT
Found at i:47326384 original size:23 final size:24
Alignment explanation
Indices: 47326348--47326393 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
47326338 ACCAATTCGG
*
47326348 TTAATTTTGGTTAATTCGGTTAAT
1 TTAATTTTGATTAATTCGGTTAAT
*
47326372 TTAA-TTTGATTAATTCTGTTAA
1 TTAATTTTGATTAATTCGGTTAA
47326394 ATGAACATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.54
Consensus pattern (24 bp):
TTAATTTTGATTAATTCGGTTAAT
Found at i:47335021 original size:23 final size:24
Alignment explanation
Indices: 47334966--47335022 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
47334956 TTTTACGCTG
*
47334966 ATATA-TTACATATAAAAATAATT
1 ATATATTTACATATAAAAATAAAT
*
47334989 ATATTAATTTA-ATATGAAAATAAAT
1 ATA-T-ATTTACATATAAAAATAAAT
47335014 ATATATTTA
1 ATATATTTA
47335023 TTTTTTAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 8 0.28
24 2 0.07
25 16 0.55
26 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
ATATATTTACATATAAAAATAAAT
Found at i:47343982 original size:14 final size:14
Alignment explanation
Indices: 47343960--47343998 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
47343950 TTAACACTGC
47343960 ATATATATATATGT
1 ATATATATATATGT
*
47343974 ATATTTATATATGT
1 ATATATATATATGT
*
47343988 ACATATATATA
1 ATATATATATA
47343999 GTTATGGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (14 bp):
ATATATATATATGT
Found at i:47354952 original size:24 final size:24
Alignment explanation
Indices: 47354907--47354952 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
47354897 AAATACTAGT
*
47354907 ATAATAAAAATAAATTCTAAATAA
1 ATAATAAAAATAAAATCTAAATAA
*
47354931 ATAATATAAATTAAAATC-AAAT
1 ATAATA-AAAATAAAATCTAAAT
47354953 CATCATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (24 bp):
ATAATAAAAATAAAATCTAAATAA
Found at i:47358830 original size:28 final size:28
Alignment explanation
Indices: 47358783--47358837 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
47358773 CCTCAAAATG
47358783 TTGTGTTGAAAAATTAAAAAAATTAAGTA
1 TTGTGTTGAAAAATT-AAAAAATTAAGTA
* *
47358812 TTGT-TTGATAAATTGAAAAATTAAGT
1 TTGTGTTGAAAAATTAAAAAATTAAGT
47358838 GTTAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.46
28 9 0.38
29 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (28 bp):
TTGTGTTGAAAAATTAAAAAATTAAGTA
Found at i:47358848 original size:24 final size:24
Alignment explanation
Indices: 47358785--47358849 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 24
47358775 TCAAAATGTT
47358785 GTGTTGAAAAATTAAAAAAATTAA
1 GTGTTGAAAAATTAAAAAAATTAA
* *
47358809 GTATTGTTTGATAAATT-GAAAAATTAA
1 G---TG-TTGAAAAATTAAAAAAATTAA
47358836 GTGTTAGAAAAATT
1 GTGTT-GAAAAATT
47358850 TTATATAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
23 2 0.06
24 10 0.30
27 12 0.36
28 9 0.27
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.35
Consensus pattern (24 bp):
GTGTTGAAAAATTAAAAAAATTAA
Found at i:47366800 original size:26 final size:26
Alignment explanation
Indices: 47366771--47366820 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
47366761 AAACCGATTA
47366771 AGATTAATTACAATAAATTAAATCCT
1 AGATTAATTACAATAAATTAAATCCT
* * *
47366797 AGATTGATTATAGTAAATTAAATC
1 AGATTAATTACAATAAATTAAATC
47366821 GATTGATTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (26 bp):
AGATTAATTACAATAAATTAAATCCT
Found at i:47367833 original size:27 final size:28
Alignment explanation
Indices: 47367781--47367833 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
47367771 TTAATAAGTG
*
47367781 AAAGAAAATACATGCACTATGATGGTGA
1 AAAGAAAATACATGCACAATGATGGTGA
47367809 AAAGAAAATACATGCACAATG-TGGT
1 AAAGAAAATACATGCACAATGATGGT
47367834 CAATGACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (28 bp):
AAAGAAAATACATGCACAATGATGGTGA
Found at i:47371430 original size:3 final size:3
Alignment explanation
Indices: 47371422--47371463 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
47371412 GCTTCACTTT
47371422 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
47371464 CTGACCCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:47371723 original size:52 final size:52
Alignment explanation
Indices: 47371664--47371765 Score: 152
Period size: 52 Copynumber: 2.0 Consensus size: 52
47371654 GATATCTAAA
* * *
47371664 TTATTAATTTAATTTAA-ATTGATCCAAAGAATACGATAATTAGGAAAAAAAC
1 TTATTAATTTAATTTAATA-TAACCCAAAGAATACAATAATTAGGAAAAAAAC
*
47371716 TTATTAATTTAATTTAATATAACCCAAAGAATATAATAATTAGGAAAAAA
1 TTATTAATTTAATTTAATATAACCCAAAGAATACAATAATTAGGAAAAAA
47371766 TTATACACAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 44 0.98
53 1 0.02
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (52 bp):
TTATTAATTTAATTTAATATAACCCAAAGAATACAATAATTAGGAAAAAAAC
Found at i:47375554 original size:31 final size:31
Alignment explanation
Indices: 47375519--47375583 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
47375509 TGAGTACTTC
47375519 TCTACAAGTTGAAATGGATGGTCCTATATTG
1 TCTACAAGTTGAAATGGATGGTCCTATATTG
*
47375550 TCTACAAGTTGAAATGGATGTTCCTATATTG
1 TCTACAAGTTGAAATGGATGGTCCTATATTG
47375581 TCT
1 TCT
47375584 TGAACTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (31 bp):
TCTACAAGTTGAAATGGATGGTCCTATATTG
Found at i:47387799 original size:3 final size:3
Alignment explanation
Indices: 47387791--47387820 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
47387781 GGAAGTTAAA
47387791 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47387821 GGTTATAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:47392818 original size:4 final size:4
Alignment explanation
Indices: 47392809--47392837 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
47392799 GCAAAGTAGG
47392809 TGCA TGCA TGCA TGCA TGCA TGCA TGCA T
1 TGCA TGCA TGCA TGCA TGCA TGCA TGCA T
47392838 TATTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (4 bp):
TGCA
Found at i:47392844 original size:3 final size:3
Alignment explanation
Indices: 47392836--47392879 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
47392826 GCATGCATGC
47392836 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
47392880 TTACATTCTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:47393883 original size:102 final size:101
Alignment explanation
Indices: 47393744--47393940 Score: 288
Period size: 102 Copynumber: 1.9 Consensus size: 101
47393734 AAAATTAATG
* *
47393744 AAAAATATTATTGAATAATAGAATCTTATTTATATTTTATATTCAAGTTTTAATAATATGGATAA
1 AAAAATATTATTGAATAATAGAATCTTATTTATATTTTATATTCAAATTGTAATAATATGGATAA
* *
47393809 TTTATATTTCATTAGTTATTAAAATTAAATTTTTAA
66 TTGATATTTCATTAATTATTAAAATTAAATTTTTAA
* * * *
47393845 AAAATATATTATTGAATAATAGAGTTTTATTTGA-ATTTTGTATTCAAATTGTAATAATATTGAT
1 AAAA-ATATTATTGAATAATAGAATCTTATTT-ATATTTTATATTCAAATTGTAATAATATGGAT
*
47393909 AATTGATATTTCGTTAATTATTAAAATTAAAT
64 AATTGATATTTCATTAATTATTAAAATTAAAT
47393941 CCATATTAAT
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 4 0.05
102 80 0.94
103 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.48
Consensus pattern (101 bp):
AAAAATATTATTGAATAATAGAATCTTATTTATATTTTATATTCAAATTGTAATAATATGGATAA
TTGATATTTCATTAATTATTAAAATTAAATTTTTAA
Found at i:47406165 original size:5 final size:5
Alignment explanation
Indices: 47406155--47406181 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
47406145 TCTAGAACAA
47406155 ATGTC ATGTC ATGTC ATGTC ATGTC AT
1 ATGTC ATGTC ATGTC ATGTC ATGTC AT
47406182 CAACTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATGTC
Found at i:47408137 original size:31 final size:30
Alignment explanation
Indices: 47408093--47408150 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
47408083 TTAATTTTTT
47408093 AAGTATAATGATTAA-ATCTCAAATTTTGTCA
1 AAGTATAATGATTAACA--TCAAATTTTGTCA
47408124 AAGTATAGA-GATTAACATCAAATTTTG
1 AAGTATA-ATGATTAACATCAAATTTTG
47408151 ACCATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
30 10 0.40
31 13 0.52
32 2 0.08
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (30 bp):
AAGTATAATGATTAACATCAAATTTTGTCA
Found at i:47408715 original size:28 final size:27
Alignment explanation
Indices: 47408665--47408737 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
47408655 CAATATTTAG
* *
47408665 TTTGATACTTGAGCTTTTTTTTTTCAAA
1 TTTGATATTTGAG-TTTTCTTTTTCAAA
**
47408693 TTTGATATTTGAGTTCTTCTTTTTCCCA
1 TTTGATATTTGAGTT-TTCTTTTTCAAA
*
47408721 TTTAAGTATTTGAGTTT
1 TTTGA-TATTTGAGTTT
47408738 GGCTTCAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
27 2 0.05
28 26 0.68
29 10 0.26
ACGTcount: A:0.19, C:0.11, G:0.12, T:0.58
Consensus pattern (27 bp):
TTTGATATTTGAGTTTTCTTTTTCAAA
Found at i:47411219 original size:2 final size:2
Alignment explanation
Indices: 47411212--47411251 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
47411202 GGTGGGCTGC
*
47411212 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47411252 ACTAGTTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47418591 original size:20 final size:20
Alignment explanation
Indices: 47418566--47418604 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47418556 TAGTACAAAA
47418566 TTTTAATATTTTAAATTAAT
1 TTTTAATATTTTAAATTAAT
* *
47418586 TTTTAATTTTTTATATTAA
1 TTTTAATATTTTAAATTAA
47418605 AAACTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTAATATTTTAAATTAAT
Found at i:47419500 original size:21 final size:20
Alignment explanation
Indices: 47419471--47419514 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
47419461 TGTCCCTGCG
*
47419471 TTTTTTTTACTCTTTTGCTC
1 TTTTTTTTACTCTTTTGCCC
47419491 TTTTTATTTACTCTTTTGCCC
1 TTTTT-TTTACTCTTTTGCCC
47419512 TTT
1 TTT
47419515 CATTCTCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTTTTTACTCTTTTGCCC
Found at i:47427806 original size:162 final size:160
Alignment explanation
Indices: 47427507--47427828 Score: 421
Period size: 162 Copynumber: 2.0 Consensus size: 160
47427497 CAACCGCGGC
* * *
47427507 ACTCTAGCAGAACTAGAAAAACGAGCCCGTACTCCTCTCCTATTTGAAGAATTCTGAGAAGTCCG
1 ACTCCAGCAGAACTAGAAAAACAAGCCCATACTCCTCTCCTATTTGAAGAATTCTGAGAAGTCCG
* *
47427572 CAAAGGAGACCGAGTACGAGACTGCCTTGTTGACCCTCTCTGCATAAGCAAAGAATAATGTTACA
66 CAAAGAAGACCGAGTACGAGACTGCCGTGTTGACCCTCTCTGCATAAGCAAAGAATAA--TTACA
* *
47427637 GGAGGAACTTACACAAATTCTAAAGGAAAGGG
129 GGAGGAACTTACACAAATTCAAAAGAAAAGGG
* * *
47427669 ACTCCAGCAGAAGTAGGAGAACAAGCCCATACTCCTCTCCTATTTGAAGAATTCTGAGAAGTCCG
1 ACTCCAGCAGAACTAGAAAAACAAGCCCATACTCCTCTCCTATTTGAAGAATTCTGAGAAGTCCG
** * * * **
47427734 CACTGAAGACTGAGTACGGGATTGCCGTGTTGGGCCTCTCTGCATTAGAAGCAAAGAATAA-TAC
66 CAAAGAAGACCGAGTACGAGACTGCCGTGTTGACCCTCTCTGCA-T--AAGCAAAGAATAATTAC
* *
47427798 ATGAGGAACTTATACAAATTCAAAAGAAAAG
128 AGGAGGAACTTACACAAATTCAAAAGAAAAG
47427829 CATCAAATTC
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
162 124 0.90
163 1 0.01
165 13 0.09
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (160 bp):
ACTCCAGCAGAACTAGAAAAACAAGCCCATACTCCTCTCCTATTTGAAGAATTCTGAGAAGTCCG
CAAAGAAGACCGAGTACGAGACTGCCGTGTTGACCCTCTCTGCATAAGCAAAGAATAATTACAGG
AGGAACTTACACAAATTCAAAAGAAAAGGG
Found at i:47432439 original size:13 final size:13
Alignment explanation
Indices: 47432421--47432446 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47432411 TCACCCATGT
47432421 GACGTTTATTATA
1 GACGTTTATTATA
47432434 GACGTTTATTATA
1 GACGTTTATTATA
47432447 AACTGAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GACGTTTATTATA
Found at i:47445858 original size:37 final size:36
Alignment explanation
Indices: 47445816--47445925 Score: 109
Period size: 37 Copynumber: 3.1 Consensus size: 36
47445806 ACACAAATTA
* *
47445816 ATAGCTCTCTAAGTATTGAGCATACACCTTCTCAAGT
1 ATAGCT-TCTAAATATTGAGCTTACACCTTCTCAAGT
* *
47445853 GTAG---CTAAATATTGAGCTTACACCTTCTTAAGT
1 ATAGCTTCTAAATATTGAGCTTACACCTTCTCAAGT
* * * *
47445886 ATAACTTTCTAAATTTTGAGTTTACACATTCTCAAGT
1 ATAGC-TTCTAAATATTGAGCTTACACCTTCTCAAGT
47445923 ATA
1 ATA
47445926 AAAATTTAGG
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
33 28 0.47
37 31 0.53
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (36 bp):
ATAGCTTCTAAATATTGAGCTTACACCTTCTCAAGT
Found at i:47458034 original size:24 final size:21
Alignment explanation
Indices: 47457990--47458048 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 21
47457980 ATTTAAAATA
47457990 TTAAAAATATATATTGTTAATAATT
1 TTAAAAATA-AT-TTGTTAAT--TT
*
47458015 TTAAAAATAATTTTTATAATTT
1 TTAAAAATAATTTGT-TAATTT
47458037 TTAAAAA-AATTT
1 TTAAAAATAATTT
47458049 AAGTTTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.16
22 9 0.28
23 3 0.09
24 6 0.19
25 9 0.28
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTAAAAATAATTTGTTAATTT
Found at i:47460361 original size:15 final size:17
Alignment explanation
Indices: 47460331--47460370 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
47460321 AATTATCATG
47460331 TTTATTTTTTAAAATA-
1 TTTATTTTTTAAAATAT
*
47460347 TTTATTTTTT-TAATAT
1 TTTATTTTTTAAAATAT
47460363 TTTATTTT
1 TTTATTTT
47460371 ACCCGTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATTTTTTAAAATAT
Found at i:47461022 original size:138 final size:139
Alignment explanation
Indices: 47460767--47461022 Score: 295
Period size: 138 Copynumber: 1.8 Consensus size: 139
47460757 ATTAAATATT
*
47460767 AATAGTGACTATTACAAATAAATATTAATAACTTTTAGGGTTTAAAATCTTAAGTTTAAAGATTT
1 AATAGTGACTATTACAAATAAACATTAATAACTTTTAGGGTTTAAAATCTTAAGTTTAAAGATTT
* ** * * * *
47460832 AGGGTCTAAAGTTTCGGATTTTGATTTCAAAGTTTTAGCATTTACCTGTAATATATTTAATTTTT
66 AGGGTCTAAAGTTTAGGATTTAAACTTCAAAGTTTTAGCAGTGACCTATAATATATTTAATTTTT
47460897 TAAAACATA
131 TAAAACATA
* * * * * *
47460906 AATAGTGACTATTATAAATAAACGTTAATAAC-TTTCGGTTTTAATATCTTAAGGTTTAAGGATT
1 AATAGTGACTATTACAAATAAACATTAATAACTTTTAGGGTTTAAAATCTTAA-GTTTAAAGATT
* * **
47460970 T-GGGTCT-AAGATTTAGGGTTTAAAGCTT-AGAGTTTTAGCAGTGATTTATAATA
65 TAGGGTCTAAAG-TTTAGGATTTAAA-CTTCAAAGTTTTAGCAGTGACCTATAATA
47461023 GTCACTATTA
Statistics
Matches: 96, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
137 3 0.03
138 51 0.53
139 42 0.44
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.41
Consensus pattern (139 bp):
AATAGTGACTATTACAAATAAACATTAATAACTTTTAGGGTTTAAAATCTTAAGTTTAAAGATTT
AGGGTCTAAAGTTTAGGATTTAAACTTCAAAGTTTTAGCAGTGACCTATAATATATTTAATTTTT
TAAAACATA
Found at i:47461430 original size:31 final size:31
Alignment explanation
Indices: 47461392--47461450 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
47461382 TTATTTTTAA
* *
47461392 TTAAATTTAATTATTGATTTTTAAAAAAAAG
1 TTAAATTTAATCATTAATTTTTAAAAAAAAG
*
47461423 TTAAATTTAATCATTAATTTTTTAAAAA
1 TTAAATTTAATCATTAATTTTTAAAAAA
47461451 GGTTGAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (31 bp):
TTAAATTTAATCATTAATTTTTAAAAAAAAG
Found at i:47462032 original size:73 final size:74
Alignment explanation
Indices: 47461946--47462092 Score: 224
Period size: 74 Copynumber: 2.0 Consensus size: 74
47461936 ATCCGTCTTC
* *
47461946 CATAGTGCTAATGCTTCCCTAGAATAATGTTCT-ACCACCCAAATAAAGGTCTATCACAGCTCCC
1 CATAGTGCTAATGCTTCCCTAGAATAATGTTCTAACCACCCAAATAAAAGCCTATCACAGCTCCC
*
47462010 TTGAAGGTT
66 TGGAAGGTT
** * *
47462019 CATAGTGCTAATGCTTCTTTAGAATAATGTTCTAATCACCCAAATAAAAGCCTATCACAGTTCCC
1 CATAGTGCTAATGCTTCCCTAGAATAATGTTCTAACCACCCAAATAAAAGCCTATCACAGCTCCC
47462084 TGGAAGGTT
66 TGGAAGGTT
47462093 TGGATTCAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
73 31 0.47
74 35 0.53
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (74 bp):
CATAGTGCTAATGCTTCCCTAGAATAATGTTCTAACCACCCAAATAAAAGCCTATCACAGCTCCC
TGGAAGGTT
Found at i:47466459 original size:25 final size:25
Alignment explanation
Indices: 47466410--47466459 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
47466400 TTGGCTATAT
* *
47466410 TGTCCAATTTGGTACTTGAATTTTG
1 TGTCCAATTTGGTACCTGAAGTTTG
47466435 TGTCTCAATTTGGTACCTG-AGTTTG
1 TGTC-CAATTTGGTACCTGAAGTTTG
47466460 GATTCATTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.18, C:0.14, G:0.22, T:0.46
Consensus pattern (25 bp):
TGTCCAATTTGGTACCTGAAGTTTG
Found at i:47475198 original size:58 final size:58
Alignment explanation
Indices: 47475104--47475268 Score: 289
Period size: 58 Copynumber: 2.9 Consensus size: 58
47475094 ACTTCTGATC
47475104 AGTGACAAGTGATAAGTGGTAGCTTTAGCT-GCACTTATCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTAG-ACTTATCTGATCAGTGACAAGTGACA
*
47475162 AGTGATAAGTGATAAGTGGTAGCTTTAGCTAGACTTATCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTAGACTTATCTGATCAGTGACAAGTGACA
*
47475220 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGAC
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTAGACTTATCTGATCAGTGAC
47475269 GAGATAAATG
Statistics
Matches: 103, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
57 25 0.24
58 77 0.75
59 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (58 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTAGACTTATCTGATCAGTGACAAGTGACA
Found at i:47475218 original size:7 final size:7
Alignment explanation
Indices: 47475206--47475237 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
47475196 TTATCTGATC
47475206 AGTGACA
1 AGTGACA
47475213 AGTGACA
1 AGTGACA
47475220 AGTGACA
1 AGTGACA
*
47475227 AGTGATA
1 AGTGACA
47475234 AGTG
1 AGTG
47475238 GTAGCTTAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (7 bp):
AGTGACA
Found at i:47477536 original size:30 final size:31
Alignment explanation
Indices: 47477465--47477541 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 31
47477455 GGAAAGATTG
* *
47477465 AAGCTAATAATATATTTTATTAATGCAGATT
1 AAGCTAATAATATATTTTATTAATACAAATT
* *
47477496 AAGACT-ATAATATATTTTA-TAGTATAAATT
1 AAG-CTAATAATATATTTTATTAATACAAATT
47477526 AAGCTAATAATATATT
1 AAGCTAATAATATATT
47477542 GTTTCAACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 2 0.05
30 20 0.50
31 16 0.40
32 2 0.05
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (31 bp):
AAGCTAATAATATATTTTATTAATACAAATT
Found at i:47477820 original size:17 final size:17
Alignment explanation
Indices: 47477797--47477835 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
47477787 ATTTATTTGA
47477797 AATTTTATTTATT-TGTT
1 AATTTTA-TTATTATGTT
*
47477814 CATTTTATTATTATGTT
1 AATTTTATTATTATGTT
47477831 AATTT
1 AATTT
47477836 GACTAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (17 bp):
AATTTTATTATTATGTT
Found at i:47487077 original size:19 final size:20
Alignment explanation
Indices: 47487074--47487116 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
47487064 TTTAAAATAC
47487074 TTTTAAAATAC-TTTTTTAA
1 TTTTAAAATACTTTTTTTAA
47487093 TTTTAAAATACTTTTTTTAA
1 TTTTAAAATACTTTTTTTAA
47487113 TTTT
1 TTTT
47487117 TGTTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTAAAATACTTTTTTTAA
Found at i:47487089 original size:30 final size:28
Alignment explanation
Indices: 47487033--47487107 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 28
47487023 TTTAAAATAC
*
47487033 TTTTAAAATACTTTTTTTAAATTTTTTTAA
1 TTTTAAAATAC--TTTTAAAATTTTTTTAA
47487063 TTTTAAAATACTTTTAAAATACTTTTTTAA
1 TTTTAAAATACTTTTAAAAT--TTTTTTAA
47487093 TTTTAAAATACTTTT
1 TTTTAAAATACTTTT
47487108 TTTAATTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 8 0.19
30 34 0.81
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTTAAAATACTTTTAAAATTTTTTTAA
Found at i:47487108 original size:12 final size:11
Alignment explanation
Indices: 47487022--47487088 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
47487012 TATTTTTAAA
47487022 TTTTAAAATAC
1 TTTTAAAATAC
47487033 TTTTAAAATAC
1 TTTTAAAATAC
*
47487044 TTTTTTTAAAT--
1 --TTTTAAAATAC
* *
47487055 TTTT---TTAA
1 TTTTAAAATAC
47487063 TTTTAAAATAC
1 TTTTAAAATAC
47487074 TTTTAAAATAC
1 TTTTAAAATAC
47487085 TTTT
1 TTTT
47487089 TTAATTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
6 1 0.02
8 4 0.09
9 4 0.09
11 28 0.62
13 8 0.18
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:47490913 original size:21 final size:21
Alignment explanation
Indices: 47490887--47490927 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47490877 TGGCAAGATT
47490887 GCTGATGTGGCAAGTTAACTA
1 GCTGATGTGGCAAGTTAACTA
* *
47490908 GCTGATGTTGCCAGTTAACT
1 GCTGATGTGGCAAGTTAACT
47490928 TGCCACATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACTA
Found at i:47491890 original size:49 final size:49
Alignment explanation
Indices: 47491837--47491930 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
47491827 CCTAATTGAT
*
47491837 ATTTCCTCCATAAAAACCCAAAGATTTATGAAAGGGGAAATTGAAATTG
1 ATTTCCTCCATAAAAACCCAAAGATTTATGAAAAGGGAAATTGAAATTG
*
47491886 ATTTCCTCCATGAAAACCCAAAGATTTATGAAAAGGGAAATTGAA
1 ATTTCCTCCATAAAAACCCAAAGATTTATGAAAAGGGAAATTGAA
47491931 GTTTAATAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.26
Consensus pattern (49 bp):
ATTTCCTCCATAAAAACCCAAAGATTTATGAAAAGGGAAATTGAAATTG
Found at i:47492015 original size:3 final size:3
Alignment explanation
Indices: 47492000--47492092 Score: 177
Period size: 3 Copynumber: 31.0 Consensus size: 3
47491990 TCCATTTTTC
*
47492000 TCT TCT CCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
47492048 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
47492093 CTTATTATTC
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 88 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:47501653 original size:24 final size:24
Alignment explanation
Indices: 47501626--47501677 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
47501616 ATCGAGGGTC
* *
47501626 AATTAATTATTGTAATATCCCGAA
1 AATTAACTATTGTAATACCCCGAA
47501650 AATT-ACTATTGTAATACCCCGAA
1 AATTAACTATTGTAATACCCCGAA
47501673 AATTA
1 AATTA
47501678 CTACAATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (24 bp):
AATTAACTATTGTAATACCCCGAA
Found at i:47501660 original size:23 final size:23
Alignment explanation
Indices: 47501633--47501680 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
47501623 GTCAATTAAT
*
47501633 TATTGTAATATCCCGAAAATTAC
1 TATTGTAATACCCCGAAAATTAC
47501656 TATTGTAATACCCCGAAAATTAC
1 TATTGTAATACCCCGAAAATTAC
47501679 TA
1 TA
47501681 CAATAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (23 bp):
TATTGTAATACCCCGAAAATTAC
Found at i:47504591 original size:17 final size:18
Alignment explanation
Indices: 47504567--47504603 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47504557 TTTTAAAATA
* *
47504567 ATTTTTTAAATTTTTTTT
1 ATTTTTAAAATATTTTTT
47504585 ATTTTTAAAATATTTTTT
1 ATTTTTAAAATATTTTTT
47504603 A
1 A
47504604 ATGTTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTTTAAAATATTTTTT
Found at i:47509267 original size:42 final size:42
Alignment explanation
Indices: 47509219--47509365 Score: 172
Period size: 42 Copynumber: 3.5 Consensus size: 42
47509209 GAAGGCTGAG
*
47509219 CAGAAGCTCATAAGAGCTAAACAGAAACCCGTAAAGGTTAAA
1 CAGAAGCTCATAAGAGCTAAACAGAAACCCATAAAGGTTAAA
* * * *
47509261 CAGAAGCTCGTAAGAGCTGAACGGAAACCCATAAGGGTTAAA
1 CAGAAGCTCATAAGAGCTAAACAGAAACCCATAAAGGTTAAA
* * * * *
47509303 CAGAAGCTCAAAATAGCTGAACAGAAACTCAT-ATGAGTTAAA
1 CAGAAGCTCATAAGAGCTAAACAGAAACCCATAAAG-GTTAAA
47509345 CAGAAGCTCATGAA-AGCTAAA
1 CAGAAGCTCAT-AAGAGCTAAA
47509366 TGAAAATTAA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.02
42 86 0.96
43 2 0.02
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (42 bp):
CAGAAGCTCATAAGAGCTAAACAGAAACCCATAAAGGTTAAA
Found at i:47509346 original size:21 final size:21
Alignment explanation
Indices: 47509219--47509365 Score: 109
Period size: 21 Copynumber: 7.0 Consensus size: 21
47509209 GAAGGCTGAG
47509219 CAGAAGCTCATAAGAGCTAAA
1 CAGAAGCTCATAAGAGCTAAA
* * * *
47509240 CAGAAACCCGTAA-AGGTTAAA
1 CAGAAGCTCATAAGA-GCTAAA
* *
47509261 CAGAAGCTCGTAAGAGCTGAA
1 CAGAAGCTCATAAGAGCTAAA
* * * * *
47509282 CGGAAACCCATAAGGGTTAAA
1 CAGAAGCTCATAAGAGCTAAA
* * *
47509303 CAGAAGCTCAAAATAGCTGAA
1 CAGAAGCTCATAAGAGCTAAA
* * *
47509324 CAGAAACTCATATGAGTTAAA
1 CAGAAGCTCATAAGAGCTAAA
47509345 CAGAAGCTCATGAA-AGCTAAA
1 CAGAAGCTCAT-AAGAGCTAAA
47509366 TGAAAATTAA
Statistics
Matches: 91, Mismatches: 32, Indels: 6
0.71 0.25 0.05
Matches are distributed among these distances:
20 1 0.01
21 88 0.97
22 2 0.02
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (21 bp):
CAGAAGCTCATAAGAGCTAAA
Found at i:47510440 original size:25 final size:25
Alignment explanation
Indices: 47510404--47510453 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
47510394 TTTAATCACT
47510404 ATTTCTTTAA-TTAGCAAGTTTTTAA
1 ATTTCTTTAATTTAGCAA-TTTTTAA
*
47510429 ATTT-TTTCAATTTAGTAATTTTTAA
1 ATTTCTTT-AATTTAGCAATTTTTAA
47510454 TTAATTAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (25 bp):
ATTTCTTTAATTTAGCAATTTTTAA
Found at i:47511715 original size:6 final size:6
Alignment explanation
Indices: 47511704--47511749 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
47511694 CTAGTAAACG
47511704 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGT
47511750 GAGCTGCAGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:47513189 original size:56 final size:56
Alignment explanation
Indices: 47513122--47513234 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
47513112 AGGAATTGAG
* * *
47513122 CTACGGCCTAAAGATACTGGTAGCTAGGTAGACTTTGGATTAGGGTTTGGTAAGCT
1 CTACGGCCTAAAGATACTGGTAGCTAGGTAAACTCTAGATTAGGGTTTGGTAAGCT
47513178 CTACGGCCTAAAGATACTGGTAGCTAGGTAAACTCTAGATTAGGGTTTGGTAAGCT
1 CTACGGCCTAAAGATACTGGTAGCTAGGTAAACTCTAGATTAGGGTTTGGTAAGCT
47513234 C
1 C
47513235 ACCCTATTTG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (56 bp):
CTACGGCCTAAAGATACTGGTAGCTAGGTAAACTCTAGATTAGGGTTTGGTAAGCT
Found at i:47520644 original size:25 final size:25
Alignment explanation
Indices: 47520616--47520689 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
47520606 CGAGCATGTA
*
47520616 AACGGGAAGCTCTTTCGAGCCATAT
1 AACGAGAAGCTCTTTCGAGCCATAT
* * *
47520641 AACGAAAAGCTCATGT-GAGCTATAT
1 AACGAGAAGCTC-TTTCGAGCCATAT
* *
47520666 AACGAGAAGCTCATGCGAGCCATA
1 AACGAGAAGCTCTTTCGAGCCATA
47520690 AATTAGGAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
25 36 0.95
26 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (25 bp):
AACGAGAAGCTCTTTCGAGCCATAT
Found at i:47526407 original size:13 final size:13
Alignment explanation
Indices: 47526389--47526413 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47526379 TAATAAAAAT
47526389 ATATTTTATATTG
1 ATATTTTATATTG
47526402 ATATTTTATATT
1 ATATTTTATATT
47526414 TAATTTTAAA
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
ATATTTTATATTG
Found at i:47529651 original size:29 final size:30
Alignment explanation
Indices: 47529618--47529676 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
47529608 CTCCAACTTC
*
47529618 ACCAGCAGAGGGGAAAGAAC-GTTTGGGGA
1 ACCAGCAGAGGGGAAAAAACAGTTTGGGGA
*
47529647 ACCAGCAGAGGGGAAAAAACATTTTGGGGA
1 ACCAGCAGAGGGGAAAAAACAGTTTGGGGA
47529677 GAAGACAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.37, C:0.14, G:0.37, T:0.12
Consensus pattern (30 bp):
ACCAGCAGAGGGGAAAAAACAGTTTGGGGA
Found at i:47535664 original size:17 final size:17
Alignment explanation
Indices: 47535642--47535674 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47535632 AAGCATATAA
*
47535642 TAAAATTTTAAAAAATT
1 TAAAATATTAAAAAATT
47535659 TAAAATATTAAAAAAT
1 TAAAATATTAAAAAAT
47535675 ATTTTCATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAATATTAAAAAATT
Found at i:47536265 original size:17 final size:19
Alignment explanation
Indices: 47536224--47536266 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
47536214 TTGCTACTGT
47536224 TTTGTTGTTATTGTATAAC
1 TTTGTTGTTATTGTATAAC
*
47536243 TCTTGTT-TTATTGT-TAAG
1 T-TTGTTGTTATTGTATAAC
47536261 TTTGTT
1 TTTGTT
47536267 ACTATTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 8 0.36
20 5 0.23
ACGTcount: A:0.16, C:0.05, G:0.16, T:0.63
Consensus pattern (19 bp):
TTTGTTGTTATTGTATAAC
Found at i:47538157 original size:26 final size:26
Alignment explanation
Indices: 47538128--47538205 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 26
47538118 CAAATTCAAT
47538128 AAATGAAAGAGAATAACATATATGTA
1 AAATGAAAGAGAATAACATATATGTA
** *
47538154 AAAT--AA-A-AA-CCCAAATATG-A
1 AAATGAAAGAGAATAACATATATGTA
* *
47538174 GGAAGGAAAGAGAATAACATATATGTA
1 -AAATGAAAGAGAATAACATATATGTA
47538201 AAATG
1 AAATG
47538206 GAGATATGAA
Statistics
Matches: 35, Mismatches: 10, Indels: 14
0.59 0.17 0.24
Matches are distributed among these distances:
20 1 0.03
21 9 0.26
22 2 0.06
23 3 0.09
24 3 0.09
25 2 0.06
26 14 0.40
27 1 0.03
ACGTcount: A:0.58, C:0.06, G:0.17, T:0.19
Consensus pattern (26 bp):
AAATGAAAGAGAATAACATATATGTA
Found at i:47539956 original size:14 final size:14
Alignment explanation
Indices: 47539937--47539963 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47539927 TTCTGCTTGT
47539937 TTATTTTATTTTAC
1 TTATTTTATTTTAC
47539951 TTATTTTATTTTA
1 TTATTTTATTTTA
47539964 TCTTTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTATTTTAC
Found at i:47540768 original size:3 final size:3
Alignment explanation
Indices: 47540725--47540811 Score: 79
Period size: 3 Copynumber: 28.0 Consensus size: 3
47540715 TTTAGCAATC
* *
47540725 TTA TTA TT- TTG TTAA TTA TT- TTAA TGTA TTA TCA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TT-A T-TA TTA TTA -TTA TTA TTA TTA
* *
47540772 TTA TTA TTA TTA CTA TTA TTA TCA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
47540812 GTTTTATTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.06
3 55 0.79
4 10 0.14
5 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:47545692 original size:40 final size:38
Alignment explanation
Indices: 47545570--47545692 Score: 126
Period size: 40 Copynumber: 3.1 Consensus size: 38
47545560 GAAGAAAAAG
47545570 AAAAATCAAAATCAAAGTCAAAATGAAAATGAAAAGAAA
1 AAAAATCAAAATCAAA-TCAAAATGAAAATGAAAAGAAA
*
47545609 AAAAATCAAAAATCAAAAT-AAAA--AAAAAGAAGAAAGAAGAA
1 AAAAATC-AAAATC-AAATCAAAATGAAAATG-A-AAAG-A-AA
*
47545650 AAAAATCAAAATCAAGATCAAAATGAAAATGAAACTGAAA
1 AAAAATCAAAATCAA-ATCAAAATGAAAATGAAA-AGAAA
47545690 AAA
1 AAA
47545693 GAAAGAAGAA
Statistics
Matches: 70, Mismatches: 3, Indels: 21
0.74 0.03 0.22
Matches are distributed among these distances:
37 5 0.07
38 1 0.01
39 17 0.24
40 21 0.30
41 19 0.27
42 2 0.03
43 5 0.07
ACGTcount: A:0.72, C:0.07, G:0.10, T:0.11
Consensus pattern (38 bp):
AAAAATCAAAATCAAATCAAAATGAAAATGAAAAGAAA
Found at i:47545695 original size:46 final size:45
Alignment explanation
Indices: 47545570--47545696 Score: 131
Period size: 46 Copynumber: 2.9 Consensus size: 45
47545560 GAAGAAAAAG
* *
47545570 AAAAATCAAAATCAAAGTCAAAATGAAAATGAAAAGA-AAAAAAATC
1 AAAAATCAAAATCAAAAT-AAAATG-AAATGAAAAAAGAAAAAAATC
* *
47545616 AAAAATCAAAAT-AAAA-AAAAAG-AA-GAAAGAAGAAAAAAATC
1 AAAAATCAAAATCAAAATAAAATGAAATGAAAAAAGAAAAAAATC
*
47545657 -AAAATCAAGATCAAAATGAAAATGAAACTGAAAAAAGAAA
1 AAAAATCAAAATCAAAAT-AAAATGAAA-TGAAAAAAGAAA
47545697 GAAGAATGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
40 15 0.22
41 15 0.22
43 10 0.15
44 2 0.03
45 3 0.04
46 22 0.33
ACGTcount: A:0.72, C:0.07, G:0.10, T:0.11
Consensus pattern (45 bp):
AAAAATCAAAATCAAAATAAAATGAAATGAAAAAAGAAAAAAATC
Found at i:47546590 original size:7 final size:7
Alignment explanation
Indices: 47546578--47546633 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
47546568 GGCACTCTGA
47546578 AAAAATG
1 AAAAATG
47546585 AAAAAT-
1 AAAAATG
*
47546591 AAGAATG
1 AAAAATG
*
47546598 AAAATTG
1 AAAAATG
*
47546605 AAAAAAG
1 AAAAATG
47546612 -AAAATG
1 AAAAATG
*
47546618 AAAATTG
1 AAAAATG
*
47546625 AAAATTG
1 AAAAATG
47546632 AA
1 AA
47546634 GAGGCTAAGG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 10 0.25
7 30 0.75
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.18
Consensus pattern (7 bp):
AAAAATG
Found at i:47546614 original size:27 final size:28
Alignment explanation
Indices: 47546575--47546633 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 28
47546565 AAGGGCACTC
47546575 TGAAAAAATGAAAAAT-AAGAA-TGAAAAT
1 TGAAAAAATG-AAAATGAA-AATTGAAAAT
47546603 TGAAAAAA-GAAAATGAAAATTGAAAAT
1 TGAAAAAATGAAAATGAAAATTGAAAAT
47546630 TGAA
1 TGAA
47546634 GAGGCTAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.24
27 14 0.48
28 8 0.28
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (28 bp):
TGAAAAAATGAAAATGAAAATTGAAAAT
Found at i:47548140 original size:46 final size:46
Alignment explanation
Indices: 47547905--47548741 Score: 320
Period size: 44 Copynumber: 18.8 Consensus size: 46
47547895 AAAGAGTCAG
*
47547905 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A---C
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTTC
* * * * **
47547947 ACTATCCTATCTCCCTGA-AGTTATAGTGGAGCAGAT-TAA-AA-TAA
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTTC
* * *** *
47547991 AGGATCCTATCTCTCTGA-AGTTACAGAATAGCAGATCGAAGCCA---C
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAG-AATTTC
* * * * * * *
47548036 AAACCTTATCTCCCTGA-AGTTACAGTGGGGCAGGTTGAA-TA-TGC
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTTC
* * *
47548080 A-AGTCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTT
1 AGA-TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTTC
* *
47548126 AGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAG----CC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTTC
* * * * * * * *
47548168 ACGAACCTTATTTCCTTGA-AGTTACAGTGGGGCAGGTTGAA-TA-TGC
1 A-G-ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTTC
* * * *
47548214 A-AGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTT
1 AGA-TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTTC
* * *
47548260 AGGTCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTTC
* * * *
47548306 A-ATTCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---G
1 AGA-TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG-AATTTC
* *
47548350 AGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA---C
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG-AATTTC
* * * * * * * *
47548394 AAACCTTATCTCCCTGA-AGTTATAGTGGGGCAGGTTGAA-TA-TGC
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTTC
* ** *
47548438 A-AGTCTTATCTCCCTGAGGTTACAGTGGAGTGGACCGAAGAATTTC
1 AGA-TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTTC
* * * * *
47548484 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAG-CTAGT-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-TTC
* * * ** * **
47548529 A-ATCCTATCTCCCT-AAAGTTACAGTGGTGTGGAT-TAA-AA-TAA
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTTC
* * * * *
47548571 AGGATCTCATCTCTCTGA-AGTTACAGTAGAGTAGATCG--CAA---C
1 A-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGAATTTC
* * * * * * *
47548613 AAATCTTATCTCCCTAAGGTTACAGTAGAGTAAACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTTC
* * *
47548659 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGGTCGAAG-ATGGT-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAAT-TTC
* *
47548704 AGATCTTATCTCCCTAAGCAGT--AGTGGAGCAGATCGAA
1 AGATCTTATCTCCCTGAG-ATTACAGTGGAGCAGATCGAA
47548742 AATGGCAAAT
Statistics
Matches: 601, Mismatches: 140, Indels: 106
0.71 0.17 0.13
Matches are distributed among these distances:
41 28 0.05
42 10 0.02
43 38 0.06
44 304 0.51
45 30 0.05
46 187 0.31
47 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (46 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAATTTC
Found at i:47548159 original size:134 final size:134
Alignment explanation
Indices: 47547993--47548389 Score: 507
Period size: 134 Copynumber: 2.9 Consensus size: 134
47547983 TAAAATAAAG
* * **
47547993 GATCCTATCTCTCTGA-AGTTACAGAATAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTT
1 GATCTTATCTCCCTGAGA-TTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTT
47548057 ACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAA
65 ACAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAA
47548122 TTTTA
130 TTTTA
* * *
47548127 GATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACGAACCTTATTTCCTTGAAGTTA
1 GATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTTA
*
47548192 CAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAAT
66 CAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAAT
47548257 TTTA
131 TTTA
* * * * * ** *
47548261 GGTCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAG-AATTTCAATTCTTATCTCCCTGAGG
1 GATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA---CAAACCTTATCTCCCTGAAG
* * * * *
47548325 TTACAGTGGAGCAGATTG-A-A-GCCAGAGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCG
63 TTACAGTGGGGCAGGTTGAATATG-CA-AG-TCTTATCTCCCTGAGATTACAGTGGAGTAGACCG
47548387 AAG
125 AAG
47548390 CCACAAACCT
Statistics
Matches: 231, Mismatches: 25, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
133 2 0.01
134 162 0.70
135 4 0.02
136 63 0.27
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (134 bp):
GATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTTA
CAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAAT
TTTA
Found at i:47548583 original size:134 final size:134
Alignment explanation
Indices: 47548350--47548602 Score: 289
Period size: 134 Copynumber: 1.9 Consensus size: 134
47548340 TTGAAGCCAG
*
47548350 AGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTGAAGTT
1 AGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTAAAGTT
* * * * * *
47548415 ATAGTGGGGCAGGTTGAATATGCAAGTCTTATCTCCCTGAGGTTACAGTGGAGTGGACCGAAGAA
66 ACAGTGGGGCAGGTTGAAAATGAAAGTCTCATCTCCCTGAAGTTACAGTAGAGTGGACCGAAGAA
47548480 TTTC
131 TTTC
* * * * * * *
47548484 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGGAGCTAGTAATCC-TATCTCCCTAAAGT
1 AGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCA-CAAACCTTATCTCCCTAAAGT
* * *
47548548 TACAGTGGTG-TGGATT-AAAAT-AAAGGATCTCATCTCTCTGAAGTTACAGTAGAGT
65 TACAGTGGGGCAGG-TTGAAAATGAAA-G-TCTCATCTCCCTGAAGTTACAGTAGAGT
47548603 AGATCGCAAC
Statistics
Matches: 98, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
132 2 0.02
133 7 0.07
134 85 0.87
135 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (134 bp):
AGATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGCCACAAACCTTATCTCCCTAAAGTT
ACAGTGGGGCAGGTTGAAAATGAAAGTCTCATCTCCCTGAAGTTACAGTAGAGTGGACCGAAGAA
TTTC
Found at i:47548741 original size:44 final size:44
Alignment explanation
Indices: 47548682--47549607 Score: 678
Period size: 44 Copynumber: 21.3 Consensus size: 44
47548672 CTGAGGTTAC
* * * *
47548682 AGTGGAGCAGGTCGAAGATGGTAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTAGATCCTATCTCCCTAAGCAGT
* * * *
47548726 AGTGGAGCAGATCGAAA-ATGGCAAAT-CTCATCTTCCTAAGCAGT
1 AGTGGAGCAGATC-AAAGATAGTAGATCCT-ATCTCCCTAAGCAGT
* * ** ** **
47548770 AATGAAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTAGATCCTATCTCCCTAAGCAGT
* * *
47548813 AGTGGAGCAGGTCAAATATGGTAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTAGATCCTATCTCCCTAAGCAGT
** ** *
47548857 AGTGGAGCAGATCGCA-CCA--AG-TCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTAGATCCTATCTCCCTAAGCAGT
* ** ** *
47548897 AGTGGAGCAGA-CAGAAGAAACCA-ATCCTATCTCCCTAAAGTTGC
1 AGTGGAGCAGATCA-AAGATAGTAGATCCTATCTCCCT-AAGCAGT
* * * *
47548941 AGTAGAGCAGATTAAA-ATGGTAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTAGATCCTATCTCCCTAAGCAGT
* * *
47548984 AGTGGAGCAGATCAAAGA-CG-ACGAATCTTATCTTCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTA-G-ATCCTATCTCCCTAAGCAGT
* ** ** **
47549028 AGTGAAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTAGATCCTATCTCCCTAAGCAGT
*
47549071 AGTGGAGCAGGTCAAAGAT-GTTAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAG-TAGATCCTATCTCCCTAAGCAGT
* *
47549115 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTAGATCCTATCTCCCTAAGCAGT
* * ** * *
47549159 AGTGGAGCAGATCGAAGA-CGGCGAAT-CTCATCTTCCTAAGCAGC
1 AGTGGAGCAGATCAAAGATAGTAG-ATCCT-ATCTCCCTAAGCAGT
* ** ** ** *
47549203 AGTGAAGCAGATTTAAGCCACCAG-TCATATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTAGATCCTATCTCCCTAAGCAGT
* *
47549246 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTAGATCCTATCTCCCTAAGCAGT
** * *
47549290 AGTGGAGCAGATC-AA-ATACGGCGAATCTTATCTTCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATA-GTAG-ATCCTATCTCCCTAAGCAGT
* * ** ** **
47549334 AGTGAAGTAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTAGATCCTATCTCCCTAAGCAGT
*
47549377 AGTGGAGCAGGTCAAAGAT-GTTAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAG-TAGATCCTATCTCCCTAAGCAGT
* *
47549421 AGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTAGATCCTATCTCCCTAAGCAGT
* * ** * *
47549465 AGTGGAGCAGATCGAAGA-CGGCGAATCTTATCTTCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTAG-ATCCTATCTCCCTAAGCAGT
* ** ** ** *
47549509 AGTGAAGCAGATTTAAGCCACAAG-TCCTATCTCTCTAAGCAGT
1 AGTGGAGCAGATCAAAGATAGTAGATCCTATCTCCCTAAGCAGT
* ** **
47549552 AGTGAAGCAGATTTAAGCCACG-AG-TCCTATCTCCCTAAGCAGT
1 AGTGGAGCAGATCAAAGATA-GTAGATCCTATCTCCCTAAGCAGT
47549595 AGTGGAGCAGATC
1 AGTGGAGCAGATC
47549608 GCATCAAGTC
Statistics
Matches: 696, Mismatches: 150, Indels: 73
0.76 0.16 0.08
Matches are distributed among these distances:
39 1 0.00
40 30 0.04
41 3 0.00
42 4 0.01
43 232 0.33
44 415 0.60
45 9 0.01
46 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (44 bp):
AGTGGAGCAGATCAAAGATAGTAGATCCTATCTCCCTAAGCAGT
Found at i:47548806 original size:87 final size:87
Alignment explanation
Indices: 47548710--47549607 Score: 690
Period size: 87 Copynumber: 10.3 Consensus size: 87
47548700 TGGTAGATCT
* *
47548710 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA-ATGGCAAAT-CTCATCTTCCTAAGCAGTAAT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-AAAGATGGCAAATCCT-ATCTCCCTAAGCAGTAGT
47548773 GAAGCAGATTTAAGCCACCAGTCC
64 GAAGCAGATTTAAGCCACCAGTCC
* * * * *
47548797 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAATATGGTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCCTATCTCCCTAAGCAGTAGTGA
* *
47548862 AGCAGA--T-CG-CACCAAGTCT
66 AGCAGATTTAAGCCACC-AGTCC
** * ** *
47548881 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGA-AACCAATCCTATCTCCCTAAAGTTGCAGT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCA-AAGATGGCAAATCCTATCTCCCT-AAGCAGTAGT
* ** * *
47548944 -AGAGCAGATTAAAATGGTA-GA-TCT
64 GA-AGCAGATT-TAA-GCCACCAGTCC
* * * * *
47548968 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCCTATCTCCCTAAGCAGTAGTGA
47549033 AGCAGATTTAAGCCACCAGTCC
66 AGCAGATTTAAGCCACCAGTCC
* ** * *
47549055 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCCTATCTCCCTAAGCAGTAGTGA
* ** ** **
47549120 AGCAGGTCAAAGATATTAGATCC
66 AGCAGATTTAAGCCACCAG-TCC
* * * * *
47549143 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAAT-CTCATCTTCCTAAGCAGCAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCCT-ATCTCCCTAAGCAGTAGTG
*
47549207 AAGCAGATTTAAGCCACCAGTCA
65 AAGCAGATTTAAGCCACCAGTCC
* *** * *
47549230 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCCTATCTCCCTAAGCAGTAGTGA
** * ** * * *
47549295 AGCAGATCAAATACGGCGAATCT
66 AGCAGATTTAA-GCCACCAGTCC
* * * ** *** * * *
47549318 TATCTTCCTAAGCAGTAGTGAAGTAGATTTAAG-CCACCAGTCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCCTATCTCCCTAAGCAGTAGTGA
* ** *****
47549382 AGCAGGTCAAAGATGTTAGATCC
66 AGCAGATTTAAGCCACCAG-TCC
* *** * *
47549405 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCCTATCTCCCTAAGCAGTAGTGA
** ** * * *
47549470 AGCAGATCGAAGACGGCGAATCT
66 AGCAGATTTAAG-CCACCAGTCC
* * ** *** * *
47549493 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAG-CCACAAGTCCTATCTCTCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCCTATCTCCCTAAGCAGTAGTGA
*
47549557 AGCAGATTTAAGCCACGAGTCC
66 AGCAGATTTAAGCCACCAGTCC
47549579 TATCTCCCTAAGCAGTAGTGGAGCAGATC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC
47549608 GCATCAAGTC
Statistics
Matches: 635, Mismatches: 152, Indels: 49
0.76 0.18 0.06
Matches are distributed among these distances:
83 19 0.03
84 47 0.07
85 3 0.00
86 40 0.06
87 337 0.53
88 185 0.29
89 3 0.00
90 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (87 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATCCTATCTCCCTAAGCAGTAGTGA
AGCAGATTTAAGCCACCAGTCC
Found at i:47548979 original size:258 final size:261
Alignment explanation
Indices: 47548699--47549604 Score: 860
Period size: 262 Copynumber: 3.5 Consensus size: 261
47548689 CAGGTCGAAG
* *
47548699 ATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA-ATGGCAAATCTCATCTTCCT
1 ATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-AAAGACGACAAATCTCATCTTCCT
47548763 AAGCAGTAATGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAA
65 AAGCAGTAATGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAA
* ** * *
47548828 ATATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGCA-CCA-AG-TCTTATCTCCCT
130 AGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACATAGATCCTATCTCCCT
47548890 AAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCAGATTA
195 AAGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCAGATTA
47548955 AA
260 AA
* *
47548957 ATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCTA
1 ATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTCATCTTCCTA
*
47549022 AGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAA
66 AGCAGTAATGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAA
* * *
47549087 GATGTTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCT
131 GATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACA-TAGATCCTATCTCCCT
** * * **
47549152 AAGCAGTAGTGGAGCAGATC-GAAGACGGCGAAT-CTCATCTTCCT-AAGCAGCAGT-GAAGCAG
195 AAGCAGTAGTGGAGCAGA-CAGAAGA-AACCAATCCT-ATCTCCCTAAAGTTGCAGTAG-AGCAG
*
47549213 ATT-TA
256 ATTAAA
** * * * * * * *
47549218 A-GCCACCAGTCATATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGA-TATTAGATC-CTATCTC
1 ATGGTA-GA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGA-CAAATCTC-ATCTT
* * ** * ** * * * * * * *
47549280 CCTAAGCAGTAGTGGAGCAGATCAAATACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGTAGA
62 CCTAAGCAGTAATGAAGCAGATTTAA-GCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGG
** ***** * **
47549345 TTTAAGCCACCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATC
126 TCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA-CATAGATCCTATC
* * ** ** * *
47549409 TCCCTAAGCAGTAGTGGAGCAGGTCA-AAGATATTAGATCCTATCTCCCT-AAGCAGTAGTGGAG
190 TCCCTAAGCAGTAGTGGAGCA-GACAGAAGAAACCA-ATCCTATCTCCCTAAAGTTGCAGTAGAG
* *
47549472 CAGATCGAAG
253 CAGAT-TAAA
* * * * ** * *
47549482 ACGG-CGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAG-CCACAAGTC-CTATC-TCT
1 ATGGTAG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTC-ATCTTC-
* *
47549543 CTAAGCAGTAGTGAAGCAGATTTAAGCCACGAGTCCTATCTCCCTAAGCAGTAGTGGAGCAG
63 CTAAGCAGTAATGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAG
47549605 ATCGCATCAA
Statistics
Matches: 534, Mismatches: 88, Indels: 49
0.80 0.13 0.07
Matches are distributed among these distances:
257 3 0.01
258 160 0.30
259 1 0.00
260 2 0.00
261 38 0.07
262 246 0.46
263 81 0.15
264 2 0.00
265 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (261 bp):
ATGGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTCATCTTCCTA
AGCAGTAATGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAA
GATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACATAGATCCTATCTCCCTA
AGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTAGAGCAGATTAA
A
Found at i:47549164 original size:175 final size:175
Alignment explanation
Indices: 47548710--47549604 Score: 887
Period size: 175 Copynumber: 5.1 Consensus size: 175
47548700 TGGTAGATCT
* *** * * *
47548710 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA-ATGGCAAAT-CTCATCTTCCTAAGCAGTAAT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTC-AAAGATATTAGATCCT-ATCTCCCTAAGCAGTAGT
* ** ** ** * * * *
47548773 GAAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAATATG--GT
64 GGAGCAGATCAAAGATAGGAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACG-
* * * *
47548835 AGATCCTATCTCCCTAAGCAGTAGTGGAGCAGA--T-CG-CACCAAGTCT
128 A-ATCCTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACC-AGTCC
* * ** ** *
47548881 TATCTCCCTAAGCAGTAGTGGAGCA-GACAGAAGAAACCA-ATCCTATCTCCCTAAAGTTGCAGT
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCA-AAGATATTAGATCCTATCTCCCT-AAGCAGTAGT
* *
47548944 AGAGCAGATTAAA-AT-GGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACG
64 GGAGCAGATCAAAGATAGG-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACG
*
47549007 AATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCC
128 AATCCTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCC
*
47549055 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
* ** * * *
47549120 AGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAAT
66 AGCAGATCAAAGATAGGAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAAT
* *
47549185 -CTCATCTTCCTAAGCAGCAGTGAAGCAGATTTAAGCCACCAGTCA
131 CCT-ATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCC
47549230 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
* * * * ** * *
47549295 AGCAGATC-AA-ATACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAG-CCACCA
66 AGCAGATCAAAGATA-GGAG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGA
* * * * ** *****
47549357 GTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCC
129 ATCCTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-TCC
47549405 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
* * * * * ** *
47549470 AGCAGATCGAAGA-CGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAG-CCAC-AA
66 AGCAGATCAAAGATAGGAG-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAA
*
47549532 GTCCTATC-TCTCTAAGCAGTAGTGAAGCAGATTTAAGCCACGAGTCC
130 -TCCTATCTTC-CTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCC
47549579 TATCTCCCTAAGCAGTAGTGGAGCAG
1 TATCTCCCTAAGCAGTAGTGGAGCAG
47549605 ATCGCATCAA
Statistics
Matches: 614, Mismatches: 85, Indels: 47
0.82 0.11 0.06
Matches are distributed among these distances:
169 1 0.00
170 14 0.02
171 109 0.18
172 1 0.00
173 5 0.01
174 119 0.19
175 362 0.59
176 2 0.00
177 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (175 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
AGCAGATCAAAGATAGGAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAAT
CCTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCC
Found at i:47549453 original size:131 final size:131
Alignment explanation
Indices: 47548968--47549644 Score: 608
Period size: 131 Copynumber: 5.2 Consensus size: 131
47548958 TGGTAGATCT
* * ** * *
47548968 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGA-ATCTTATCTTCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGA-TATTAGATCCTATCTCCCTAAGCAGTAGTG
* * ** ** * * ** *****
47549032 AAGCAGATTTAAGCCACCAG--TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAG
65 GAGCAGA-TCAAGATAGGAGAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
47549095 ATCC
129 -TCC
47549099 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
* * * *
47549164 AGCAGATCGAAGA-CGGCGAAT-CTCATCTTCCTAAGCAGCAGTGAAGCAGATTTAAGCCACCAG
66 AGCAGATC-AAGATAGGAGAATCCT-ATCTCCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
*
47549227 TCA
129 TCC
47549230 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
* * * *
47549295 AGCAGATCAA-ATACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAAGCCACCAGT
66 AGCAGATCAAGATA-GGAGAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGT
47549359 CC
130 CC
*
47549361 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
* ** * ** ** * *
47549426 AGCAGGTCAAAGATATTAG-ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAA
66 AGCAGATC-AAGATAGGAGAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATTTAAG-CCACCAG
*
47549490 TCT
129 TCC
* * * ** ** ** * *
47549493 TATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACAAG-TCCTATCTCTCTAAGCAGTAGTGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
* ** * * * *
47549557 AGCAGATTTAAGCCACGAG--TCCTATCTCCCTAAGCAGTAGTGGAGCAGA--T-CG-CATCAAG
66 AGCAGA-TCAAGATAGGAGAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATTTAAGCCA-CCAG
*
47549616 TCT
129 TCC
*
47549619 TATCTCCCTAAGCAGTAGCGGAGCAG
1 TATCTCCCTAAGCAGTAGTGGAGCAG
47549645 ACAGAAAAAA
Statistics
Matches: 460, Mismatches: 73, Indels: 31
0.82 0.13 0.05
Matches are distributed among these distances:
126 28 0.06
127 1 0.00
129 1 0.00
130 36 0.08
131 322 0.70
132 69 0.15
133 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (131 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATATTAGATCCTATCTCCCTAAGCAGTAGTGG
AGCAGATCAAGATAGGAGAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTC
C
Found at i:47550464 original size:14 final size:14
Alignment explanation
Indices: 47550445--47550471 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47550435 TTCTGCTTGT
47550445 TTATTTTATTTTAC
1 TTATTTTATTTTAC
47550459 TTATTTTATTTTA
1 TTATTTTATTTTA
47550472 TCTTTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTATTTTAC
Found at i:47551224 original size:3 final size:3
Alignment explanation
Indices: 47551181--47551267 Score: 79
Period size: 3 Copynumber: 28.0 Consensus size: 3
47551171 TTTAGCAATC
* *
47551181 TTA TTA TT- TTG TTAA TTA TT- TTAA TGTA TTA TCA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TT-A T-TA TTA TTA -TTA TTA TTA TTA
* *
47551228 TTA TTA TTA TTA CTA TTA TTA TCA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
47551268 GTTTTATTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.06
3 55 0.79
4 10 0.14
5 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:47557385 original size:8 final size:8
Alignment explanation
Indices: 47557367--47557409 Score: 59
Period size: 8 Copynumber: 5.1 Consensus size: 8
47557357 ATTATTAAAA
47557367 TATATATTT
1 TATA-ATTT
47557376 TATAATTT
1 TATAATTT
47557384 TATAATATT
1 TATAAT-TT
*
47557393 TATATTTT
1 TATAATTT
47557401 TATAATTT
1 TATAATTT
47557409 T
1 T
47557410 TTTATTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 20 0.65
9 11 0.35
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TATAATTT
Found at i:47557387 original size:17 final size:16
Alignment explanation
Indices: 47557367--47557409 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
47557357 ATTATTAAAA
47557367 TATATATTTTATAATTT
1 TATA-ATTTTATAATTT
*
47557384 TATAATATTTATATTTT
1 TATAAT-TTTATAATTT
47557401 TATAATTTT
1 TATAATTTT
47557410 TTTATTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATAATTTTATAATTT
Found at i:47557747 original size:22 final size:21
Alignment explanation
Indices: 47557684--47557749 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
47557674 TTTATTATTA
*
47557684 TTTATTTTTCTTAATGTTTAT
1 TTTATTTTTCTTATTGTTTAT
* *
47557705 TTTATTTTT-TATTTTGGTTAT
1 TTTATTTTTCT-TATTGTTTAT
*
47557726 TTTATTTTTCTTCCTTGTTTAT
1 TTTATTTTTCTT-ATTGTTTAT
47557748 TT
1 TT
47557750 CCTTTTCTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
20 1 0.03
21 26 0.70
22 10 0.27
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (21 bp):
TTTATTTTTCTTATTGTTTAT
Done.