Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 164 of 292
Found at i:48747237 original size:20 final size:20
Alignment explanation
Indices: 48747212--48747251 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
48747202 AGTTGAGGAA
48747212 TGATATCTCTTCCTTTGTAC
1 TGATATCTCTTCCTTTGTAC
*
48747232 TGATATCTCTTCTTTTGTAC
1 TGATATCTCTTCCTTTGTAC
48747252 AGATGAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.23, G:0.10, T:0.53
Consensus pattern (20 bp):
TGATATCTCTTCCTTTGTAC
Found at i:48753149 original size:3 final size:3
Alignment explanation
Indices: 48753141--48753185 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
48753131 ATCTATTCAT
*
48753141 TTA TTA TTA TTA TTA TTA TTTA TTA TTC TTA TTA GTTA -TA TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA -TTA TTA TTA TT
48753186 TTGTTTGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:48753417 original size:3 final size:3
Alignment explanation
Indices: 48753404--48753439 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
48753394 CTTTATGTTT
48753404 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
48753440 GTGTTCGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48755608 original size:42 final size:42
Alignment explanation
Indices: 48755546--48755675 Score: 197
Period size: 42 Copynumber: 3.1 Consensus size: 42
48755536 CTAAGTCCGG
* * * *
48755546 ATATAGTACCAACACTAAGCCTGCGGGATTTAACCTGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
*
48755588 ATATATTACCAGCACGAAGCCTGCGGGATTTGACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
* *
48755630 ATATATTACCAGAACGAAGCCTGCGGGATTTAACCCAGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
48755672 ATAT
1 ATAT
48755676 TATATCAAGA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:48757829 original size:6 final size:6
Alignment explanation
Indices: 48757814--48757868 Score: 85
Period size: 6 Copynumber: 9.3 Consensus size: 6
48757804 ATTGAGTCCA
*
48757814 TTTA-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATG TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
48757861 GTTATT TT
1 TTTATT TT
48757869 CTTAGATTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
5 4 0.09
6 41 0.91
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:48758478 original size:26 final size:26
Alignment explanation
Indices: 48758442--48758525 Score: 123
Period size: 26 Copynumber: 3.2 Consensus size: 26
48758432 TGATACAAAT
* *
48758442 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
48758468 TGATAATAGGTTAGGTAAATATTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
48758494 TGATAATGGGTTAGATAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
48758520 TGATAA
1 TGATAA
48758526 GAATTTCATG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:48760187 original size:27 final size:27
Alignment explanation
Indices: 48760145--48760284 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 27
48760135 GAGGAAGCGT
*
48760145 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
48760172 TCTAGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
48760199 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
** *
48760226 TCTGGTGGCTCTGCCATGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
48760254 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
48760280 TCTGG
1 TCTGG
48760285 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.05
27 79 0.81
28 14 0.14
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:48760234 original size:54 final size:55
Alignment explanation
Indices: 48760145--48760284 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 55
48760135 GAGGAAGCGT
* * * *
48760145 TCTGGTGGCTATGCCACAAATATCTGATCTAGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
** *
48760199 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCATGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
48760254 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
48760285 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 58 0.76
55 18 0.24
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:48765750 original size:41 final size:40
Alignment explanation
Indices: 48765687--48765777 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 40
48765677 TGTTTTTCAG
*
48765687 AAAATGCCGCTATAGGTGGAGTATTAGTGGCGTTTGTTTTGA
1 AAAACGCCGCTATAGGTGGAGTATTAGTGGC-TTT-TTTTGA
*
48765729 AAAACGCCGCTATAGGT-GAGTATTAGTGGCTTTTTTTTA
1 AAAACGCCGCTATAGGTGGAGTATTAGTGGCTTTTTTTGA
48765768 AAAACGCCGC
1 AAAACGCCGC
48765778 AAAAAATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 15 0.32
40 3 0.06
41 13 0.28
42 16 0.34
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (40 bp):
AAAACGCCGCTATAGGTGGAGTATTAGTGGCTTTTTTTGA
Found at i:48766157 original size:15 final size:15
Alignment explanation
Indices: 48766124--48766165 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
48766114 TATTTTAAGG
*
48766124 TTTAGGGATTATATG
1 TTTAGGGATTATATA
48766139 TTTAGGGATTATCA-A
1 TTTAGGGATTAT-ATA
*
48766154 TTTAGGGGTTAT
1 TTTAGGGATTAT
48766166 GGTTTAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.45
Consensus pattern (15 bp):
TTTAGGGATTATATA
Found at i:48766204 original size:7 final size:7
Alignment explanation
Indices: 48766194--48766279 Score: 91
Period size: 7 Copynumber: 11.4 Consensus size: 7
48766184 TAGTGGGTAT
48766194 GGGTTAA
1 GGGTTAA
48766201 GGGTTTTAA
1 GGG--TTAA
*
48766210 GGGTTAT
1 GGGTTAA
48766217 GGGTTTAA
1 GGG-TTAA
48766225 GGGTTAA
1 GGGTTAA
*
48766232 GGGTTAT
1 GGGTTAA
48766239 GGGTTTAA
1 GGG-TTAA
48766247 GGGTTAAA
1 GGGTT-AA
*
48766255 GGGATAA
1 GGGTTAA
48766262 GGGTTAA
1 GGGTTAA
48766269 GGGGTTAA
1 -GGGTTAA
48766277 GGG
1 GGG
48766280 GTTTAATGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
7 35 0.52
8 25 0.37
9 7 0.10
ACGTcount: A:0.26, C:0.00, G:0.43, T:0.31
Consensus pattern (7 bp):
GGGTTAA
Found at i:48766213 original size:22 final size:23
Alignment explanation
Indices: 48766191--48766279 Score: 112
Period size: 22 Copynumber: 4.0 Consensus size: 23
48766181 GATTAGTGGG
48766191 TATGGG-TTAAGGGTTTTAAGGGT
1 TATGGGTTTAAGGG-TTTAAGGGT
48766214 TATGGGTTTAAGGG-TTAAGGGT
1 TATGGGTTTAAGGGTTTAAGGGT
* *
48766236 TATGGGTTTAAGGGTTAAAGGGA
1 TATGGGTTTAAGGGTTTAAGGGT
* *
48766259 TAAGGG-TTAAGGGGTTAAGGG
1 TATGGGTTTAAGGGTTTAAGGG
48766280 GTTTAATGGT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
22 35 0.59
23 17 0.29
24 7 0.12
ACGTcount: A:0.26, C:0.00, G:0.42, T:0.33
Consensus pattern (23 bp):
TATGGGTTTAAGGGTTTAAGGGT
Found at i:48766225 original size:15 final size:15
Alignment explanation
Indices: 48766194--48766291 Score: 101
Period size: 15 Copynumber: 6.4 Consensus size: 15
48766184 TAGTGGGTAT
48766194 GGGTTAAGGGTTTTAA
1 GGGTTAAGGG-TTTAA
*
48766210 GGGTTATGGGTTTAA
1 GGGTTAAGGGTTTAA
*
48766225 GGGTTAAGGG-TTAT
1 GGGTTAAGGGTTTAA
*
48766239 GGGTTTAAGGGTTAAA
1 GGG-TTAAGGGTTTAA
*
48766255 GGGATAAGGG-TTAA
1 GGGTTAAGGGTTTAA
48766269 GGGGTTAAGGGGTTTAA
1 -GGGTTAA-GGGTTTAA
*
48766286 TGGTTA
1 GGGTTA
48766292 TGGGGACATG
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
14 9 0.13
15 33 0.49
16 22 0.32
17 4 0.06
ACGTcount: A:0.26, C:0.00, G:0.41, T:0.34
Consensus pattern (15 bp):
GGGTTAAGGGTTTAA
Found at i:48766317 original size:15 final size:15
Alignment explanation
Indices: 48766191--48766317 Score: 62
Period size: 15 Copynumber: 8.3 Consensus size: 15
48766181 GATTAGTGGG
*
48766191 TATGGGTTAAGGGTTT
1 TATGGGTT-AGGGGTT
* *
48766207 TAAGGGTTATGGGTT
1 TATGGGTTAGGGGTT
* *
48766222 TAAGGGTTAAGGG-T
1 TATGGGTTAGGGGTT
*
48766236 TATGGGTTTAAGGGTT
1 TATGGG-TTAGGGGTT
* * * *
48766252 AAAGGGATAAGGGTT
1 TATGGGTTAGGGGTT
* *
48766267 AAGGGGTTAAGGGGTT
1 TATGGGTT-AGGGGTT
*
48766283 TAAT-GGTTATGGGG-A
1 T-ATGGGTTA-GGGGTT
*
48766298 CATGGGTTAGGGGTT
1 TATGGGTTAGGGGTT
48766313 TATGG
1 TATGG
48766318 TTTATGAGTT
Statistics
Matches: 87, Mismatches: 17, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
14 12 0.14
15 48 0.55
16 26 0.30
17 1 0.01
ACGTcount: A:0.24, C:0.01, G:0.42, T:0.34
Consensus pattern (15 bp):
TATGGGTTAGGGGTT
Found at i:48766319 original size:7 final size:7
Alignment explanation
Indices: 48766309--48766394 Score: 55
Period size: 7 Copynumber: 11.9 Consensus size: 7
48766299 ATGGGTTAGG
48766309 GGTTTAT
1 GGTTTAT
48766316 GGTTTAT
1 GGTTTAT
*
48766323 GAGTTAAT
1 G-GTTTAT
** *
48766331 ATTTTAA
1 GGTTTAT
48766338 GGTTTAT
1 GGTTTAT
*
48766345 GGATTAT
1 GGTTTAT
* *
48766352 AGATTTAG
1 -GGTTTAT
*
48766360 GGATTAT
1 GGTTTAT
*
48766367 GTGTTTAG
1 G-GTTTAT
*
48766375 GGATTAT
1 GGTTTAT
48766382 GGTTTAT
1 GGTTTAT
48766389 GGTTTA
1 GGTTTA
48766395 AGGGCTGAGA
Statistics
Matches: 56, Mismatches: 20, Indels: 6
0.68 0.24 0.07
Matches are distributed among these distances:
7 42 0.75
8 14 0.25
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (7 bp):
GGTTTAT
Found at i:48766363 original size:15 final size:15
Alignment explanation
Indices: 48766340--48766382 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48766330 TATTTTAAGG
*
48766340 TTTATGGATTATAG-A
1 TTTAGGGATTAT-GTA
*
48766355 TTTAGGGATTATGTG
1 TTTAGGGATTATGTA
48766370 TTTAGGGATTATG
1 TTTAGGGATTATG
48766383 GTTTATGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 1 0.04
15 24 0.96
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (15 bp):
TTTAGGGATTATGTA
Found at i:48766691 original size:26 final size:26
Alignment explanation
Indices: 48766591--48766684 Score: 145
Period size: 26 Copynumber: 3.6 Consensus size: 26
48766581 TAAAGATTTA
48766591 AAGATTTCAAA-TTTAGAATAATTTTC
1 AAGATTTCAAATTTTA-AATAATTTTC
* *
48766617 AAGAATTAAAATTTTAAATAATTTTC
1 AAGATTTCAAATTTTAAATAATTTTC
48766643 AAGATTTCAAATTTTAAATAATTTTC
1 AAGATTTCAAATTTTAAATAATTTTC
*
48766669 AATATTTCAAATTTTA
1 AAGATTTCAAATTTTA
48766685 TCTAATTCTT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 58 0.94
27 4 0.06
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (26 bp):
AAGATTTCAAATTTTAAATAATTTTC
Found at i:48767341 original size:13 final size:13
Alignment explanation
Indices: 48767323--48767356 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
48767313 ACCTTAAGCG
48767323 TTTTCCTCTAAAA
1 TTTTCCTCTAAAA
*
48767336 TTTTCCCCTAAAA
1 TTTTCCTCTAAAA
48767349 TTTTCCTC
1 TTTTCCTC
48767357 CTAACCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTTCCTCTAAAA
Found at i:48769041 original size:34 final size:34
Alignment explanation
Indices: 48769003--48769072 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
48768993 ATTAAATTAC
*
48769003 TTTTT-AAAAATTATT-TTATTTTATTTTATTTTTA
1 TTTTTCAAAAATTATTATTA-TTT-TTATATTTTTA
* *
48769037 TTTTTCACAATTTATTATTATTTTTATATTTTTA
1 TTTTTCAAAAATTATTATTATTTTTATATTTTTA
48769071 TT
1 TT
48769073 GAAAATACGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
34 17 0.55
35 11 0.35
36 3 0.10
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (34 bp):
TTTTTCAAAAATTATTATTATTTTTATATTTTTA
Found at i:48769757 original size:67 final size:67
Alignment explanation
Indices: 48769649--48769786 Score: 258
Period size: 67 Copynumber: 2.1 Consensus size: 67
48769639 CTCAATTTAT
* *
48769649 AATGGCAAACCACATAGACAACTAAGATTAGCCGTTGGAGTAGCAAGTAGCATGCTTTACATCAT
1 AATGGCAAACCACATAGACAACTAAGATTAGCCATTGGAGTAGCAACTAGCATGCTTTACATCAT
48769714 AA
66 AA
48769716 AATGGCAAACCACATAGACAACTAAGATTAGCCATTGGAGTAGCAACTAGCATGCTTTACATCAT
1 AATGGCAAACCACATAGACAACTAAGATTAGCCATTGGAGTAGCAACTAGCATGCTTTACATCAT
48769781 AA
66 AA
48769783 AATG
1 AATG
48769787 CAGGTGTATG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (67 bp):
AATGGCAAACCACATAGACAACTAAGATTAGCCATTGGAGTAGCAACTAGCATGCTTTACATCAT
AA
Found at i:48770655 original size:15 final size:15
Alignment explanation
Indices: 48770637--48770691 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
48770627 ATTTGGATTA
*
48770637 ATTTATTTAAATATT
1 ATTTAATTAAATATT
48770652 ATTTAATTAATATAATT
1 ATTTAATTAA-AT-ATT
48770669 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
48770681 ATTTAATTAAA
1 ATTTAATTAAA
48770692 ATAATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 3 0.09
13 5 0.15
14 4 0.12
15 14 0.41
16 5 0.15
17 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:48770667 original size:29 final size:29
Alignment explanation
Indices: 48770635--48770700 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
48770625 TAATTTGGAT
*
48770635 TAATTTATT-TAAATATTATTTAATTAATA
1 TAATTT-TTATAAATATTATTTAATTAAAA
48770664 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTTATAAATATTATTTAATTAAAA
48770693 TAATTTTT
1 TAATTTTT
48770701 TTCCATGTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 2 0.06
29 33 0.94
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TAATTTTTATAAATATTATTTAATTAAAA
Found at i:48770673 original size:20 final size:20
Alignment explanation
Indices: 48770614--48770673 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
48770604 TCAATCTTAT
**
48770614 TTTAATTAATATAATTTGGA
1 TTTAATTAATATAATTTTTA
* * * *
48770634 -TTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTTTA
48770653 TTTAATTAATATAATTTTTA
1 TTTAATTAATATAATTTTTA
48770673 T
1 T
48770674 AAATATTATT
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTAATTAATATAATTTTTA
Found at i:48770923 original size:9 final size:9
Alignment explanation
Indices: 48770906--48771001 Score: 138
Period size: 9 Copynumber: 10.7 Consensus size: 9
48770896 TATATACTTG
48770906 AACTTACAT
1 AACTTACAT
*
48770915 AACTCACAT
1 AACTTACAT
48770924 AACTTACAT
1 AACTTACAT
*
48770933 AACTTATAT
1 AACTTACAT
48770942 AACTTACAT
1 AACTTACAT
48770951 AACTTACAT
1 AACTTACAT
*
48770960 AACTCACAT
1 AACTTACAT
* *
48770969 AACTCACAG
1 AACTTACAT
*
48770978 AACTTACAG
1 AACTTACAT
48770987 AACTTACAT
1 AACTTACAT
48770996 AACTTA
1 AACTTA
48771002 ATTATACTTA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 79 1.00
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (9 bp):
AACTTACAT
Found at i:48776519 original size:21 final size:21
Alignment explanation
Indices: 48776493--48776572 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
48776483 AGAGCGAGAA
*
48776493 GGAGGCAGCGATAGCAGTGAG
1 GGAGGCAGCGACAGCAGTGAG
**
48776514 GGAGGCAGCGACAGCAACGAG
1 GGAGGCAGCGACAGCAGTGAG
48776535 GGAGGCAGCGACAGCAGTGAG
1 GGAGGCAGCGACAGCAGTGAG
* *
48776556 GGAGGCAGAGGCAGCAG
1 GGAGGCAGCGACAGCAG
48776573 CGATGGTAGC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.30, C:0.19, G:0.47, T:0.04
Consensus pattern (21 bp):
GGAGGCAGCGACAGCAGTGAG
Found at i:48778701 original size:17 final size:18
Alignment explanation
Indices: 48778679--48778714 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
48778669 TAATCTTGTT
48778679 TTAATAAATTAATA-GCA
1 TTAATAAATTAATATGCA
*
48778696 TTAATAATTTAATATGCA
1 TTAATAAATTAATATGCA
48778714 T
1 T
48778715 ATATTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAATAAATTAATATGCA
Found at i:48781642 original size:43 final size:43
Alignment explanation
Indices: 48781495--48781651 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
48781485 TATGTGTTCT
* * * *
48781495 CGTGTAAGACCACGTCTGGGA-TGTTGGCATTGATATGTGATTA
1 CGTGTAAGACCACGTCTGGGACAG-TGGCATCGATATATGACTA
** * * *
48781538 CGTGTAAGACCATTTTTGGGACA-TCAGCATCG-TATTTGACT-
1 CGTGTAAGACCACGTCTGGGACAGT-GGCATCGATATATGACTA
** *
48781579 CGTGTAAGACCTTGTGTGGGACAGTGGCATCGATATATGA-TA
1 CGTGTAAGACCACGTCTGGGACAGTGGCATCGATATATGACTA
* *
48781621 GCATGTAAGACCACGTCTGGGACATTGGCAT
1 -CGTGTAAGACCACGTCTGGGACAGTGGCAT
48781652 TGTACGATAT
Statistics
Matches: 90, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
41 27 0.30
42 15 0.17
43 48 0.53
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACAGTGGCATCGATATATGACTA
Found at i:48784340 original size:24 final size:24
Alignment explanation
Indices: 48784308--48784418 Score: 204
Period size: 24 Copynumber: 4.6 Consensus size: 24
48784298 AATCTCAAAT
48784308 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
48784332 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
48784356 GCAGTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
48784380 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
48784404 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
48784419 ACAAAATAAG
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 83 1.00
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:48784431 original size:48 final size:48
Alignment explanation
Indices: 48784308--48784440 Score: 160
Period size: 48 Copynumber: 2.8 Consensus size: 48
48784298 AATCTCAAAT
*** * *
48784308 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGACAAAATATAGCACTATGTGTGCGATTTACTATG
* *** *
48784356 GCAGTATGTGTGCGATTTACTATAGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGACAAAATATAGCACTATGTGTGCGATTTACTATG
48784404 GCACTATGTGTGCGAACAAAATA-AGCACTATGTGTGC
1 GCACTATGTGTGCG-ACAAAATATAGCACTATGTGTGC
48784441 AACGTTTGGT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
48 73 0.95
49 4 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGACAAAATATAGCACTATGTGTGCGATTTACTATG
Found at i:48788949 original size:27 final size:28
Alignment explanation
Indices: 48788892--48788961 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
48788882 AAATTTGTAC
**
48788892 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
48788920 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
48788947 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48788962 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:48788970 original size:27 final size:27
Alignment explanation
Indices: 48788892--48788973 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
48788882 AAATTTGTAC
* *
48788892 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
48788920 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
48788947 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
48788974 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:48796869 original size:27 final size:28
Alignment explanation
Indices: 48796812--48796881 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
48796802 AAATTTGTAC
**
48796812 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
48796840 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
48796867 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
48796882 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:48796890 original size:27 final size:27
Alignment explanation
Indices: 48796812--48796893 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
48796802 AAATTTGTAC
* *
48796812 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
48796840 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
48796867 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
48796894 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:48810407 original size:2 final size:2
Alignment explanation
Indices: 48810400--48810432 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
48810390 GAGACTAGTC
48810400 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48810433 CATGTCATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48818064 original size:37 final size:37
Alignment explanation
Indices: 48818022--48818102 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
48818012 CGGGGTTTTA
* *
48818022 ACCCGGATAAAATCTCCACACGTGGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
*
48818059 ACCCGGACAGAATCTCCACACGTAGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
48818096 ACCCGGA
1 ACCCGGA
48818103 ATATATTTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.21
Consensus pattern (37 bp):
ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
Found at i:48818376 original size:48 final size:48
Alignment explanation
Indices: 48818261--48818386 Score: 180
Period size: 48 Copynumber: 2.6 Consensus size: 48
48818251 TATTGCACAA
* ** *
48818261 TAGCCATTCGGCTTTACCAAATATACATCCCTCATACATATTTCATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
* *
48818309 TAGCCATTTGGCTTTACCACATATACATATCTCATACATGTCTCATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
* *
48818357 TAGCCATTCGGCTTTACCACACATATATAT
1 TAGCCATTCGGCTTTACCACATATACATAT
48818387 ATTTACCTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 69 1.00
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
Found at i:48829875 original size:55 final size:55
Alignment explanation
Indices: 48829803--48829934 Score: 203
Period size: 55 Copynumber: 2.4 Consensus size: 55
48829793 ACACTTAAAA
* *
48829803 TTTT-AAGTCATTGTTGTACACGGGAAGGCCACACGGGCGTGTGCCATGGCCGTG
1 TTTTAAAGTCAGTGTTGTACACGGGAAGGCCACACGGGCGTATGCCATGGCCGTG
* * *
48829857 TTTTAAAGTCAGTATTGTACACTGGTAGGCCACACGGGCGTATGCCATGGCCGTG
1 TTTTAAAGTCAGTGTTGTACACGGGAAGGCCACACGGGCGTATGCCATGGCCGTG
*
48829912 TTTTAAAGTCAGTGTTGCACACG
1 TTTTAAAGTCAGTGTTGTACACG
48829935 AGATAAGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
54 4 0.06
55 65 0.94
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (55 bp):
TTTTAAAGTCAGTGTTGTACACGGGAAGGCCACACGGGCGTATGCCATGGCCGTG
Found at i:48840596 original size:24 final size:23
Alignment explanation
Indices: 48840550--48840596 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
48840540 AAAATGACCA
*
48840550 AAAAATAATATACTTATTTATAG
1 AAAAATAATATAATTATTTATAG
* *
48840573 AAAAATATTATAATTTTTTCATAG
1 AAAAATAATATAATTATTT-ATAG
48840597 CTTATTTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
AAAAATAATATAATTATTTATAG
Found at i:48844245 original size:24 final size:23
Alignment explanation
Indices: 48844199--48844245 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
48844189 AAAATGACCA
*
48844199 AAAAATAATATACTTATTTATAG
1 AAAAATAATATAATTATTTATAG
* *
48844222 AAAAATATTATAATTTTTTCATAG
1 AAAAATAATATAATTATTT-ATAG
48844246 CTTATTTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
AAAAATAATATAATTATTTATAG
Found at i:48846033 original size:23 final size:23
Alignment explanation
Indices: 48846003--48846048 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
48845993 TTCAACAATG
48846003 AGACAATCTCTCCAATTATTGTC
1 AGACAATCTCTCCAATTATTGTC
48846026 AGACAATCTCTCCAATTATTGTC
1 AGACAATCTCTCCAATTATTGTC
48846049 TTCCTTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (23 bp):
AGACAATCTCTCCAATTATTGTC
Found at i:48846849 original size:23 final size:23
Alignment explanation
Indices: 48846802--48846849 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
48846792 CATTTGTTGG
** *
48846802 TAAAATATTTATATTTTATATTA
1 TAAAATATTTATAAATTATAATA
*
48846825 TAAAATATTTATAAATTGTAATA
1 TAAAATATTTATAAATTATAATA
48846848 TA
1 TA
48846850 TATTTATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TAAAATATTTATAAATTATAATA
Found at i:48846982 original size:34 final size:36
Alignment explanation
Indices: 48846944--48847019 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 36
48846934 TTATTACTAA
*
48846944 AATAAATTTGTAAT-ATTAAATAATTTAATA-AAAT
1 AATAAATTTGTAATAATTAAATAATTAAATACAAAT
* * *
48846978 AATAAA-TTGTATTAATTATATTATTAAATACAAAT
1 AATAAATTTGTAATAATTAAATAATTAAATACAAAT
48847013 AATAAAT
1 AATAAAT
48847020 ACGTATGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 6 0.17
34 19 0.54
35 10 0.29
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (36 bp):
AATAAATTTGTAATAATTAAATAATTAAATACAAAT
Found at i:48857264 original size:47 final size:47
Alignment explanation
Indices: 48857210--48857406 Score: 234
Period size: 47 Copynumber: 4.1 Consensus size: 47
48857200 TTAGGATTTT
** * *
48857210 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
48857257 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
48857304 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
48857351 ATGTGA-AATATGTATGAGATATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGA-ATG--TGA-ACATGCATATATGTGATAAGGCCGAATGGCCA
48857401 ATGTGA
1 ATGTGA
48857407 AATATATATA
Statistics
Matches: 133, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
46 1 0.01
47 94 0.71
49 3 0.02
50 35 0.26
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:48857285 original size:25 final size:25
Alignment explanation
Indices: 48857257--48857333 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
48857247 CGAATGGCCA
48857257 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
48857282 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
*
48857304 ATGTGATGAATATGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
48857329 ATGTG
1 ATGTG
48857334 GTAAAGCCGA
Statistics
Matches: 38, Mismatches: 7, Indels: 14
0.64 0.12 0.24
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 9 0.24
25 13 0.34
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:48857310 original size:22 final size:22
Alignment explanation
Indices: 48857239--48857310 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
48857229 GTATATATGA
48857239 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
48857261 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
48857286 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
48857308 GAT
1 GAT
48857311 GAATATGAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:48857387 original size:50 final size:50
Alignment explanation
Indices: 48857274--48857461 Score: 228
Period size: 50 Copynumber: 3.8 Consensus size: 50
48857264 GAATGTGAAC
* * * *
48857274 ATGCATATATGTGATAAGGCCGAATGGCCAATGTG--ATGA-ATATGA-AC
1 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATATATGAGAT
*
48857321 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
48857371 ATGCATATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGAT
1 ATGCATATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGAT
* *
48857423 ATG--TATATGTGGTAAAGCCAAATGGCTAGTGTGAAATAT
1 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
48857462 GTAGGCGATG
Statistics
Matches: 125, Mismatches: 8, Indels: 15
0.84 0.05 0.10
Matches are distributed among these distances:
47 32 0.26
48 5 0.04
49 10 0.08
50 60 0.48
51 3 0.02
52 15 0.12
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (50 bp):
ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAT
Found at i:48857457 original size:100 final size:96
Alignment explanation
Indices: 48857274--48857464 Score: 258
Period size: 100 Copynumber: 1.9 Consensus size: 96
48857264 GAATGTGAAC
*
48857274 ATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGTGGTAAA
1 ATGCATATATGTGATAAAGCCGAATGGCCAATGTGATGAATATGAACATG-ATATATGTGGTAAA
*
48857339 GCCGAATGGCTAATGTGAAATATGTATGAGAT
65 GCCAAATGGCTAATGTGAAATATGTATGAGAT
* * * *
48857371 ATGCATATATGTGGTAAAGCCGAATGGTCAATGTGAAATATATATATGAGATATG-TATATGTGG
1 ATGCATATATGTGATAAAGCCGAATGGCCAATGTG--AT-GA-ATATGA-ACATGATATATGTGG
*
48857435 TAAAGCCAAATGGCTAGTGTGAAATATGTA
61 TAAAGCCAAATGGCTAATGTGAAATATGTA
48857465 GGCGATGTGC
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
97 32 0.39
99 2 0.02
100 38 0.46
101 6 0.07
102 4 0.05
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (96 bp):
ATGCATATATGTGATAAAGCCGAATGGCCAATGTGATGAATATGAACATGATATATGTGGTAAAG
CCAAATGGCTAATGTGAAATATGTATGAGAT
Found at i:48857479 original size:50 final size:50
Alignment explanation
Indices: 48857274--48857485 Score: 204
Period size: 50 Copynumber: 4.3 Consensus size: 50
48857264 GAATGTGAAC
* * * * * *
48857274 ATGCATATATGTGATAAGGCCGAATGGCCAATGTG--ATGA-ATATGA-AC
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT-ATGTATGAGAT
*
48857321 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
* *
48857371 ATGCATATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGAT
* * * *
48857423 AT--GTATATGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTAGGCGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
48857471 GTGCGTATATTGTGG
1 ATGCGTATA-TGTGG
48857486 CCGAACGACC
Statistics
Matches: 141, Mismatches: 13, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
47 32 0.23
48 12 0.09
49 10 0.07
50 65 0.46
51 8 0.06
52 14 0.10
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (50 bp):
ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
Found at i:48857718 original size:37 final size:37
Alignment explanation
Indices: 48857610--48857718 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
48857600 GGAAATATAT
*
48857610 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
48857647 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
48857684 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
48857719 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:48860233 original size:142 final size:142
Alignment explanation
Indices: 48859977--48860260 Score: 523
Period size: 142 Copynumber: 2.0 Consensus size: 142
48859967 GCTGCTAAGG
* *
48859977 ATATTTGGGCTTAGGTTAATCAAGGTAAGTATATTTCTATTTTTTTTTCAATTCCTACTCAAGAC
1 ATATTTGGGCTCAGGTTAATCAAGGTAAGTATATTTCTATTTTTTTTTCAATTCCCACTCAAGAC
48860042 TGGATTCTTCTTAATTTACAGGTAAATAGGTTGATCCATGCGAGAGGAGCTAATTAGGCTTGTTT
66 TGGATTCTTCTTAATTTACAGGTAAATAGGTTGATCCATGCGAGAGGAGCTAATTAGGCTTGTTT
48860107 ATTTGGTCTTCT
131 ATTTGGTCTTCT
48860119 ATATTTGGGCTCAGGTTAATCAAGGTAAGTATATTTCTATTTTTTTTTCAATTCCCACTCAAGAC
1 ATATTTGGGCTCAGGTTAATCAAGGTAAGTATATTTCTATTTTTTTTTCAATTCCCACTCAAGAC
* * *
48860184 TGGATTCTTCTTAATTTATAGGTAAATAGGTTGATCCATGCGGGAGGAGCTAATTGGGCTTGTTT
66 TGGATTCTTCTTAATTTACAGGTAAATAGGTTGATCCATGCGAGAGGAGCTAATTAGGCTTGTTT
48860249 ATTTGGTCTTCT
131 ATTTGGTCTTCT
48860261 TATGTGGCGT
Statistics
Matches: 137, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 137 1.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.42
Consensus pattern (142 bp):
ATATTTGGGCTCAGGTTAATCAAGGTAAGTATATTTCTATTTTTTTTTCAATTCCCACTCAAGAC
TGGATTCTTCTTAATTTACAGGTAAATAGGTTGATCCATGCGAGAGGAGCTAATTAGGCTTGTTT
ATTTGGTCTTCT
Found at i:48862771 original size:12 final size:12
Alignment explanation
Indices: 48862749--48862781 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48862739 AAAAATTGAA
48862749 ATTTT-ATTTTG
1 ATTTTAATTTTG
48862760 ATTTTAATTTTG
1 ATTTTAATTTTG
*
48862772 ATTCTAATTT
1 ATTTTAATTT
48862782 ATGTAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (12 bp):
ATTTTAATTTTG
Found at i:48867077 original size:22 final size:22
Alignment explanation
Indices: 48867049--48867092 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
48867039 CGTTAAGCCT
48867049 GCTAGGTTTAAACCCCGAATTC
1 GCTAGGTTTAAACCCCGAATTC
48867071 GCTAGGTTTAAACCCCGAATTC
1 GCTAGGTTTAAACCCCGAATTC
48867093 AATCACCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (22 bp):
GCTAGGTTTAAACCCCGAATTC
Found at i:48867169 original size:39 final size:39
Alignment explanation
Indices: 48867106--48867524 Score: 541
Period size: 39 Copynumber: 10.7 Consensus size: 39
48867096 CACCAACACA
* * * * * * *
48867106 AAGCCTACGGGACTTTAAGCCCGGATATAGTACCAGTACG
1 AAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACG
* * * *
48867146 AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
*
48867185 AAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* * *
48867224 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACG
1 AAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACG
48867264 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* * * * * *
48867303 AAGCCTGCAGACCTTAAGTCCGAATATAGTACCAGTACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* * *
48867342 AAGCCTTCGGATCTTAAGTCCAGATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* * * *
48867381 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATG
1 AAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACG
*
48867421 AAGCCTGCGGACCTTAAGTCTGGATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
*
48867460 AAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
48867499 AAGCCTGCGGACCTTAAGTCCGGATA
1 AAGCCTGCGGACCTTAAGTCCGGATA
48867525 TACATCAAAT
Statistics
Matches: 332, Mismatches: 45, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
39 257 0.77
40 75 0.23
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (39 bp):
AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
Found at i:48867277 original size:118 final size:118
Alignment explanation
Indices: 48867106--48867524 Score: 556
Period size: 118 Copynumber: 3.6 Consensus size: 118
48867096 CACCAACACA
* * * * *
48867106 AAGCCTACGGGACTTTAAGCCCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGCGGGACTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
* * * *
48867171 ATAGTACCAGTACGAAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGCACG
66 ACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGCACG
*
48867224 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGCGGGACTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
* * * * *
48867289 ACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGAATATAGTACCAGTACG
66 ACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGCACG
* * * * * *
48867342 AAGCCTTC-GGA-TCTTAAGTCCAGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGG
1 AAGCCTGCGGGACT-TTAAGCCCGGATACAATTCCAGCACGAAGCCTGC-GGACCTTAAGTCCGG
* * *
48867405 ATACAATTCCAGCATGAAGCCTGCGGACCTTAAGTCTGGATACAATTCCAGCACG
64 ATACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGCACG
* * *
48867460 AAGCCTGC-AGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGCGGGACTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
48867524 A
66 A
48867525 TACATCAAAT
Statistics
Matches: 261, Mismatches: 37, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
116 1 0.00
117 49 0.19
118 211 0.81
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (118 bp):
AAGCCTGCGGGACTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGAT
ACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGCACG
Found at i:48867341 original size:157 final size:157
Alignment explanation
Indices: 48867106--48867524 Score: 658
Period size: 157 Copynumber: 2.7 Consensus size: 157
48867096 CACCAACACA
* * * * * * * *
48867106 AAGCCTACGGGACTTTAAGCCCGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGAT
1 AAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGGAT
*
48867171 ATAGTACCAGTACGAAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
65 ATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGT
48867236 CTTTAAGCCCGGATACAATTCCAGCACG
130 CTTTAAGCCCGGATACAATTCCAGCACG
*
48867264 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGAATA
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGGATA
* * *
48867329 TAGTACCAGTACGAAGCCTTCGGATCTTAAGTCCAGATACAATTCCAGCACGAAGCCTGCGGGTC
66 TAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTC
*
48867394 TTTAAGCCCGGATACAATTCCAGCATG
131 TTTAAGCCCGGATACAATTCCAGCACG
*
48867421 AAGCCTGCGGACCTTAAGTCTGGATACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGGATA
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGGATA
* * * *
48867486 CAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATA
66 TAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGATA
48867525 TACATCAAAT
Statistics
Matches: 238, Mismatches: 23, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
157 231 0.97
158 7 0.03
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (157 bp):
AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGGATA
TAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTC
TTTAAGCCCGGATACAATTCCAGCACG
Found at i:48871525 original size:39 final size:39
Alignment explanation
Indices: 48871462--48871918 Score: 628
Period size: 39 Copynumber: 11.7 Consensus size: 39
48871452 CACCAACACA
* * * * * * *
48871462 AAGCCTACGGGACTTTAAGCCCGGATATAGTACCAGTACG
1 AAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACG
* * * *
48871502 AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
*
48871541 AAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* * *
48871580 AAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACG
1 AAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACG
48871620 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* *
48871659 AAGCCTGCGGACCTTAAGCCCGAATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* * * *
48871698 AAGCCTGCGGACCTTAAGTCCGGATATAGTACCAGTACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
*
48871737 AAGCCTGCGGATCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
* * * * *
48871776 AAG-CTACGGGTCTTTAAGCCCGGATACAATTCCAGCATG
1 AAGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACG
48871815 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
*
48871854 AAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGCACG
1 AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
48871893 AAGCCTGCGGACCTTAAGTCCGGATA
1 AAGCCTGCGGACCTTAAGTCCGGATA
48871919 TACATCAAAT
Statistics
Matches: 373, Mismatches: 41, Indels: 7
0.89 0.10 0.02
Matches are distributed among these distances:
38 3 0.01
39 325 0.87
40 45 0.12
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.19
Consensus pattern (39 bp):
AAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACG
Found at i:48874897 original size:35 final size:35
Alignment explanation
Indices: 48874851--48874921 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
48874841 CACTTGCCTC
48874851 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
*
48874886 TTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
48874921 T
1 T
48874922 CACACACCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.15, C:0.48, G:0.13, T:0.24
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:48875367 original size:33 final size:33
Alignment explanation
Indices: 48875325--48875398 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
48875315 AGAGGGGAAG
*
48875325 CAAAAAAAAAAATCCAGCAAAAAA-TTCCAGCA
1 CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
**
48875357 CCAAAAAAAAATTTCCAGAAAAAAATTTCCAGCA
1 -CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
48875391 -AAAAAAAA
1 CAAAAAAAA
48875399 CCAAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 8 0.22
33 21 0.57
34 8 0.22
ACGTcount: A:0.64, C:0.19, G:0.05, T:0.12
Consensus pattern (33 bp):
CAAAAAAAAAAATCCAGAAAAAAATTTCCAGCA
Found at i:48875683 original size:11 final size:11
Alignment explanation
Indices: 48875654--48875703 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
48875644 CGACCGGATT
* *
48875654 TCCCTTCCCCC
1 TCCCTTCTCTC
48875665 TCCCTTCTCTC
1 TCCCTTCTCTC
48875676 TCCCTTCTCTC
1 TCCCTTCTCTC
48875687 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
48875698 TTCCTT
1 TCCCTT
48875704 TTTTTCTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:48876255 original size:20 final size:21
Alignment explanation
Indices: 48876220--48876271 Score: 88
Period size: 20 Copynumber: 2.5 Consensus size: 21
48876210 TCATTTCTAA
48876220 TATGTATATATATATATATAT
1 TATGTATATATATATATATAT
*
48876241 TATGTGTAT-TATATATATAT
1 TATGTATATATATATATATAT
48876261 TATGTATATAT
1 TATGTATATAT
48876272 GCCATTAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (21 bp):
TATGTATATATATATATATAT
Found at i:48888766 original size:70 final size:70
Alignment explanation
Indices: 48888588--48889394 Score: 1281
Period size: 70 Copynumber: 11.2 Consensus size: 70
48888578 CAAGTGACAG
* *
48888588 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTTAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
48888653 GTTTC
66 GTTTC
48888658 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTA
48888723 TGTTTC
65 TGTTTC
*
48888729 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
48888794 GTTTC
66 GTTTC
*
48888799 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
48888864 AATTTATGTTTC
59 AATTTATGTTTC
* * *
48888876 AAAATCAACTCATATGGTGAAAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
48888941 GTTTC
66 GTTTC
*
48888946 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
48889011 GTTTC
66 GTTTC
* *
48889016 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
48889081 AATTTATGTTTC
59 AATTTATGTTTC
*
48889093 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
48889158 GTTTC
66 GTTTC
*
48889163 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
48889228 GTTTC
66 GTTTC
*
48889233 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
48889298 AATTTATGTTTC
59 AATTTATGTTTC
*
48889310 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
48889375 GTTTC
66 GTTTC
48889380 AAAAATCAACTCATA
1 -AAAATCAACTCATA
48889395 GGTGAGTTGA
Statistics
Matches: 689, Mismatches: 25, Indels: 44
0.91 0.03 0.06
Matches are distributed among these distances:
70 397 0.58
71 88 0.13
72 3 0.00
75 3 0.00
76 6 0.01
77 192 0.28
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:48888924 original size:147 final size:140
Alignment explanation
Indices: 48888588--48889394 Score: 1281
Period size: 147 Copynumber: 5.6 Consensus size: 140
48888578 CAAGTGACAG
* *
48888588 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTTAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
48888653 GTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
66 GTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
48888718 ATTTATGTTTC
130 ATTTATGTTTC
*
48888729 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
48888794 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA
48888859 TTTTCAATTTATGTTTC
125 -TTTCAATTTATGTTTC
* * *
48888876 AAAATCAACTCATATGGTGAAAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
48888941 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
48889006 TTTATGTTTC
131 TTTATGTTTC
* *
48889016 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
*
48889081 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
59 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
48889146 ATTTCAATTTATGTTTC
124 ATTTCAATTTATGTTTC
*
48889163 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
48889228 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA
48889293 TTTTCAATTTATGTTTC
125 -TTTCAATTTATGTTTC
*
48889310 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
48889375 GTTTCAAAAATCAACTCATA
66 GTTTC-AAAATCAACTCATA
48889395 GGTGAGTTGA
Statistics
Matches: 622, Mismatches: 22, Indels: 37
0.91 0.03 0.05
Matches are distributed among these distances:
140 179 0.29
141 71 0.11
142 2 0.00
145 3 0.00
146 6 0.01
147 347 0.56
148 14 0.02
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (140 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTC
Found at i:48888957 original size:217 final size:217
Alignment explanation
Indices: 48888588--48889394 Score: 1484
Period size: 217 Copynumber: 3.7 Consensus size: 217
48888578 CAAGTGACAG
* * *
48888588 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTTAAGACACGTTGAGG-----T-AA-TTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
48888646 AATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
66 AATTTATGTTTC-AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGT
48888711 AATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
130 AATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTT
48888776 GAGGTAATTTCAATTTATGTTTC
195 GAGGTAATTTCAATTTATGTTTC
48888799 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
* *
48888864 AATTTATGTTTCAAAATCAACTCATATGGTGAAAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
48888929 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
48888994 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
*
48889016 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
48889081 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
48889146 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
48889211 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
48889233 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
48889298 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
48889363 ATTTCAATTTATGTTTCAAAAATCAACTCATA
131 ATTTCAATTTATGTTTC-AAAATCAACTCATA
48889395 GGTGAGTTGA
Statistics
Matches: 578, Mismatches: 10, Indels: 9
0.97 0.02 0.02
Matches are distributed among these distances:
211 48 0.08
216 1 0.00
217 499 0.86
218 30 0.05
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (217 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
AGGTAATTTCAATTTATGTTTC
Found at i:48889448 original size:147 final size:142
Alignment explanation
Indices: 48888588--48889495 Score: 982
Period size: 147 Copynumber: 6.3 Consensus size: 142
48888578 CAAGTGACAG
* *
48888588 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTTAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
* *
48888653 GTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-A
66 GTTTC-AAAATCAACTCA-ATT----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCA
48888712 ATTT-CAATTTATGTTTC
125 ATTTCCAATTTATGTTTC
*
48888729 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
48888794 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCA-ATT----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAA
*
48888859 TTTTCAATTTATGTTTC
126 TTTCCAATTTATGTTTC
* * *
48888876 AAAATCAACTCATATGGTGAAAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
* * *
48888941 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGG-----T-AA
66 GTTTCAAAATCAACTCA-ATT----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAA
48889000 TTT-CAATTTATGTTTC
126 TTTCCAATTTATGTTTC
* *
48889016 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
* * *
48889081 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG--
59 AATTTATGTTTCAAAATCAACTCA-AT----TGAGGTGAGTTGAGCCTCAAAACACGCTGAGGTA
48889144 ---T-AATTT-CAATTTATGTTTC
119 ATTTCAATTTCCAATTTATGTTTC
*
48889163 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
48889228 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCA-ATT----GAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAA
*
48889293 TTTTCAATTTATGTTTC
126 TTTCCAATTTATGTTTC
*
48889310 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
**** *
48889375 GTTTCAAAAATCAACTC-A-T-AGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAGTCTC
66 GTTTC-AAAATCAACTCAATTGAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCA-----
* *
48889437 TACTTTCCAATTCCTGTTTTTC
125 -A-TTTCCAATT--TATGTTTC
*
48889459 AAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
48889496 GTTAATTTCT
Statistics
Matches: 694, Mismatches: 33, Indels: 71
0.87 0.04 0.09
Matches are distributed among these distances:
140 204 0.29
141 74 0.11
142 2 0.00
145 4 0.01
146 14 0.02
147 345 0.50
148 11 0.02
149 6 0.01
150 34 0.05
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (142 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCAATTGAGGTGAGTTGAGCCTCAAAACACGCTGAGGTAATTTCAATTTCC
AATTTATGTTTC
Found at i:48889537 original size:54 final size:52
Alignment explanation
Indices: 48889445--48889599 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 52
48889435 TCTACTTTCC
* *
48889445 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
* *
48889499 AATTTCTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTT
**
48889550 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
48889599 A
1 A
48889600 GGTCATATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
47 1 0.01
48 38 0.43
49 4 0.04
51 1 0.01
54 44 0.49
55 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:48890352 original size:35 final size:35
Alignment explanation
Indices: 48890306--48890411 Score: 185
Period size: 35 Copynumber: 3.0 Consensus size: 35
48890296 CACTTGCCTC
48890306 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
*
48890341 TTCCCACTCTCCCATGCTGTCTGCCATCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
48890376 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
48890411 T
1 T
48890412 CACACACCCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.16, C:0.48, G:0.12, T:0.24
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:48890865 original size:14 final size:15
Alignment explanation
Indices: 48890848--48890883 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
48890838 CCAACACCAA
48890848 AAAAAAATTTCCAG-
1 AAAAAAATTTCCAGC
48890862 AAAAAAATTTCCAGC
1 AAAAAAATTTCCAGC
48890877 AAAAAAA
1 AAAAAAA
48890884 AAACCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.64, C:0.14, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAAAAATTTCCAGC
Found at i:48890882 original size:32 final size:28
Alignment explanation
Indices: 48890812--48890896 Score: 82
Period size: 32 Copynumber: 2.9 Consensus size: 28
48890802 AAAAGAGGGA
*
48890812 AGCAAAAAAAAAATCCAGCAAAAATTCC
1 AGCAAAAAAAAAATCCAGAAAAAATTCC
*
48890840 AACACCAAAAAAAAATTTCCAGAAAAAAATTTCC
1 AGCA--AAAAAAAAA--TCCAG-AAAAAA-TTCC
*
48890874 AGCAAAAAAAAAA-CCAAAAAAAA
1 AGCAAAAAAAAAATCCAGAAAAAA
48890897 AAATAGAACG
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
28 9 0.19
29 3 0.06
30 9 0.19
32 14 0.30
33 5 0.11
34 7 0.15
ACGTcount: A:0.66, C:0.19, G:0.05, T:0.11
Consensus pattern (28 bp):
AGCAAAAAAAAAATCCAGAAAAAATTCC
Found at i:48891175 original size:11 final size:11
Alignment explanation
Indices: 48891146--48891195 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
48891136 CGACCGGATT
* *
48891146 TCCCTTCCCCC
1 TCCCTTCTCTC
48891157 TCCCTTCTCTC
1 TCCCTTCTCTC
48891168 TCCCTTCTCTC
1 TCCCTTCTCTC
48891179 TTCCC-TCTCTC
1 -TCCCTTCTCTC
*
48891190 TTCCTT
1 TCCCTT
48891196 TTTTTCTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (11 bp):
TCCCTTCTCTC
Found at i:48891735 original size:22 final size:21
Alignment explanation
Indices: 48891719--48891768 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
48891709 AATATGTATA
*
48891719 TATATATATTTATATATTATG
1 TATATATATATATATATTATG
*
48891740 TGTATTATATATATATATTATG
1 TATA-TATATATATATATTATG
48891762 TATATAT
1 TATATAT
48891769 GCCATTAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
TATATATATATATATATTATG
Found at i:48891784 original size:2 final size:2
Alignment explanation
Indices: 48891710--48891768 Score: 52
Period size: 2 Copynumber: 31.0 Consensus size: 2
48891700 ATCATTTCTA
* * * *
48891710 AT AT GT AT AT AT AT AT AT TT AT AT AT -T AT GT GT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
48891750 AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
48891769 GCCATTAGTT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
1 3 0.07
2 43 0.93
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (2 bp):
AT
Found at i:48891947 original size:2 final size:2
Alignment explanation
Indices: 48891930--48891964 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
48891920 GTGTATATTT
* *
48891930 TA TA TA CA TA TG TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48891965 TTGCACATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:48896429 original size:41 final size:41
Alignment explanation
Indices: 48896372--48896452 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
48896362 ACATGGACTG
*
48896372 ATTCAATTGGATCAATGATTATATGATTAATTGT-ACAATTT
1 ATTCAATTGGATCAATGATTATATAATTAA-TGTCACAATTT
*
48896413 ATTCAATTGGATCAATGATTGTATAATTAATGTCACAATT
1 ATTCAATTGGATCAATGATTATATAATTAATGTCACAATT
48896453 AGCTAGTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 3 0.08
41 34 0.92
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (41 bp):
ATTCAATTGGATCAATGATTATATAATTAATGTCACAATTT
Found at i:48896930 original size:40 final size:41
Alignment explanation
Indices: 48896863--48896940 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
48896853 ATAGACTAAT
*
48896863 TCAATTGGATAAATGATTGTACGATTAATAT-ACAATTTAC
1 TCAATTGGATAAATGATTGTACAATTAATATCACAATTTAC
* * *
48896903 TCAATTGGATTATTGAATT-TACAATTAATGTCACAATT
1 TCAATTGGATAAATG-ATTGTACAATTAATATCACAATT
48896941 CATTGGACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 23 0.72
41 9 0.28
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (41 bp):
TCAATTGGATAAATGATTGTACAATTAATATCACAATTTAC
Found at i:48897181 original size:498 final size:493
Alignment explanation
Indices: 48896248--48898001 Score: 2036
Period size: 498 Copynumber: 3.5 Consensus size: 493
48896238 CAAGTGTCAC
* *
48896248 ATAAATACTCTTAAATTAATCAAATATTTGAAATTAAACATAAATGATCCAAAGTTTTGA-TATA
1 ATAAATACTCTTAAATTAATCAAATATTTGAAATTAAACATAGATGGTCCAAAGTTTT-ATTATA
** *
48896312 TTTCATGATATGATATTGAATTCTAAACATGTATACTCAATGTTGTGTTTACATGGACTGATTCA
65 TTTCAT-ATATGATATTGAATT-TAAACATGTATACT-AATGTTAAGTTTACATGGACTAATTCA
* * * * * * *
48896377 ATTGGATCAATGATTATATGATTAATTGTACAATTTATTCAATTGGATCAATGATTGTATAATTA
127 ATTGGATAAATGATTGTACGATTAATTATACAATTTATTCAATTGGATCATTGATTATACAATTA
48896442 ATGTCACAATTA---G-----CTAGTAATTAG-AGAAATATACAATTGATCAAAACTTTTAAAAA
192 ATGTCACAATTATTGGATTTCCTAGTAATTAGAAG-AATATACAATTGAT-AAAACTTTTAAAAA
** * * * * * * *
48896498 TACTTTTACACCACAATGTTATTACCTTCATACATAGATTCATTCAATTCGATCAACGATTGTAC
255 TACTTACACACTATAATGTCATCACCTTCATACATAGATTCATTCAATTAGATCAATGAGTGTAC
* * * * * * *
48896563 AAGTATTGTCATAACTCATTCAAATAAATTAGAAATCAGAAAAATGTAAAAGTGACCATTCCTCG
320 AACTAATGTCATAACTCATTCAAATACATTAGAAATTAGAAAAATGTAAAAGTGA-TATTACTCT
* * *
48896628 TCAAATTACTTGTACACCACAATGTTAGTACATTTGTATATAGACCCAATTCAATTGGTCCAATT
384 TCAAATTACTTGTACACCACAATGTTAGTACATTTATATATAGACCCAATTCAATTGGTTCAATG
* * * *
48896693 TCGTAATCATTCAATTACATTAGTGGTTAGAGGAATGCATAACTG
449 TCATAATCATTCAATTACGTTAGTAGTTAGAGGAATGCATAATTG
* * *
48896738 ATAAATACTCTTAAATTAATCAAATATTTGAAATTAATCATAGGTGGTCCATAGTTTTATTATAT
1 ATAAATACTCTTAAATTAATCAAATATTTGAAATTAAACATAGATGGTCCAAAGTTTTATTATAT
* *
48896803 TTCACTATATGATATTCAATTTAAACATGTATACTAGATGTTAAGTTTACATAGACTAATTCAAT
66 TTCA-TATATGATATTGAATTTAAACATGTATACTA-ATGTTAAGTTTACATGGACTAATTCAAT
* *
48896868 TGGATAAATGATTGTACGATTAA-TATACAATTTACTCAATTGGATTATTGAATT-TACAATTAA
129 TGGATAAATGATTGTACGATTAATTATACAATTTATTCAATTGGATCATTG-ATTATACAATTAA
48896931 TGTCACAATTCATTGGACTTTCCTAGTAATTAGAAGAATATACAATTGATAAATACTTTTAAAAA
193 TGTCACAATT-ATTGGA-TTTCCTAGTAATTAGAAGAATATACAATTGATAAA-ACTTTT-AAAA
*
48896996 ATACTTACACACTGTAATGTCATCACCTTCATACATAGATTCATTCAATTAGATCAATGAGTGTA
254 ATACTTACACACTATAATGTCATCACCTTCATACATAGATTCATTCAATTAGATCAATGAGTGTA
* *
48897061 CAATTAATGTAATAACTCATTCAAATACATTAGAAATTAGAAAAATGTAAAAGTGATATTACTCT
319 CAACTAATGTCATAACTCATTCAAATACATTAGAAATTAGAAAAATGTAAAAGTGATATTACTCT
* * *
48897126 TCAAATTACTTGTACGCCACAATGTTAGTATATTCATATATAGACCCAATTCAATTGGTTCAATG
384 TCAAATTACTTGTACACCACAATGTTAGTACATTTATATATAGACCCAATTCAATTGGTTCAATG
*
48897191 TCATAATCATTCAATTACGTTAGTAGTTATAGGAATGCATAATTG
449 TCATAATCATTCAATTACGTTAGTAGTTAGAGGAATGCATAATTG
* * *
48897236 ATAAATACTCTTAAATTAATCAAATGTTTGAAATTAAACATAGGTGGTCCAAAGTTTTAATATAT
1 ATAAATACTCTTAAATTAATCAAATATTTGAAATTAAACATAGATGGTCCAAAGTTTTATTATAT
* *
48897301 TTCACTATATGATATTGAATTTAAACATGTATACTAGATGTTAAGTTTATATGGACTAATTCATT
66 TTCA-TATATGATATTGAATTTAAACATGTATACTA-ATGTTAAGTTTACATGGACTAATTCAAT
* * * *
48897366 TGGATAAAT-ACTTGTACGACTAATTATACAATTTTTTCTATTGGATCATTGGA-TGTACAATTA
129 TGGATAAATGA-TTGTACGATTAATTATACAATTTATTCAATTGGATCATT-GATTATACAATTA
*
48897429 ATGTCACAATTCATTGGAATTTCCTAGTAATTAGAGGAATATACAATTG-----A----T--AAA
192 ATGTCACAATT-ATTGG-ATTTCCTAGTAATTAGAAGAATATACAATTGATAAAACTTTTAAAAA
*
48897483 TACTTACACACTATAATGTCATCACCTTCATACATAGATTCGTTCAATTAGATCAATGAGTGTAC
255 TACTTACACACTATAATGTCATCACCTTCATACATAGATTCATTCAATTAGATCAATGAGTGTAC
** * * * * * * *
48897548 AACTAATGTCATAACTCATGATCAGTTACGTTAG-TATTAGAGAAATGTACAATTAATCAATACT
320 AACTAATGTCATAACTCAT--TCAAATACATTAGAAATTAGAAAAATGTAAAAGTGAT-ATTACT
* *
48897612 CTTCAAATTACTTGTACACCACAATGTTAGTACATTTTATATATAGATCCGATTCAATTGGTTCA
382 CTTCAAATTACTTGTACACCACAATGTTAGTACA-TTTATATATAGACCCAATTCAATTGGTTCA
* * * *
48897677 ATGTCATAAGCATTCGA-TAGCGTTTGTAGTTGGAGGAATGCATAATTG
446 ATGTCATAATCATTCAATTA-CGTTAGTAGTTAGAGGAATGCATAATTG
* * * * *
48897725 ATAAATACTCTTAAATTGATCAAATATTTAAAATTAAACATTGATAGTCCAAACTTTTTATATAT
1 ATAAATACTCTTAAATTAATCAAATATTTGAAATTAAACATAGATGGTCCAAA-GTTTTAT-TAT
* * * * * ** * * ** *
48897790 TTTTGATATATGTTATTGAATTTCAAACATGTATATTTAATTTTGTGTTTATATGAACCGATTGA
64 ATTTCATATATGATATTGAATTT-AAACATGTATA-CTAATGTTAAGTTTACATGGACTAATTCA
* * * * * *
48897855 ATT-GATCAATGGTTGTACGA-TACATTATACAATTTATTCAGTTAGATTATTGGTTATACAATT
127 ATTGGATAAATGATTGTACGATTA-ATTATACAATTTATTCAATTGGATCATTGATTATACAATT
* * * * * * *
48897918 AATGCCATAGATTATTTGATTATGCTAATAATTAGAAGAATATACAATTCATTAATACTTTTAAA
191 AATGTCACA-ATTATTGGATT-TCCTAGTAATTAGAAGAATATACAATTGA-TAAAACTTTTAAA
* * *
48897983 AATACATATACATTATAAT
253 AATACTTACACACTATAAT
48898002 TTTTTAAAGT
Statistics
Matches: 1093, Mismatches: 123, Indels: 84
0.84 0.09 0.06
Matches are distributed among these distances:
486 83 0.08
487 18 0.02
488 91 0.08
489 184 0.17
490 177 0.16
491 43 0.04
492 3 0.00
493 1 0.00
496 1 0.00
497 4 0.00
498 279 0.26
499 189 0.17
500 3 0.00
502 17 0.02
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (493 bp):
ATAAATACTCTTAAATTAATCAAATATTTGAAATTAAACATAGATGGTCCAAAGTTTTATTATAT
TTCATATATGATATTGAATTTAAACATGTATACTAATGTTAAGTTTACATGGACTAATTCAATTG
GATAAATGATTGTACGATTAATTATACAATTTATTCAATTGGATCATTGATTATACAATTAATGT
CACAATTATTGGATTTCCTAGTAATTAGAAGAATATACAATTGATAAAACTTTTAAAAATACTTA
CACACTATAATGTCATCACCTTCATACATAGATTCATTCAATTAGATCAATGAGTGTACAACTAA
TGTCATAACTCATTCAAATACATTAGAAATTAGAAAAATGTAAAAGTGATATTACTCTTCAAATT
ACTTGTACACCACAATGTTAGTACATTTATATATAGACCCAATTCAATTGGTTCAATGTCATAAT
CATTCAATTACGTTAGTAGTTAGAGGAATGCATAATTG
Found at i:48899849 original size:28 final size:26
Alignment explanation
Indices: 48899818--48899889 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 26
48899808 ACAGGGCTCG
* * *
48899818 CATATAAGGTTTGCTTGTAAGGCTTGCA
1 CATATAAGGTTCGCATATAAGG-TT-CA
*
48899846 CATATAGGGTTCGCATATAAGGTTCA
1 CATATAAGGTTCGCATATAAGGTTCA
*
48899872 CACATAAGGTTC-CATATA
1 CATATAAGGTTCGCATATA
48899890 GTAATTCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
25 6 0.16
26 12 0.32
27 2 0.05
28 18 0.47
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.32
Consensus pattern (26 bp):
CATATAAGGTTCGCATATAAGGTTCA
Found at i:48899862 original size:13 final size:12
Alignment explanation
Indices: 48899846--48899889 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
48899836 AAGGCTTGCA
*
48899846 CATATAGGGTTC
1 CATATAAGGTTC
48899858 GCATATAAGGTTC
1 -CATATAAGGTTC
*
48899871 ACACATAAGGTTC
1 -CATATAAGGTTC
48899884 CATATA
1 CATATA
48899890 GTAATTCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 5 0.19
13 22 0.81
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (12 bp):
CATATAAGGTTC
Found at i:48899880 original size:41 final size:41
Alignment explanation
Indices: 48899803--48899880 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 41
48899793 ATAGGGTTCA
** ***
48899803 CACATACAGGGCTCGCATATAAGGTTTGCTTGTAAGGCTTG
1 CACATACAGGGCTCGCATATAAGGTTCACACATAAGGCTTG
* *
48899844 CACATATAGGGTTCGCATATAAGGTTCACACATAAGG
1 CACATACAGGGCTCGCATATAAGGTTCACACATAAGG
48899881 TTCCATATAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 30 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (41 bp):
CACATACAGGGCTCGCATATAAGGTTCACACATAAGGCTTG
Found at i:48899996 original size:22 final size:22
Alignment explanation
Indices: 48899970--48900016 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
48899960 TCACTAAGAG
* * *
48899970 GGGTTCACCTAGCGTTCCTTAA
1 GGGTTCACATAACATTCCTTAA
*
48899992 GGGTTCGCATAACATTCCTTAA
1 GGGTTCACATAACATTCCTTAA
48900014 GGG
1 GGG
48900017 CTTGCAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (22 bp):
GGGTTCACATAACATTCCTTAA
Found at i:48900324 original size:36 final size:36
Alignment explanation
Indices: 48900283--48900475 Score: 113
Period size: 36 Copynumber: 5.2 Consensus size: 36
48900273 TTCTTTAAAG
*
48900283 GTTCACATGATATCTATGGTCCA-CATAGTACCTAGA
1 GTTCACATGATATCTATAG-CCAGCATAGTACCTAGA
* * *
48900319 GTTCACATGATATGTATAGCTAGCATAGTACCTTGA
1 GTTCACATGATATCTATAGCCAGCATAGTACCTAGA
* * * ** * * *
48900355 GTTCGCATGTTATGTATAAGGCGTGCATAATATCTAGG
1 GTTCACATGATATCTAT-A-GCCAGCATAGTACCTAGA
** *
48900393 GTTTGCATGATATCTATAGCTC-GCACAGTACCTAGA
1 GTTCACATGATATCTATAGC-CAGCATAGTACCTAGA
** * * * *
48900429 GTTTGCATGTTATATATAAGGCTC-GCATAGTATCTAGG
1 GTTCACATGATATCTAT-A-GC-CAGCATAGTACCTAGA
48900467 GTTCACATG
1 GTTCACATG
48900476 TTTATATACT
Statistics
Matches: 124, Mismatches: 27, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
35 2 0.02
36 71 0.57
37 3 0.02
38 48 0.39
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (36 bp):
GTTCACATGATATCTATAGCCAGCATAGTACCTAGA
Found at i:48900401 original size:38 final size:38
Alignment explanation
Indices: 48900341--48900483 Score: 132
Period size: 38 Copynumber: 3.8 Consensus size: 38
48900331 TGTATAGCTA
* * * * *
48900341 GCATAGTACCTTGAGTTCGCATGTTATGTATAAGGCGT-
1 GCATAGTATCTAGGGTTTGCATGTTATATATAAGGC-TC
* * *
48900379 GCATAATATCTAGGGTTTGCATGATATCTAT-A-GCTC
1 GCATAGTATCTAGGGTTTGCATGTTATATATAAGGCTC
* * *
48900415 GCACAGTACCTAGAGTTTGCATGTTATATATAAGGCTC
1 GCATAGTATCTAGGGTTTGCATGTTATATATAAGGCTC
**
48900453 GCATAGTATCTAGGGTTCACATGTT-TATATA
1 GCATAGTATCTAGGGTTTGCATGTTATATATA
48900484 CTGAGGGATC
Statistics
Matches: 84, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
35 1 0.01
36 27 0.32
37 8 0.10
38 48 0.57
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (38 bp):
GCATAGTATCTAGGGTTTGCATGTTATATATAAGGCTC
Found at i:48900447 original size:74 final size:74
Alignment explanation
Indices: 48900324--48900469 Score: 213
Period size: 74 Copynumber: 2.0 Consensus size: 74
48900314 CTAGAGTTCA
* * * *
48900324 CATGATATGTATAGCTAGCATAGTACCTTGAGTTCGCATGTTATGTATAAGGCGT-GCATAATAT
1 CATGATATCTATAGCTAGCACAGTACCTAGAGTTCGCATGTTATATATAAGGC-TCGCATAATAT
48900388 CTAGGGTTTG
65 CTAGGGTTTG
* * *
48900398 CATGATATCTATAGCTCGCACAGTACCTAGAGTTTGCATGTTATATATAAGGCTCGCATAGTATC
1 CATGATATCTATAGCTAGCACAGTACCTAGAGTTCGCATGTTATATATAAGGCTCGCATAATATC
48900463 TAGGGTT
66 TAGGGTT
48900470 CACATGTTTA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
73 1 0.02
74 63 0.98
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (74 bp):
CATGATATCTATAGCTAGCACAGTACCTAGAGTTCGCATGTTATATATAAGGCTCGCATAATATC
TAGGGTTTG
Found at i:48902872 original size:30 final size:31
Alignment explanation
Indices: 48902819--48902882 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
48902809 TTCTCGTAAA
*
48902819 TTTTAAAAAAATTAGCCTATTTTT-ATAATT
1 TTTTAAAAAAATTAGCCTATTTTTGAAAATT
* *
48902849 TTTTATAAAAAATTA-CTTTTTTTTGAAAATT
1 TTTTA-AAAAAATTAGCCTATTTTTGAAAATT
48902880 TTT
1 TTT
48902883 GAGTGAGTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 12 0.41
31 17 0.59
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (31 bp):
TTTTAAAAAAATTAGCCTATTTTTGAAAATT
Found at i:48903549 original size:11 final size:9
Alignment explanation
Indices: 48903523--48903564 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
48903513 AAAAATTAGT
48903523 ATTTAAAAA
1 ATTTAAAAA
48903532 ATTTAAAGAA
1 ATTTAAA-AA
*
48903542 ATTTTAAAA
1 ATTTAAAAA
48903551 A-TTAATAAA
1 ATTTAA-AAA
48903560 ATTTA
1 ATTTA
48903565 CATTTCATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 3 0.11
9 14 0.50
10 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
ATTTAAAAA
Found at i:48916199 original size:2 final size:2
Alignment explanation
Indices: 48916192--48916232 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
48916182 CTAATCCCAC
48916192 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48916233 TCTTATATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48917252 original size:24 final size:24
Alignment explanation
Indices: 48917207--48917253 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
48917197 TCTTATATAA
*
48917207 TTATATATTTTGAAAATTAATTTT
1 TTATATATTTTGAAAATAAATTTT
48917231 TTATATATTTT-AAATATAAATTT
1 TTATATATTTTGAAA-ATAAATTT
48917254 GACTTTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTATATATTTTGAAAATAAATTTT
Found at i:48917492 original size:25 final size:25
Alignment explanation
Indices: 48917447--48917497 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
48917437 CCATTCTAAC
* *
48917447 AAAAAAAATATAGTATCAAGATGAA
1 AAAAAAAATATAATATCAAGAGGAA
*
48917472 AAAAAAGAATATAAT-TTAAGAGGAA
1 AAAAAA-AATATAATATCAAGAGGAA
48917497 A
1 A
48917498 TTTTAATCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.65, C:0.02, G:0.14, T:0.20
Consensus pattern (25 bp):
AAAAAAAATATAATATCAAGAGGAA
Found at i:48919056 original size:64 final size:64
Alignment explanation
Indices: 48918983--48919193 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
48918973 CTGGGCCAGA
*
48918983 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
48919047 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
48919109 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
48919120 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
48919184 GCCCATTTCA
1 GCCCATTTCA
48919194 AAATACATAC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:48919195 original size:137 final size:137
Alignment explanation
Indices: 48918949--48919234 Score: 545
Period size: 137 Copynumber: 2.1 Consensus size: 137
48918939 TATTGGGCCT
**
48918949 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
48919014 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAGTAAA
48919079 CATATGC
131 CATATGC
48919086 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
48919151 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAGTAAA
48919216 CATATGC
131 CATATGC
48919223 AAGCCCATTTGG
1 AAGCCCATTTGG
48919235 AGAGACTACT
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATACAACATCAGTAAA
CATATGC
Found at i:48921060 original size:26 final size:26
Alignment explanation
Indices: 48921024--48921159 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
48921014 CATGATATTC
48921024 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
48921050 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
48921076 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
48921102 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
48921128 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
48921154 TTATCA
1 TTATCA
48921160 ATTTGTCTCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:48924812 original size:15 final size:15
Alignment explanation
Indices: 48924792--48924823 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
48924782 ATTGATGATA
48924792 AGCTGATTAGAAATT
1 AGCTGATTAGAAATT
48924807 AGCTGATTAGAAATT
1 AGCTGATTAGAAATT
48924822 AG
1 AG
48924824 GGCTAATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (15 bp):
AGCTGATTAGAAATT
Found at i:48930830 original size:18 final size:18
Alignment explanation
Indices: 48930809--48931068 Score: 150
Period size: 18 Copynumber: 14.3 Consensus size: 18
48930799 GAACAATTAT
48930809 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
48930827 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
48930845 TTATTCAATAATAAACAG
1 TTATTCAGTAACAGTCAG
*
48930863 TTATTCAGTATCGATCA-TCGG
1 TTATTCAGTA---A-CAGTCAG
* *
48930884 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
48930902 TTATTCAGTAA-AATCAA
1 TTATTCAGTAACAGTCAG
* * *
48930919 ATATTCAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
48930938 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* * *
48930955 TTCATTCAGTGACAATTAG
1 TT-ATTCAGTAACAGTCAG
* *
48930974 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* * *
48930992 TTATTCAGTAATATTAAG
1 TTATTCAGTAACAGTCAG
*
48931010 TTATTCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
48931028 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
48931046 CTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
48931064 TTATT
1 TTATT
48931069 TTATACCTTT
Statistics
Matches: 180, Mismatches: 51, Indels: 22
0.71 0.20 0.09
Matches are distributed among these distances:
17 19 0.11
18 133 0.74
19 15 0.08
21 12 0.07
22 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:48930849 original size:36 final size:36
Alignment explanation
Indices: 48930796--48931068 Score: 192
Period size: 36 Copynumber: 7.5 Consensus size: 36
48930786 TCATTAACTC
* *
48930796 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * * **
48930831 TCGGTAACAATCAATTATTCAATAATAAACAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* ** * *
48930867 TCAGTATCGATCATCGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAAC-A--ATCAATTATTCAGTAACAGTCAGTTAT
* * *
48930906 TCAGTAA-AATCAAATATTCAGTAACAATTAAGTTAT
1 TCAGTAACAATCAATTATTCAGTAAC-AGTCAGTTAT
* * * * *
48930942 TCAGTAGCAGTC-ATTCATTCAGTGACAATTAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAGTCAGTTAT
** * * *
48930978 TCAGTAATGATCAATTATTCAGTAATATTAAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * * **
48931014 TCAGTAACAGTCAATTATCCGGTAACAGTCAACTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* *
48931050 TCAGTAATAATCAGTTATT
1 TCAGTAACAATCAATTATT
48931069 TTATACCTTT
Statistics
Matches: 177, Mismatches: 53, Indels: 15
0.72 0.22 0.06
Matches are distributed among these distances:
35 16 0.09
36 119 0.67
37 17 0.10
39 25 0.14
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
Found at i:48930898 original size:75 final size:74
Alignment explanation
Indices: 48930809--48930947 Score: 190
Period size: 75 Copynumber: 1.9 Consensus size: 74
48930799 GAACAATTAT
* * * * *
48930809 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAATTATTCAATAATAA-ACAGTTATTCAGTA
1 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAAATATTCAATAACAATA-AGTTATTCAGTA
48930873 TCGATCATCGG
64 TCGATCATCGG
*
48930884 TTATCCAGTAACAGTCAATTATTCAGTAAAATCAAATATTCAGTAACAATTAAGTTATTCAGTA
1 TTATCCAGTAACAGTCAATTATTCAGTAAAATCAAATATTCAATAACAA-TAAGTTATTCAGTA
48930948 GCAGTCATTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
74 17 0.30
75 38 0.68
76 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.35
Consensus pattern (74 bp):
TTATCCAGTAACAGTCAATTATTCAGTAAAATCAAATATTCAATAACAATAAGTTATTCAGTATC
GATCATCGG
Found at i:48931244 original size:47 final size:47
Alignment explanation
Indices: 48931185--48931301 Score: 191
Period size: 47 Copynumber: 2.5 Consensus size: 47
48931175 CAATAACAGT
* *
48931185 AACAGTAGCAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
*
48931232 AACAGTAACAGTACGGTACACAGAGTACCTTATCGGAACAAATCCGA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
48931279 AACAGTAACAGTAACGGTA-ACAG
1 AACAGTAACAGT-ACGGTACACAG
48931302 TAATGGTAGT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
47 60 0.91
48 6 0.09
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.15
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
Found at i:48931920 original size:20 final size:18
Alignment explanation
Indices: 48931886--48931923 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
48931876 AAACTTTCAA
48931886 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
48931904 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
48931924 ATTCCCTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:48936611 original size:18 final size:18
Alignment explanation
Indices: 48936577--48936765 Score: 132
Period size: 18 Copynumber: 10.4 Consensus size: 18
48936567 TCATTAACTC
* *
48936577 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
48936594 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAGTTAT
* *
48936612 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
48936630 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
* *
48936648 TCAGTATCGATCATCGGTTAT
1 TCAGTAAC-A--ATCAGTTAT
* * *
48936669 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
**
48936687 TCAGTAA-AATCAAATAT
1 TCAGTAACAATCAGTTAT
*
48936704 TCAGTAACAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
* *
48936723 TCAGTAGCAGTCA-TTCAT
1 TCAGTAACAATCAGTT-AT
* *
48936741 TCAGTGACAATTAGTTAT
1 TCAGTAACAATCAGTTAT
48936759 TCAGTAA
1 TCAGTAA
48936766 TTGTAATGAC
Statistics
Matches: 129, Mismatches: 35, Indels: 15
0.72 0.20 0.08
Matches are distributed among these distances:
17 21 0.16
18 78 0.60
19 16 0.12
20 1 0.01
21 13 0.10
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:48936721 original size:75 final size:75
Alignment explanation
Indices: 48936590--48936728 Score: 190
Period size: 75 Copynumber: 1.9 Consensus size: 75
48936580 GAACAATTAT
* * * * * *
48936590 TTATTCAGTAACAGTCAGTTATTCGGTAACAATCAATTATTCAATAATAACCAGTTATTCAGTAT
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATCAAATATTCAATAACAACAAGTTATTCAGTAT
48936655 CGATCATCGG
66 CGATCATCGG
* *
48936665 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAAATATTCAGTAACAATTAAGTTATTCAGTA
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATCAAATATTCAATAACAA-CAAGTTATTCAGTA
48936729 GCAGTCATTC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 17 0.31
75 38 0.69
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (75 bp):
TTATCCAGTAACAGTCAATTATTCAGTAACAATCAAATATTCAATAACAACAAGTTATTCAGTAT
CGATCATCGG
Found at i:48937416 original size:16 final size:16
Alignment explanation
Indices: 48937395--48937425 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48937385 GATATTTTAA
48937395 TATATTATATTAATAT
1 TATATTATATTAATAT
*
48937411 TATATTATGTTAATA
1 TATATTATATTAATA
48937426 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:48937522 original size:12 final size:12
Alignment explanation
Indices: 48937505--48937535 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
48937495 GAAGCAGGGG
48937505 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
48937517 AGAAAAAGGGAA
1 AGAAAAAGAGAA
48937529 AGAAAAA
1 AGAAAAA
48937536 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:48939720 original size:18 final size:18
Alignment explanation
Indices: 48939632--48939721 Score: 90
Period size: 18 Copynumber: 5.0 Consensus size: 18
48939622 GAGGGTGTTA
*
48939632 CAGTAATGATCAATTATT
1 CAGTAATAATCAATTATT
* *
48939650 CAGTAATATTCAGTTATT
1 CAGTAATAATCAATTATT
* * *
48939668 CAGTAACAGTCAATTATC
1 CAGTAATAATCAATTATT
* * *
48939686 CGGTAACAGTCAATTATT
1 CAGTAATAATCAATTATT
*
48939704 CAGTAATAATCAGTTATT
1 CAGTAATAATCAATTATT
48939722 TTATACCTTT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (18 bp):
CAGTAATAATCAATTATT
Found at i:48939907 original size:47 final size:47
Alignment explanation
Indices: 48939838--48939954 Score: 157
Period size: 47 Copynumber: 2.5 Consensus size: 47
48939828 CAGTAACAGT
* * *
48939838 AACAGTAGCAGTATGGTACACAGAGTACCACATC-AGAACAAATCCGG
1 AACAGTAACAGTACGGTACACAGAGTACCACATCGA-AACAAATCCGA
* *
48939885 AACAGTAACAGTACGGTACACAGAGTACCTCATCGAAACAAATCTGA
1 AACAGTAACAGTACGGTACACAGAGTACCACATCGAAACAAATCCGA
48939932 AACAGTAACAGTAACGGTA-ACAG
1 AACAGTAACAGT-ACGGTACACAG
48939955 TAACAATATC
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
47 56 0.89
48 7 0.11
ACGTcount: A:0.43, C:0.22, G:0.20, T:0.15
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCACATCGAAACAAATCCGA
Found at i:48940623 original size:20 final size:18
Alignment explanation
Indices: 48940589--48940626 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
48940579 AAACTTTCAA
48940589 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
48940607 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
48940627 ATTCCCTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:48943478 original size:19 final size:19
Alignment explanation
Indices: 48943454--48943491 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
48943444 AGATAATCAC
48943454 AACTAGCCCATCCACGTTT
1 AACTAGCCCATCCACGTTT
48943473 AACTAGCCCATCCACGTTT
1 AACTAGCCCATCCACGTTT
48943492 CTTAGTGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.37, G:0.11, T:0.26
Consensus pattern (19 bp):
AACTAGCCCATCCACGTTT
Found at i:48943991 original size:20 final size:17
Alignment explanation
Indices: 48943917--48943982 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 17
48943907 TATATTTTTT
*
48943917 AAAAATTATAAATATTTCA
1 AAAAATT-TAAATAATT-A
*
48943936 AAAAATTTTAAAAAAATATA
1 AAAAA-TTT-AAATAAT-TA
48943956 AAGAAATTTAAATAATTA
1 AA-AAATTTAAATAATTA
48943974 AAAAATTTA
1 AAAAATTTA
48943983 TAGAATAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 7 0.17
18 4 0.10
19 12 0.30
20 13 0.32
21 4 0.10
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAAATTTAAATAATTA
Found at i:48946203 original size:34 final size:34
Alignment explanation
Indices: 48946160--48946283 Score: 203
Period size: 34 Copynumber: 3.6 Consensus size: 34
48946150 TTCTGATTTG
* * *
48946160 ATATGACATTTTGATCTGATATATGTTTATAAAA
1 ATATGACATTCTGATATGATATATGTTTATGAAA
*
48946194 ATATGACATTCTGATATGATATATGTTTTTGAAA
1 ATATGACATTCTGATATGATATATGTTTATGAAA
*
48946228 ATATGACATTCTGATATGATATATGTTTATGATA
1 ATATGACATTCTGATATGATATATGTTTATGAAA
48946262 ATATGACATTCTGATATGATAT
1 ATATGACATTCTGATATGATAT
48946284 TTGTAAAAGT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 84 1.00
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (34 bp):
ATATGACATTCTGATATGATATATGTTTATGAAA
Found at i:48946517 original size:5 final size:5
Alignment explanation
Indices: 48946499--48946535 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
48946489 CGTTTTGGGC
*
48946499 TTTGT TTTGAT TTTTT TTTGT TTTGT TTTGT TTTGT T
1 TTTGT TTTG-T TTTGT TTTGT TTTGT TTTGT TTTGT T
48946536 CATTGATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.03, C:0.00, G:0.16, T:0.81
Consensus pattern (5 bp):
TTTGT
Found at i:48951514 original size:16 final size:16
Alignment explanation
Indices: 48951481--48951513 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48951471 TTCGGTTGAA
*
48951481 TTGAGTTTTTAAATTT
1 TTGAATTTTTAAATTT
48951497 TTGAATTTTT-AATTT
1 TTGAATTTTTAAATTT
48951512 TT
1 TT
48951514 TTAATCAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (16 bp):
TTGAATTTTTAAATTT
Found at i:48953282 original size:45 final size:43
Alignment explanation
Indices: 48953213--48953656 Score: 331
Period size: 44 Copynumber: 9.9 Consensus size: 43
48953203 CGGTGAATTC
* * *
48953213 ACAAGTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AT
* *
48953257 AGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGGAGCTTTAAATT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAA-T
* * * *
48953309 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCAAA-
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAT
* * * *
48953350 ACAAACCTTATCTCCTTGAAGTTGCAGTGGAACAGGTTGAAATT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-T
* *
48953394 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AT
* * *
48953438 AGCAAATCTTATTTCCTTGAAGTTGCAGTGGAACAGATTGAAACTATAAATT
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-------AAA-T
* * * * *
48953490 ACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA-TCAAA-
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAT
* * *
48953531 ACAAACCTTATCTCCCTGAAGTTGTAGTGGAGTA-AGTTGAAATT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAA-T
* * * * *
48953575 ACAAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-AT
* * *
48953619 ACTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
48953657 AAAGCAACAA
Statistics
Matches: 314, Mismatches: 58, Indels: 56
0.73 0.14 0.13
Matches are distributed among these distances:
40 1 0.00
41 58 0.18
42 8 0.03
43 6 0.02
44 103 0.33
45 67 0.21
48 1 0.00
50 2 0.01
51 60 0.19
52 8 0.03
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (43 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAT
Found at i:48953521 original size:181 final size:181
Alignment explanation
Indices: 48953208--48953649 Score: 715
Period size: 181 Copynumber: 2.4 Consensus size: 181
48953198 AAGATCGGTG
*
48953208 AATTCACAAGTCTTATCTCCATGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCC
1 AATT-ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCC
* * *
48953273 CTGAAGTTGCAGTGGAACAGATTGGAGCTTTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTA
65 CTGAAGTTGCAGTGGAACAGATTGAAACTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTA
* *
48953338 GAGCAGATCAAAACAAACCTTATCTCCTTGAAGTTGCAGTGGAACAGGTTGA
130 GAGCAGATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAAGTTGA
*
48953390 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCT
1 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCC
*
48953455 TGAAGTTGCAGTGGAACAGATTGAAACTATAAATTACAGATCTTATCTCTCTGAAGTTGTAGTAG
66 TGAAGTTGCAGTGGAACAGATTGAAACTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAG
* **
48953520 AGCAGATCAAAACAAACCTTATCTCCCTGAAGTTGTAGTGGAGTAAGTTGA
131 AGCAGATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAAGTTGA
* * * * * *
48953571 AATTACAAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGCTA-CTAATCCTATCTCCC
1 AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCC
48953635 TGAAGTTGCAGTGGA
66 TGAAGTTGCAGTGGA
48953650 GCGGATTAAA
Statistics
Matches: 242, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
180 26 0.11
181 212 0.88
182 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (181 bp):
AATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCC
TGAAGTTGCAGTGGAACAGATTGAAACTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAG
AGCAGATCAAAACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAAGTTGA
Found at i:48953672 original size:44 final size:44
Alignment explanation
Indices: 48953583--48953703 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
48953573 TTACAAGTTT
** * * *
48953583 TATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGCTACTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCAACTAATCC
48953627 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCAAC-AAGTCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCAACTAA-TCC
* *
48953671 TATAC-CTCTGAAGTTGCAGTAGG-TCGGATTAAA
1 TAT-CTCCCTGAAGTTGCAGT-GGAGCGGATTAAA
48953704 CTTAAAACCA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
43 2 0.03
44 62 0.93
45 3 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCAACTAATCC
Found at i:48953854 original size:16 final size:18
Alignment explanation
Indices: 48953823--48953855 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
48953813 GGACTGAAAC
48953823 GAAGCGACCTGAAGAAGA
1 GAAGCGACCTGAAGAAGA
48953841 GAAGC-ACC-GAAGAAG
1 GAAGCGACCTGAAGAAG
48953856 TCAAGACTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.45, C:0.18, G:0.33, T:0.03
Consensus pattern (18 bp):
GAAGCGACCTGAAGAAGA
Found at i:48956210 original size:3 final size:3
Alignment explanation
Indices: 48956202--48956357 Score: 102
Period size: 3 Copynumber: 51.0 Consensus size: 3
48956192 GATTTTCTCA
* * *
48956202 ATT ATT ATT ATT ATT ATT ATT ATT GTTT ATT ATT ACT ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
* *** * * *
48956248 AGT ATT ATT ATT ATT GCC ATT ATT TTT CTT ATT ACT ATT A-T ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
* * ** *
48956293 ATT -TCT CTT -TC AAA ATTT ATTT ACCT ATT ATT ATT ATT ATT ATT ATT
1 ATT AT-T ATT ATT ATT A-TT A-TT A-TT ATT ATT ATT ATT ATT ATT ATT
48956340 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
48956358 TTTTTAAAAT
Statistics
Matches: 119, Mismatches: 27, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
2 4 0.03
3 102 0.86
4 13 0.11
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:48957396 original size:3 final size:3
Alignment explanation
Indices: 48957388--48957430 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
48957378 TTTTGAAATG
48957388 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
48957431 TTACAACATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:48958224 original size:36 final size:37
Alignment explanation
Indices: 48958177--48958253 Score: 138
Period size: 36 Copynumber: 2.1 Consensus size: 37
48958167 TTTGAATAAC
*
48958177 AACATCGATCTGCGAAATGTGTTGATTATCAATCC-G
1 AACATCGATCTGCAAAATGTGTTGATTATCAATCCGG
48958213 AACATCGATCTGCAAAATGTGTTGATTATCAATCCGG
1 AACATCGATCTGCAAAATGTGTTGATTATCAATCCGG
48958250 AACA
1 AACA
48958254 ACCAATGCGT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 34 0.87
37 5 0.13
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (37 bp):
AACATCGATCTGCAAAATGTGTTGATTATCAATCCGG
Found at i:48968934 original size:15 final size:15
Alignment explanation
Indices: 48968916--48968952 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
48968906 ATATAGCAAG
48968916 CCATCAATGATTGAA
1 CCATCAATGATTGAA
48968931 CCATCAATGATTGAA
1 CCATCAATGATTGAA
48968946 CCATCAA
1 CCATCAA
48968953 ACATTTCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.24
Consensus pattern (15 bp):
CCATCAATGATTGAA
Found at i:48970248 original size:31 final size:31
Alignment explanation
Indices: 48970210--48970273 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
48970200 CCTTTTCATA
*
48970210 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGAGCCGAAGCCT
*
48970241 TTTCATATTTCATATTACTGAGCCGAAGCCT
1 TTTCATATTTCATAATACTGAGCCGAAGCCT
48970272 TT
1 TT
48970274 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGAGCCGAAGCCT
Found at i:48970511 original size:24 final size:24
Alignment explanation
Indices: 48970465--48970607 Score: 202
Period size: 24 Copynumber: 6.0 Consensus size: 24
48970455 GCTTTATCAT
*
48970465 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
48970490 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
48970514 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
48970537 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
48970561 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
48970585 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
48970608 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
23 25 0.23
24 73 0.66
25 13 0.12
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:48970544 original size:47 final size:48
Alignment explanation
Indices: 48970465--48970606 Score: 200
Period size: 47 Copynumber: 3.0 Consensus size: 48
48970455 GCTTTATCAT
*
48970465 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
**
48970514 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
48970561 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
48970607 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
46 2 0.02
47 42 0.48
48 31 0.36
49 12 0.14
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:48970559 original size:71 final size:72
Alignment explanation
Indices: 48970464--48970607 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 72
48970454 TGCTTTATCA
*
48970464 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCAATAACTGGGGCATA
48970528 AGCCCTTT
65 AGCCCTTT
* **
48970536 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
48970599 AGCCCTTT
65 AGCCCTTT
48970607 T
1 T
48970608 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
70 2 0.03
71 51 0.77
72 13 0.20
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Done.