Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 121 of 211
Found at i:38293506 original size:44 final size:43
Alignment explanation
Indices: 38293451--38294358 Score: 368
Period size: 44 Copynumber: 20.9 Consensus size: 43
38293441 GCTATCTTAG
* *
38293451 TCTGTTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAA
* * *
38293495 TCTGCTCCACTGCAACTTCAAGGAGATAAGATT-TGTCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TT-AA
* *
38293540 TCTGC-CTCACTGCAACTTCA-GGAGGATAAGACT-T-GCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTAA
* * * ***
38293584 TCTGCTCCATTGCAACTTCAGGGAGATAAGACTA--GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
* * * **
38293625 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAA
* * * *
38293668 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTGTCGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAA
* * * *
38293712 TCTACTCCACTGCAACTTCAGGAAGATAAGATT-TGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TT-AA
* * ** * *
38293757 TCTAC-CTCACTGTAACTTCA-GGAGGATGGGACT-T-GCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTAA
* * * * ***
38293801 TCTGCTCCACTACAATTTCAGGGAGATAAGACTA--GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
* * * * ***
38293842 TCTACT-CTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAA
* * *
38293885 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAA
* * * * *
38293929 TCTACTCCACTGTAACTTCAGGGAGATAAGAGT-TGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGC-T-TT-AA
** * *
38293974 TCTGC-CTCACTGCAACTTCAGGCTGATAAGACT-T-GCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGAGATAAGATTATGGC-T--TTAA
* * * * ***
38294018 CCTGCTCCACTGCAACTTTAGGGAGATAAGACTA--GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
* * * * **
38294059 TCTTCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAA
* *
38294102 T-TCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGTTTTAA
1 TCT-GCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCTTTAA
* *
38294146 TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGCCATCTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATG---GCTTTAA
* * *
38294191 TCTGC-CTCACTGCAACTTTA-GGAGGATAAGACT-T-GCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGATTATGGC-T--TTAA
* * * * * *
38294235 CCTGCTCCACCGCAACTTCAGGGAGATAAGACTA--GATGTGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
* * * * * * ** *
38294276 TCTAC-ACTCTGCAACTTTAGAGAGATAAGATCTGTGATTTTAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGGCTTTAA
* *
38294319 TCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GGCT
38294359 ATGGATTTGT
Statistics
Matches: 651, Mismatches: 155, Indels: 116
0.71 0.17 0.13
Matches are distributed among these distances:
40 82 0.13
41 24 0.04
42 9 0.01
43 43 0.07
44 359 0.55
45 134 0.21
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGGCTTTAA
Found at i:38293831 original size:217 final size:217
Alignment explanation
Indices: 38293456--38294358 Score: 1500
Period size: 217 Copynumber: 4.2 Consensus size: 217
38293446 CTTAGTCTGT
* *
38293456 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACTGCAACTTCAGGGAGA
* *
38293521 TAAGATTTGTCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTC
66 TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
* *
38293586 TGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGAT
131 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGAT
38293651 AAGATCTGTGATTTTAATCCGC
196 AAGATCTGTGATTTTAATCCGC
* * *
38293673 TCCACTGCAACTTCAAGGAGATAGGATTGTCGGCTTTAATCTACTCCACTGCAACTTCAGGAAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACTGCAACTTCAGGGAGA
* * ** *
38293738 TAAGATTTGCCATCTTCAGTCTACCTCACTGTAACTTCAGGAGGATGGGACTTGCTTACTTAGTC
66 TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
* *
38293803 TGCTCCACTACAATTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGAT
131 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGAT
*
38293868 AAGATCTGTAATTTTAATCCGC
196 AAGATCTGTGATTTTAATCCGC
* *
38293890 TCCACTGCAACTTCAGGGAGATAGGATTATCGACTTTAATCTACTCCACTGTAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACTGCAACTTCAGGGAGA
* **
38293955 TAAGAGTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGCTGATAAGACTTGCTTACTTAGCC
66 TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
* *
38294020 TGCTCCACTGCAACTTTAGGGAGATAAGACTAGATGCGATCTTCTCTCTGCAACTTCAGAGAGAT
131 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGAT
*
38294085 AAGATCTGTGATTTTAATTCGC
196 AAGATCTGTGATTTTAATCCGC
* *
38294107 TCCACTGCAACTTCAGGGAGATAGGATTATCGGTTTTAATCTGCTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACTGCAACTTCAGGGAGA
* *
38294172 TAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTTAGGAGGATAAGACTTGCTTACTTAGCC
66 TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
* * * *
38294237 TGCTCCACCGCAACTTCAGGGAGATAAGACTAGATGTGATCTACACTCTGCAACTTTAGAGAGAT
131 TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGAT
*
38294302 AAGATCTGTGATTTTATTCCGC
196 AAGATCTGTGATTTTAATCCGC
38294324 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCT
1 TCCACTGCAACTTCAGGGAGATAGGATTATCGGCT
38294359 ATGGATTTGT
Statistics
Matches: 634, Mismatches: 52, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
217 634 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
TCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTACTCCACTGCAACTTCAGGGAGA
TAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGCC
TGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTCAGAGAGAT
AAGATCTGTGATTTTAATCCGC
Found at i:38302395 original size:24 final size:24
Alignment explanation
Indices: 38302367--38302412 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
38302357 ATCATTTTTT
*
38302367 GCTGCTCATTCATTTACTTTTGAA
1 GCTGCTCATGCATTTACTTTTGAA
* *
38302391 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTACTTTTG
38302413 GGACTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTACTTTTGAA
Found at i:38306187 original size:16 final size:16
Alignment explanation
Indices: 38306168--38306199 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
38306158 ATGGGCAAGA
38306168 TAATAAAAAAAATATG
1 TAATAAAAAAAATATG
38306184 TAATAAAAAAAATATG
1 TAATAAAAAAAATATG
38306200 CAAACATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (16 bp):
TAATAAAAAAAATATG
Found at i:38306432 original size:29 final size:31
Alignment explanation
Indices: 38306387--38306445 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
38306377 ATACATATAT
* *
38306387 ATAAAATAATAATAATTACA-TATGAAAATC
1 ATAAAATAATAACAATTACATTATCAAAATC
38306417 ATAAAA-AATAACAATTACATTATCAAAAT
1 ATAAAATAATAACAATTACATTATCAAAAT
38306446 TAATTGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (31 bp):
ATAAAATAATAACAATTACATTATCAAAATC
Found at i:38313017 original size:9 final size:9
Alignment explanation
Indices: 38313003--38313043 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
38312993 TTTTGGGGTT
38313003 TTAAAAAAA
1 TTAAAAAAA
38313012 TT--AAAAA
1 TTAAAAAAA
*
38313019 TTAATAAAA
1 TTAAAAAAA
38313028 TTAAAACAAA
1 TTAAAA-AAA
38313038 TTAAAA
1 TTAAAA
38313044 CATAACTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
7 7 0.26
9 11 0.41
10 9 0.33
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:38313027 original size:16 final size:16
Alignment explanation
Indices: 38313003--38313033 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38312993 TTTTGGGGTT
38313003 TTAAAAAAATTAAAAA
1 TTAAAAAAATTAAAAA
*
38313019 TTAATAAAATTAAAA
1 TTAAAAAAATTAAAA
38313034 CAAATTAAAA
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAAAAAAATTAAAAA
Found at i:38317474 original size:18 final size:18
Alignment explanation
Indices: 38317443--38317480 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
38317433 TATATTATAA
38317443 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
* *
38317461 TATTACTTATTAAAATAT
1 TATTAATTAATAAAATAT
38317479 TA
1 TA
38317481 ATAAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:38318268 original size:49 final size:48
Alignment explanation
Indices: 38318205--38318303 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 48
38318195 TAATACAAGA
*
38318205 TTTTTCACTATTTTACTCTTATGTCCATTATTTGATTCTCACTTACTC
1 TTTTTCACTATTTTACTCTTATGTCCATTATTTGATTCTCAATTACTC
*
38318253 TTTTTGCACTCTTTTACTCTTATGTCCATTATTTGATTCTCAATTACTC
1 TTTTT-CACTATTTTACTCTTATGTCCATTATTTGATTCTCAATTACTC
38318302 TT
1 TT
38318304 ACTCATAATT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
48 5 0.10
49 43 0.90
ACGTcount: A:0.18, C:0.22, G:0.05, T:0.55
Consensus pattern (48 bp):
TTTTTCACTATTTTACTCTTATGTCCATTATTTGATTCTCAATTACTC
Found at i:38319040 original size:27 final size:27
Alignment explanation
Indices: 38319010--38319066 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
38319000 TAAAAGAATG
* *
38319010 TATAAAT-TATTAAATAATATAATATAA
1 TATAAATATATTAAAAAATA-AAAATAA
*
38319037 TATAAATATTTTAAAAAATAAAAATAA
1 TATAAATATATTAAAAAATAAAAATAA
38319064 TAT
1 TAT
38319067 GGGCAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
TATAAATATATTAAAAAATAAAAATAA
Found at i:38337452 original size:16 final size:16
Alignment explanation
Indices: 38337433--38337473 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
38337423 AATTATTATT
38337433 AAATATAT-TTTAATTA
1 AAATATATATTTAA-TA
38337449 AAATATATAATTTAATA
1 AAATATAT-ATTTAATA
38337466 AAAT-TATA
1 AAATATATA
38337474 AATAATTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 11 0.48
17 6 0.26
18 5 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATATATATTTAATA
Found at i:38337474 original size:16 final size:18
Alignment explanation
Indices: 38337435--38337474 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
38337425 TTATTATTAA
*
38337435 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
38337453 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
38337470 -TATAA
1 ATATAA
38337475 ATAATTAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 6 0.29
18 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:38337605 original size:15 final size:16
Alignment explanation
Indices: 38337572--38337606 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
38337562 TTAATCATAT
*
38337572 TTAAATATAATTATTA
1 TTAAATATAATTATAA
38337588 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
38337603 TTAA
1 TTAA
38337607 TAAGGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:38340785 original size:5 final size:5
Alignment explanation
Indices: 38340775--38340827 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
38340765 GCAAATCGGT
* **
38340775 AGAAA AGAAA AGAAA ATAAA CAGAGGGC AGAAA AGAAA AGAAA AGAAA
1 AGAAA AGAAA AGAAA AGAAA -AGA--AA AGAAA AGAAA AGAAA AGAAA
38340823 AGAAA
1 AGAAA
38340828 CGGAGGGAGC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 34 0.87
6 2 0.05
7 3 0.08
ACGTcount: A:0.72, C:0.04, G:0.23, T:0.02
Consensus pattern (5 bp):
AGAAA
Found at i:38352207 original size:45 final size:45
Alignment explanation
Indices: 38352149--38352240 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
38352139 TTTCAGACCG
* * *
38352149 AATAACCCGCAAATGGAATTTGCCTCTAATTGTGGATACATAGCA
1 AATAACCCACAAATGGAAATTGCCTCTAACTGTGGATACATAGCA
* ** *
38352194 AATAACCTACAAATGGAAATTGCCTCTGCCTGTGGGTACATAGCA
1 AATAACCCACAAATGGAAATTGCCTCTAACTGTGGATACATAGCA
38352239 AA
1 AA
38352241 ATTCTATTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (45 bp):
AATAACCCACAAATGGAAATTGCCTCTAACTGTGGATACATAGCA
Found at i:38356367 original size:12 final size:12
Alignment explanation
Indices: 38356347--38356380 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
38356337 ACTTTGTATA
*
38356347 TAAAAGATTTTT
1 TAAATGATTTTT
38356359 TAAATGATTTTT
1 TAAATGATTTTT
*
38356371 CAAATGATTT
1 TAAATGATTT
38356381 GGTGTATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (12 bp):
TAAATGATTTTT
Found at i:38356616 original size:31 final size:31
Alignment explanation
Indices: 38356577--38356647 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
38356567 TAAAATTACA
*
38356577 ATTT-AGTCATTGAACTATTCGAAAGTTTTT
1 ATTTAAGTCATTGAACTATTCAAAAGTTTTT
* *
38356607 ATTTAAGTCATTGAGCTATTCAAAATTTTTT
1 ATTTAAGTCATTGAACTATTCAAAAGTTTTT
*
38356638 AATTAAGTCA
1 ATTTAAGTCA
38356648 CTGGGCTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (31 bp):
ATTTAAGTCATTGAACTATTCAAAAGTTTTT
Found at i:38359911 original size:63 final size:62
Alignment explanation
Indices: 38359783--38359912 Score: 149
Period size: 62 Copynumber: 2.1 Consensus size: 62
38359773 TTTTTTTTTC
* * * *
38359783 TTTTTTTTGTTATCCAACTATGAAAAGATACAAAATGGCCACTCAATTATTAGTAAATTTCTT
1 TTTTTTTTGTCACCCAACCATGAAAAGATACAAAATGGCCACTCAACTATTAG-AAATTTCTT
* *
38359846 TTTTTTTTGTCACCCAACCATG-AAAGCTACAAAATGGTCA-TCTAACTATTTA-AAATTATCTT
1 TTTTTTTTGTCACCCAACCATGAAAAGATACAAAATGGCCACTC-AACTA-TTAGAAATT-TCTT
38359908 TTTTT
1 TTTTT
38359913 AATCACTAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
61 7 0.12
62 29 0.50
63 22 0.38
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.42
Consensus pattern (62 bp):
TTTTTTTTGTCACCCAACCATGAAAAGATACAAAATGGCCACTCAACTATTAGAAATTTCTT
Found at i:38360512 original size:24 final size:24
Alignment explanation
Indices: 38360484--38360535 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
38360474 TTAGTAAGTC
* *
38360484 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
38360508 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
38360532 AAAT
1 AAAT
38360536 TTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:38362343 original size:26 final size:29
Alignment explanation
Indices: 38362300--38362364 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 29
38362290 CTATTATATA
**
38362300 AATTTTATAATTAATTATAA-TT-T-CTT
1 AATTTTATAACCAATTATAACTTATACTT
* *
38362326 AATTTTATAACCATTTATAACTTATATTT
1 AATTTTATAACCAATTATAACTTATACTT
38362355 AATTTTATAA
1 AATTTTATAA
38362365 ATACTTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 17 0.53
27 2 0.06
28 1 0.03
29 12 0.38
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (29 bp):
AATTTTATAACCAATTATAACTTATACTT
Found at i:38363807 original size:3 final size:3
Alignment explanation
Indices: 38363799--38363841 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
38363789 AATTCAAAAG
38363799 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
38363842 AAGAAACCAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:38372943 original size:21 final size:20
Alignment explanation
Indices: 38372919--38372962 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
38372909 AAAATATTAA
* *
38372919 AAATACTTTTTATAATATTTT
1 AAATAATTTTAATAAT-TTTT
*
38372940 AAATAATTTTAATGATTTTT
1 AAATAATTTTAATAATTTTT
38372960 AAA
1 AAA
38372963 AATAAATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
AAATAATTTTAATAATTTTT
Found at i:38373004 original size:8 final size:8
Alignment explanation
Indices: 38372965--38373007 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
38372955 TTTTTAAAAA
38372965 TAAATTTT
1 TAAATTTT
*
38372973 TGAATTTT
1 TAAATTTT
*
38372981 TGAATTTT
1 TAAATTTT
38372989 TAAA-TTT
1 TAAATTTT
38372996 TAAATTTT
1 TAAATTTT
38373004 TAAA
1 TAAA
38373008 AACTAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 7 0.22
8 25 0.78
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (8 bp):
TAAATTTT
Found at i:38373005 original size:15 final size:15
Alignment explanation
Indices: 38372965--38373007 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
38372955 TTTTTAAAAA
*
38372965 TAAATTTTTGAATTTT
1 TAAATTTTT-AAATTT
*
38372981 TGAATTTTTAAATTT
1 TAAATTTTTAAATTT
38372996 TAAATTTTTAAA
1 TAAATTTTTAAA
38373008 AACTAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (15 bp):
TAAATTTTTAAATTT
Found at i:38375836 original size:3 final size:3
Alignment explanation
Indices: 38375828--38375863 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
38375818 ATACTTCAAG
38375828 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
38375864 TTATTATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:38378821 original size:35 final size:35
Alignment explanation
Indices: 38378782--38378857 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
38378772 GATTATAAGA
*
38378782 AAAATTACTCAAATAAAATATCACTAAGTTTATAT
1 AAAATTACCCAAATAAAATATCACTAAGTTTATAT
*
38378817 AAAATTACCCAAATAAAATATCACTAATTTTATAT
1 AAAATTACCCAAATAAAATATCACTAAGTTTATAT
*
38378852 AGAATT
1 AAAATT
38378858 TTTCTTTAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.51, C:0.12, G:0.03, T:0.34
Consensus pattern (35 bp):
AAAATTACCCAAATAAAATATCACTAAGTTTATAT
Found at i:38380855 original size:18 final size:19
Alignment explanation
Indices: 38380834--38380870 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
38380824 TTATTAAAAA
38380834 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
38380852 TATAAATATTTAGAATTTT
1 TATAAATATTTAGAATTTT
38380871 GAAAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:38380876 original size:18 final size:18
Alignment explanation
Indices: 38380835--38380877 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
38380825 TATTAAAAAT
*
38380835 ATAAATTTTAGAATTTTT
1 ATAAATTTTAGAATTTTG
38380853 ATAAATATTTAGAATTTTG
1 ATAAAT-TTTAGAATTTTG
38380872 A-AAATT
1 ATAAATT
38380878 AATTTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (18 bp):
ATAAATTTTAGAATTTTG
Found at i:38385217 original size:32 final size:32
Alignment explanation
Indices: 38385181--38385249 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
38385171 TGTCAATCAT
*
38385181 TTCAATAT-TCAACAAGCTTAAAACATAATAAA
1 TTCAATATCT-AACAAACTTAAAACATAATAAA
* * *
38385213 TTCAATATCTAACAAATTTAAGACATAATAAT
1 TTCAATATCTAACAAACTTAAAACATAATAAA
38385245 TTCAA
1 TTCAA
38385250 AACCCAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 31 0.97
33 1 0.03
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32
Consensus pattern (32 bp):
TTCAATATCTAACAAACTTAAAACATAATAAA
Found at i:38385259 original size:32 final size:32
Alignment explanation
Indices: 38385198--38385259 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
38385188 TTCAACAAGC
* * *
38385198 TTAAAACATAATAAATTCAATATCTAACAAAT
1 TTAAAACATAATAAATTCAAAACCCAACAAAT
* *
38385230 TTAAGACATAATAATTTCAAAACCCAACAA
1 TTAAAACATAATAAATTCAAAACCCAACAA
38385260 TCTAATTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.55, C:0.16, G:0.02, T:0.27
Consensus pattern (32 bp):
TTAAAACATAATAAATTCAAAACCCAACAAAT
Found at i:38386714 original size:21 final size:21
Alignment explanation
Indices: 38386690--38386730 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
38386680 ACACAAAAAT
*
38386690 TTACAAATTAATATGCAATTA
1 TTACAAATCAATATGCAATTA
*
38386711 TTACAAATCAATGTGCAATT
1 TTACAAATCAATATGCAATT
38386731 TATTTGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (21 bp):
TTACAAATCAATATGCAATTA
Found at i:38388747 original size:4 final size:4
Alignment explanation
Indices: 38388740--38389503 Score: 1141
Period size: 4 Copynumber: 191.0 Consensus size: 4
38388730 TTATTACTGA
38388740 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
38388788 ACAT ACAT ACAT GCAT ACAT GCAT ACAT GCAT ACAT GCAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
38388836 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
38388884 ACAT GCAT GCAT ACAT ACAT ACAT GCAT ACAT ACAT ACAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
38388932 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
38388980 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT GCAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
38389028 ACAT ACAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
38389076 ACAT GCAT GCAT ACAT ACAT ACAT GCAT ACAT ACAT ACAT GCAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * *
38389124 ACAT GCAT ACAT ACAT ACAT GCAT ACAT GCAG ACAT GCAT ACAT GCAG
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * *
38389172 ACAT GCAT ACAT GCAC ACAT GCAT ACAT ACAC ACAT GCAT ACAT ACAC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
38389220 ACAT GCAT ACAT ACAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
38389268 ACAT ACAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT ACAT ACAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
38389316 ACAT GCAT GCAT ACAT ACAT ACAT ACAT ACAT GCAT ACAT GCAT GCAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
38389364 ACAT ACAT ATAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
38389412 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
38389460 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
38389504 CTATCTGTAT
Statistics
Matches: 688, Mismatches: 72, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 688 1.00
ACGTcount: A:0.45, C:0.25, G:0.05, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:38390519 original size:17 final size:18
Alignment explanation
Indices: 38390497--38390530 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
38390487 AACATCACAT
38390497 ATAAATTCATTT-ATAAC
1 ATAAATTCATTTCATAAC
*
38390514 ATAAATTGATTTCATAA
1 ATAAATTCATTTCATAA
38390531 GACGCATCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (18 bp):
ATAAATTCATTTCATAAC
Found at i:38407919 original size:28 final size:28
Alignment explanation
Indices: 38407834--38407927 Score: 109
Period size: 28 Copynumber: 3.4 Consensus size: 28
38407824 TATACAGTGT
*
38407834 CAGT-ACAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* * * *
38407861 CAATATCAGCGTGGGCCTTAGCCTAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* *
38407889 CAGTAACAATGTGGGCCTTAGCCCAGTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
38407917 CAGTAAACAGT
1 CAGT-AACAGT
38407928 ACAATGCAGT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 3 0.06
28 45 0.85
29 5 0.09
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:38408470 original size:81 final size:81
Alignment explanation
Indices: 38408302--38408535 Score: 255
Period size: 81 Copynumber: 2.9 Consensus size: 81
38408292 TGCCCTATGG
* * * *
38408302 GGGTATTTCAGGT-ATTTTACCCTTC-GGCGGTATTTTGGTCATTTTA--CTTTCAAGGGTATTT
1 GGGTATTTCA-GTAATTTTACCCTTCAGG-GGTATTTCGATAATTTTACCCTTTGAA-GGTATTT
* *
38408363 CAAAAATTTTACCCTTCGA
63 CGATAATTTTACCCTTCGA
*
38408382 GGGTATTTCGGTAATTTTA-CCTT-ATGGGGGTATTTCGATAATTTTACCCTTTGAAGGTATTTC
1 GGGTATTTCAGTAATTTTACCCTTCA--GGGGTATTTCGATAATTTTACCCTTTGAAGGTATTTC
*
38408445 GATAATTTTACCCTTTGA
64 GATAATTTTACCCTTCGA
* * * * * *
38408463 GGGTATTTTAGTAATTTTACCCTTCAGGGGTATTTCGGTAATTTTATCCTTTGAGGGTATTTTGG
1 GGGTATTTCAGTAATTTTACCCTTCAGGGGTATTTCGATAATTTTACCCTTTGAAGGTATTTCGA
38408528 TAATTTTA
66 TAATTTTA
38408536 TCCTATATGA
Statistics
Matches: 131, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
79 6 0.05
80 30 0.23
81 84 0.64
82 10 0.08
83 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.45
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACCCTTCAGGGGTATTTCGATAATTTTACCCTTTGAAGGTATTTCGA
TAATTTTACCCTTCGA
Found at i:38408539 original size:27 final size:27
Alignment explanation
Indices: 38408302--38408535 Score: 228
Period size: 27 Copynumber: 8.7 Consensus size: 27
38408292 TGCCCTATGG
*
38408302 GGGTATTTCAGGT-ATTTTACCCTTCG-
1 GGGTATTTC-GGTAATTTTACCCTTTGA
* * *
38408328 GCGGTATTTTGGTCATTTTA--CTTTCAA
1 G-GGTATTTCGGTAATTTTACCCTTT-GA
*** *
38408355 GGGTATTTCAAAAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTTGA
*
38408382 GGGTATTTCGGTAATTTTA-CCTTATGG
1 GGGTATTTCGGTAATTTTACCCTT-TGA
*
38408409 GGGTATTTCGATAATTTTACCCTTTGA
1 GGGTATTTCGGTAATTTTACCCTTTGA
* *
38408436 AGGTATTTCGATAATTTTACCCTTTGA
1 GGGTATTTCGGTAATTTTACCCTTTGA
** *
38408463 GGGTATTTTAGTAATTTTACCC-TTCA
1 GGGTATTTCGGTAATTTTACCCTTTGA
*
38408489 GGGGTATTTCGGTAATTTTATCCTTTGA
1 -GGGTATTTCGGTAATTTTACCCTTTGA
*
38408517 GGGTATTTTGGTAATTTTA
1 GGGTATTTCGGTAATTTTA
38408536 TCCTATATGA
Statistics
Matches: 170, Mismatches: 28, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
25 3 0.02
26 24 0.14
27 133 0.78
28 10 0.06
ACGTcount: A:0.21, C:0.14, G:0.20, T:0.45
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCTTTGA
Found at i:38408549 original size:27 final size:26
Alignment explanation
Indices: 38408384--38408561 Score: 112
Period size: 27 Copynumber: 6.6 Consensus size: 26
38408374 CCCTTCGAGG
* *
38408384 GTATTTCGGTAATTTTA-CCTTATGGGG
1 GTATTTTGGTAATTTTATCCTTAT--GA
* * *
38408411 GTATTTCGATAATTTTACCCTT-TGAA
1 GTATTTTGGTAATTTTATCCTTATG-A
* * *
38408437 GGTATTTCGATAATTTTACCCTT-TGA
1 -GTATTTTGGTAATTTTATCCTTATGA
* * * *
38408463 GGGTATTTTAGTAATTTTACCCTTCAGGG
1 --GTATTTTGGTAATTTTATCCTT-ATGA
*
38408492 GTATTTCGGTAATTTTATCCTT-TGA
1 GTATTTTGGTAATTTTATCCTTATGA
38408517 GGGTATTTTGGTAATTTTATCCTATATGA
1 --GTATTTTGGTAATTTTATCCT-TATGA
*
38408546 GTATTTTGATAATTTT
1 GTATTTTGGTAATTTT
38408562 TTGGCCCAAG
Statistics
Matches: 127, Mismatches: 14, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.02
26 1 0.01
27 115 0.91
28 5 0.04
29 4 0.03
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.48
Consensus pattern (26 bp):
GTATTTTGGTAATTTTATCCTTATGA
Found at i:38408550 original size:54 final size:52
Alignment explanation
Indices: 38408367--38408561 Score: 196
Period size: 54 Copynumber: 3.6 Consensus size: 52
38408357 GTATTTCAAA
* * * * *
38408367 AATTTTACCCTTCGA-GGGTATTTCGGTAATTTTACCTTATGGGGGTATTTCGAT
1 AATTTTACCCTT--ATGAGTATTTCGATAATTTTACCTT-TGAGGGTATTTTGGT
*
38408421 AATTTTACCCTT-TGAAGGTATTTCGATAATTTTACCCTTTGAGGGTATTTTAGT
1 AATTTTACCCTTATG-A-GTATTTCGATAATTTTA-CCTTTGAGGGTATTTTGGT
* * *
38408475 AATTTTACCCTTCAGGGGTATTTCGGTAATTTTATCCTTTGAGGGTATTTTGGT
1 AATTTTACCCTT-ATGAGTATTTCGATAATTTTA-CCTTTGAGGGTATTTTGGT
* *
38408529 AATTTTATCCTATATGAGTATTTTGATAATTTT
1 AATTTTACCCT-TATGAGTATTTCGATAATTTT
38408562 TTGGCCCAAG
Statistics
Matches: 118, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
52 1 0.01
54 111 0.94
55 5 0.04
56 1 0.01
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (52 bp):
AATTTTACCCTTATGAGTATTTCGATAATTTTACCTTTGAGGGTATTTTGGT
Found at i:38408550 original size:81 final size:78
Alignment explanation
Indices: 38408356--38408561 Score: 218
Period size: 81 Copynumber: 2.5 Consensus size: 78
38408346 TACTTTCAAG
* * * *
38408356 GGTATTTCAAAAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCTTATGGGGGTATTTCGAT
1 GGTATTTCGATAATTTTACCCTTTGA-GGTATTT-TGTAATTTTACCTTA-GGGGGTATTTCGAT
38408421 AATTTTACCCTTTGAA
63 AATTTTACCCTTTGAA
*
38408437 GGTATTTCGATAATTTTACCCTTTGAGGGTATTTTAGTAATTTTACCCTTCA-GGGGTATTTCGG
1 GGTATTTCGATAATTTTACCCTTTGA-GGTATTTT-GTAATTTTA-CCTT-AGGGGGTATTTCGA
* *
38408501 TAATTTTATCCTTTGAG
62 TAATTTTACCCTTTGAA
* * *
38408518 GGTATTTTGGTAATTTTATCCTATATGA-GTATTTTGATAATTTT
1 GGTATTTCGATAATTTTACCCT-T-TGAGGTATTTTG-TAATTTT
38408562 TTGGCCCAAG
Statistics
Matches: 109, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
80 1 0.01
81 99 0.91
82 5 0.05
83 4 0.04
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.46
Consensus pattern (78 bp):
GGTATTTCGATAATTTTACCCTTTGAGGTATTTTGTAATTTTACCTTAGGGGGTATTTCGATAAT
TTTACCCTTTGAA
Found at i:38417059 original size:27 final size:27
Alignment explanation
Indices: 38417014--38417112 Score: 126
Period size: 27 Copynumber: 3.6 Consensus size: 27
38417004 AAGCCCTATA
* *
38417014 CAATATCAGTACAATGTGGGCCTTAGCC
1 CAATA-CAGTAAAACGTGGGCCTTAGCC
* *
38417042 CATTACAGTAAAGCGTGGGCCTTAGCC
1 CAATACAGTAAAACGTGGGCCTTAGCC
* *
38417069 AAATACAGTAACAATGTGGGCCTTAGCC
1 CAATACAGTAA-AACGTGGGCCTTAGCC
38417097 CAATACAGTAAAACGT
1 CAATACAGTAAAACGT
38417113 ACAATGCAGT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
27 32 0.53
28 28 0.47
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (27 bp):
CAATACAGTAAAACGTGGGCCTTAGCC
Found at i:38417095 original size:28 final size:28
Alignment explanation
Indices: 38417014--38417107 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
38417004 AAGCCCTATA
38417014 CAATATCAGT-ACAATGTGGGCCTTAGCC
1 CAATA-CAGTAACAATGTGGGCCTTAGCC
* **
38417042 CATTACAGTAA-AGCGTGGGCCTTAGCC
1 CAATACAGTAACAATGTGGGCCTTAGCC
*
38417069 AAATACAGTAACAATGTGGGCCTTAGCC
1 CAATACAGTAACAATGTGGGCCTTAGCC
38417097 CAATACAGTAA
1 CAATACAGTAA
38417108 AACGTACAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
27 27 0.48
28 29 0.52
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (28 bp):
CAATACAGTAACAATGTGGGCCTTAGCC
Found at i:38417472 original size:27 final size:26
Alignment explanation
Indices: 38417444--38417907 Score: 354
Period size: 27 Copynumber: 17.2 Consensus size: 26
38417434 TATATCATTC
* *
38417444 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCT-TGAGGGTATTTCGGTA
* * ** *
38417471 ATTTTATCATTCGAGGGTATTTTAGTT
1 ATTTTACCCTT-GAGGGTATTTCGGTA
* *
38417498 ATTTTACCCTTTGAGGGTATTTTGGTC
1 ATTTTACCC-TTGAGGGTATTTCGGTA
* **
38417525 ATTTTACCCTTCGAGGATATTTTAGTA
1 ATTTTACCCTT-GAGGGTATTTCGGTA
* * * *
38417552 ATTTTACCCTTCAAGGATATTTTGATA
1 ATTTTACCCTT-GAGGGTATTTCGGTA
* *
38417579 ATTTTACCATATTG-GGGTATTTCAGTA
1 ATTTTACC--CTTGAGGGTATTTCGGTA
* *
38417606 ATTTTACCCTTTAAGGGTATTTCGATA
1 ATTTTACCC-TTGAGGGTATTTCGGTA
* *
38417633 ATTTTACCCTTCGAGGGCATTTCAGTA
1 ATTTTACCCTT-GAGGGTATTTCGGTA
* *
38417660 ATTTTACCCTTCGAGGGTTTTTCGATA
1 ATTTTACCCTT-GAGGGTATTTCGGTA
* * *
38417687 ATTTTACTCTTCGAGGTTATTTTGGTA
1 ATTTTACCCTT-GAGGGTATTTCGGTA
* * *
38417714 ATTTTACCTTTTATGGGTATTTTGGTA
1 ATTTTACCCTTGA-GGGTATTTCGGTA
* *
38417741 ATTTTACCTTATGGGGGTATTTCGGTA
1 ATTTTACCCT-TGAGGGTATTTCGGTA
* *
38417768 ATTTTACCCTATAAGGGTATTTCAGTA
1 ATTTTACCCT-TGAGGGTATTTCGGTA
* **
38417795 ATTTTACCCTTTGAAGGTATTTTAGTA
1 ATTTTACCC-TTGAGGGTATTTCGGTA
* *
38417822 CTTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTT-GAGGGTATTTCGGTA
* * * *
38417849 ATTTTACCTTTCAAGGGTAATTCGATA
1 ATTTTACCCTT-GAGGGTATTTCGGTA
* *
38417876 ATTTTACCCTATGGGGGTATTTTGGTA
1 ATTTTACCCT-TGAGGGTATTTCGGTA
38417903 ATTTT
1 ATTTT
38417908 CTGGCCCAAG
Statistics
Matches: 356, Mismatches: 68, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
26 10 0.03
27 339 0.95
28 5 0.01
29 2 0.01
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.45
Consensus pattern (26 bp):
ATTTTACCCTTGAGGGTATTTCGGTA
Found at i:38417502 original size:54 final size:53
Alignment explanation
Indices: 38417444--38417907 Score: 412
Period size: 54 Copynumber: 8.6 Consensus size: 53
38417434 TATATCATTC
* * * * *
38417444 ATTTTACCCTATGGGGGTATTTCGGTCATTTTATCATTCGAGGGTATTTTAGTT
1 ATTTTACCCT-TGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTAGTA
* * *
38417498 ATTTTACCCTTTGAGGGTATTTTGGTCATTTTACCCTTCGAGGATATTTTAGTA
1 ATTTTACCC-TTGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTAGTA
* * * * * * *
38417552 ATTTTACCCTTCAAGGATATTTTGATAATTTTACCATATTG-GGGTATTTCAGTA
1 ATTTTACCCTT-GAGGGTATTTCGGTAATTTTACCCT-TCGAGGGTATTTTAGTA
* * * *
38417606 ATTTTACCCTTTAAGGGTATTTCGATAATTTTACCCTTCGAGGGCATTTCAGTA
1 ATTTTACCC-TTGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTAGTA
* * * * *
38417660 ATTTTACCCTTCGAGGGTTTTTCGATAATTTTACTCTTCGAGGTTATTTTGGTA
1 ATTTTACCCTT-GAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTAGTA
* * * * * **
38417714 ATTTTACCTTTTATGGGTATTTTGGTAATTTTA-CCTTATGGGGGTATTTCGGTA
1 ATTTTACCCTTGA-GGGTATTTCGGTAATTTTACCCTT-CGAGGGTATTTTAGTA
* * * *
38417768 ATTTTACCCTATAAGGGTATTTCAGTAATTTTACCCTTTGAAGGTATTTTAGTA
1 ATTTTACCCT-TGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTAGTA
* * * * * *
38417822 CTTTTACCCTTCGAGGGTATTTCGATAATTTTACCTTTCAAGGGTA-ATTCGATA
1 ATTTTACCCTT-GAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTAG-TA
* *
38417876 ATTTTACCCTATGGGGGTATTTTGGTAATTTT
1 ATTTTACCCT-TGAGGGTATTTCGGTAATTTT
38417908 CTGGCCCAAG
Statistics
Matches: 339, Mismatches: 58, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
53 14 0.04
54 313 0.92
55 12 0.04
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.45
Consensus pattern (53 bp):
ATTTTACCCTTGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTAGTA
Found at i:38417528 original size:81 final size:80
Alignment explanation
Indices: 38417444--38417907 Score: 425
Period size: 81 Copynumber: 5.7 Consensus size: 80
38417434 TATATCATTC
* * * * *
38417444 ATTTTACCCTATGGGGGTATTTCGGTCATTTTATCATTCGAGGGTATTTTAGTTATTTTACCCTT
1 ATTTTACCCT-TGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTAGTAATTTTACCCTT
* *
38417509 TGAGGGTATTTTGGTC
65 TGAGGGTATTTCGGTA
* ** * * *
38417525 ATTTTACCCTTCGAGGATATTTTAGTAATTTTACCCTTCAAGGATATTTT-GATAATTTTACCAT
1 ATTTTACCCTT-GAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTAG-TAATTTTACCCT
*
38417589 ATTG-GGGTATTTCAGTA
64 -TTGAGGGTATTTCGGTA
* * * *
38417606 ATTTTACCCTTTAAGGGTATTTCGATAATTTTACCCTTCGAGGGCATTTCAGTAATTTTACCCTT
1 ATTTTACCC-TTGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTAGTAATTTTACCCTT
* * *
38417671 CGAGGGTTTTTCGATA
65 TGAGGGTATTTCGGTA
* * * ** *
38417687 ATTTTACTCTTCGAGGTTATTTTGGTAATTTTA-CCTTTTATGGGTATTTTGGTAATTTTA-CCT
1 ATTTTACCCTT-GAGGGTATTTCGGTAATTTTACCCTTCGA-GGGTATTTTAGTAATTTTACCCT
*
38417750 TATGGGGGTATTTCGGTA
64 T-TGAGGGTATTTCGGTA
* * * * *
38417768 ATTTTACCCTATAAGGGTATTTCAGTAATTTTACCCTTTGAAGGTATTTTAGTACTTTTACCCTT
1 ATTTTACCCT-TGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTAGTAATTTTACCCTT
* *
38417833 CGAGGGTATTTCGATA
65 TGAGGGTATTTCGGTA
* * * * * *
38417849 ATTTTACCTTTCAAGGGTAATTCGATAATTTTACCCTAT-GGGGGTATTTTGGTAATTTT
1 ATTTTACCCTT-GAGGGTATTTCGGTAATTTTACCCT-TCGAGGGTATTTTAGTAATTTT
38417908 CTGGCCCAAG
Statistics
Matches: 307, Mismatches: 62, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
80 16 0.05
81 273 0.89
82 18 0.06
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.45
Consensus pattern (80 bp):
ATTTTACCCTTGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTAGTAATTTTACCCTTT
GAGGGTATTTCGGTA
Found at i:38423523 original size:6 final size:6
Alignment explanation
Indices: 38423504--38423542 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
38423494 TCTAAATGAA
* *
38423504 TTCATT TCTCATT TTCATT TTCATT CTCATT TCCATT TT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TT
38423543 GAGAAAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (6 bp):
TTCATT
Found at i:38423532 original size:18 final size:19
Alignment explanation
Indices: 38423504--38423542 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
38423494 TCTAAATGAA
*
38423504 TTCATTTCTCATTTTCATT
1 TTCATTTCTCATTTCCATT
38423523 TTCA-TTCTCATTTCCATT
1 TTCATTTCTCATTTCCATT
38423541 TT
1 TT
38423543 GAGAAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (19 bp):
TTCATTTCTCATTTCCATT
Found at i:38428695 original size:26 final size:26
Alignment explanation
Indices: 38428659--38428712 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
38428649 TAGTTGATAT
38428659 CTAGAGATCAATGCACTTTCTTTTGC
1 CTAGAGATCAATGCACTTTCTTTTGC
38428685 CTAGAGATCAATGCACTTTCTTTTGC
1 CTAGAGATCAATGCACTTTCTTTTGC
38428711 CT
1 CT
38428713 TTAGGATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (26 bp):
CTAGAGATCAATGCACTTTCTTTTGC
Found at i:38430683 original size:30 final size:31
Alignment explanation
Indices: 38430638--38430697 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
38430628 GGAGGTGGGA
*
38430638 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
38430669 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
38430698 ATAAAAGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:38430926 original size:9 final size:9
Alignment explanation
Indices: 38430912--38430949 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
38430902 TATAGTTTGA
38430912 TATTCGAAT
1 TATTCGAAT
38430921 TATTCGAAT
1 TATTCGAAT
*
38430930 TATTCGAGT
1 TATTCGAAT
38430939 TATTCGAAT
1 TATTCGAAT
38430948 TA
1 TA
38430950 GAAAACTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (9 bp):
TATTCGAAT
Found at i:38432448 original size:22 final size:21
Alignment explanation
Indices: 38432396--38432450 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
38432386 CTCTCTCCAA
*
38432396 GGTTAGGGCTTTTTATTTTTAT
1 GGTTAGGG-TTTTTATTTTTAG
38432418 GGTTAAGGG-TTTTATTTTATTAG
1 GGTT-AGGGTTTTTA-TTT-TTAG
38432441 GGTTAGGGTT
1 GGTTAGGGTT
38432451 AGGATTTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 5 0.18
22 11 0.39
23 12 0.43
ACGTcount: A:0.16, C:0.02, G:0.29, T:0.53
Consensus pattern (21 bp):
GGTTAGGGTTTTTATTTTTAG
Found at i:38445004 original size:18 final size:18
Alignment explanation
Indices: 38444981--38445015 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38444971 AAGTTACATA
*
38444981 GGCACGGACACGGGCTGG
1 GGCACGGAAACGGGCTGG
38444999 GGCACGGAAACGGGCTG
1 GGCACGGAAACGGGCTG
38445016 AGACACGACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.26, G:0.49, T:0.06
Consensus pattern (18 bp):
GGCACGGAAACGGGCTGG
Found at i:38445022 original size:18 final size:18
Alignment explanation
Indices: 38444983--38445022 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
38444973 GTTACATAGG
* * *
38444983 CACGGACACGGGCTGGGG
1 CACGGAAACGGGCTGAGA
38445001 CACGGAAACGGGCTGAGA
1 CACGGAAACGGGCTGAGA
38445019 CACG
1 CACG
38445023 ACCGTGTGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.42, T:0.05
Consensus pattern (18 bp):
CACGGAAACGGGCTGAGA
Found at i:38447524 original size:28 final size:28
Alignment explanation
Indices: 38447480--38447571 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
38447470 AAGATATCCT
*
38447480 TTTAACAGAGATAGCCATAAAGGCTTCC
1 TTTAACAGAGATAGCCACAAAGGCTTCC
*
38447508 TTTAACAGATACT-GCCACAAAGGCTTCC
1 TTTAACAGAGA-TAGCCACAAAGGCTTCC
** * * *
38447536 TTTAGTAGAGTTAGCTACAAAGGCTCCC
1 TTTAACAGAGATAGCCACAAAGGCTTCC
38447564 TTTTAACA
1 -TTTAACA
38447572 AAACCAGCCA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.02
28 44 0.86
29 6 0.12
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (28 bp):
TTTAACAGAGATAGCCACAAAGGCTTCC
Found at i:38452648 original size:113 final size:113
Alignment explanation
Indices: 38452500--38452714 Score: 324
Period size: 113 Copynumber: 1.9 Consensus size: 113
38452490 TTAAACAAAA
* *
38452500 AAATTAAGAATGTGTTGGGCTGAGTAACCGCGGTGGGGTGCTTGGGTTGTCATTCCACTTCGCGT
1 AAATTAAGAATATGTTGGGCTGAGTAACCGCGGTGGGGTGCTT-GGTTGTCACTCCACTTCGCGT
38452565 CAAAAGGGCCAAAACATTCTTAAACA-AAAAAAAAATATATAATATAAT
65 CAAAAGGGCCAAAACATTCTTAAACATAAAAAAAAATATATAATATAAT
* * *
38452613 AAATTAAGAGTATGTTGGGCTGAGTAACTGGGGTGGGGTGCTTGGTTGTCACTCCACTTCGCGTC
1 AAATTAAGAATATGTTGGGCTGAGTAACCGCGGTGGGGTGCTTGGTTGTCACTCCACTTCGCGTC
* * * * *
38452678 AAAATGGCCAATACATTTTTAAGCATTAAAAAAAATA
66 AAAAGGGCCAAAACATTCTTAAACATAAAAAAAAATA
38452715 AAATGAAAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
112 42 0.46
113 49 0.54
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (113 bp):
AAATTAAGAATATGTTGGGCTGAGTAACCGCGGTGGGGTGCTTGGTTGTCACTCCACTTCGCGTC
AAAAGGGCCAAAACATTCTTAAACATAAAAAAAAATATATAATATAAT
Found at i:38452709 original size:112 final size:113
Alignment explanation
Indices: 38452496--38452728 Score: 319
Period size: 112 Copynumber: 2.1 Consensus size: 113
38452486 AGAATTAAAC
* *
38452496 AAAA-AAATTAAGAATGTGTTGGGCTGAGTAACCGCGGTGGGGTGCTTGGGTTGTCATTCCACTT
1 AAAATAAATTAAGAATATGTTGGGCTGAGTAACCGCGGTGGGGTGCTTGGGTTGTCACTCCACTT
*
38452560 CGCGTCAAAAGGGCCAAAACATTCTTAAACAAAAAAAAAATATATAAT-
66 CGCGTCAAAAGGGCCAAAACATTCTTAAACAAAAAAAAAA-ATAAAATG
* * * *
38452608 ATAATAAATTAAGAGTATGTTGGGCTGAGTAACTGGGGTGGGGTGCTT-GGTTGTCACTCCACTT
1 AAAATAAATTAAGAATATGTTGGGCTGAGTAACCGCGGTGGGGTGCTTGGGTTGTCACTCCACTT
* * * * **
38452672 CGCGTCAAAATGGCCAATACATTTTTAAGCATTAAAAAAAATAAAATG
66 CGCGTCAAAAGGGCCAAAACATTCTTAAACAAAAAAAAAAATAAAATG
38452720 AAAATAAAT
1 AAAATAAAT
38452729 AAATAAGTAA
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
111 6 0.06
112 60 0.57
113 39 0.37
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (113 bp):
AAAATAAATTAAGAATATGTTGGGCTGAGTAACCGCGGTGGGGTGCTTGGGTTGTCACTCCACTT
CGCGTCAAAAGGGCCAAAACATTCTTAAACAAAAAAAAAAATAAAATG
Found at i:38457622 original size:30 final size:31
Alignment explanation
Indices: 38457583--38457642 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
38457573 GGAGGTGGGA
*
38457583 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
38457614 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
38457643 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:38460243 original size:15 final size:14
Alignment explanation
Indices: 38460222--38460266 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
38460212 ATAAACATAT
38460222 AAATAACAATACTA
1 AAATAACAATACTA
*
38460236 ATAATAACAATAGTA
1 A-AATAACAATACTA
38460251 AAGATAACAA-ACTA
1 AA-ATAACAATACTA
38460265 AA
1 AA
38460267 CAAAATTAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 7 0.26
15 20 0.74
ACGTcount: A:0.64, C:0.11, G:0.04, T:0.20
Consensus pattern (14 bp):
AAATAACAATACTA
Found at i:38464281 original size:30 final size:30
Alignment explanation
Indices: 38464247--38464326 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 30
38464237 AGCTTCGGGT
38464247 ATCAAATTATGAAAAGGGATGGTAACAACC
1 ATCAAATTATGAAAAGGGATGGTAACAACC
** * *
38464277 ATCAAACAATGAAAAGGGATGGTGACGACC
1 ATCAAATTATGAAAAGGGATGGTAACAACC
*
38464307 ATTAAATTATGAAAAGGGAT
1 ATCAAATTATGAAAAGGGAT
38464327 TGCTTCGACT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (30 bp):
ATCAAATTATGAAAAGGGATGGTAACAACC
Found at i:38483636 original size:19 final size:18
Alignment explanation
Indices: 38483600--38483638 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
38483590 CAAACTACGA
* *
38483600 TATCAAAAACGTAGAAAT
1 TATCAAAAACGAACAAAT
38483618 TATCAAAAACCGAACAAAT
1 TATCAAAAA-CGAACAAAT
38483637 TA
1 TA
38483639 CATACCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.56, C:0.15, G:0.08, T:0.21
Consensus pattern (18 bp):
TATCAAAAACGAACAAAT
Found at i:38483926 original size:21 final size:21
Alignment explanation
Indices: 38483884--38483924 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
38483874 CCATTAAAAG
38483884 AACAAATCAATTTAGCACTTT
1 AACAAATCAATTTAGCACTTT
38483905 AACAAAT-AA-TTAGCAACTTT
1 AACAAATCAATTTAGC-ACTTT
38483925 TACTTTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 7 0.37
21 7 0.37
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (21 bp):
AACAAATCAATTTAGCACTTT
Found at i:38488808 original size:83 final size:83
Alignment explanation
Indices: 38488720--38488919 Score: 226
Period size: 82 Copynumber: 2.4 Consensus size: 83
38488710 TTTAAGTATT
** * *
38488720 CGCCGCTAATGGTCGGGGGTTTTAGTGGCGTTTTTAA-TCAACCGCCGCTAACGTTAA-AGTATT
1 CGCCGCTAAT-GTTAGGGGTTTTAGCGGCGTTTTTAAGT-AACCGCCGCTAAAGTTAAGA-TATT
*
38488783 GAACGGCGTTTTCTTT-GAAG
63 GAACGGAGTTTTCTTTAGAAG
* ** * * * *
38488803 CGCCGCTAATGTTTGGTCTTTTAGCGGCGTTTTTAAGTAAGCGCCGCTAAAGTTAAGATTTTTAG
1 CGCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTTAAGTAACCGCCGCTAAAGTTAAGATATTGAA
*
38488868 CGGAGTTTTTTTTAGAAG
66 CGGAGTTTTCTTTAGAAG
*
38488886 AGCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTT
1 CGCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTT
38488920 GTTGAAGCGC
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
82 52 0.53
83 46 0.47
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.36
Consensus pattern (83 bp):
CGCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTTAAGTAACCGCCGCTAAAGTTAAGATATTGAA
CGGAGTTTTCTTTAGAAG
Found at i:38488831 original size:41 final size:39
Alignment explanation
Indices: 38488786--38488932 Score: 150
Period size: 41 Copynumber: 3.6 Consensus size: 39
38488776 AAGTATTGAA
*
38488786 CGGCGTTTTCTTTGAAGCGCCGCTAATGTTTGGTCTTTTAG
1 CGGCGTTTT-TTTGAAGCGCCGCTAATGTTAGGT-TTTTAG
** * *
38488827 CGGCGTTTTTAAGTAAGCGCCGCTAAAGTTAAGATTTTTAG
1 CGGCGTTTTTTTG-AAGCGCCGCTAATGTT-AGGTTTTTAG
* * *
38488868 CGGAGTTTTTTTTAGAAGAGCCGCTAATGTTAGGGGTTTTAG
1 CGGCG-TTTTTTT-GAAGCGCCGCTAATGTTA-GGTTTTTAG
38488910 CGGCGTTTTTGTTGAAGCGCCGC
1 CGGCGTTTTT-TTGAAGCGCCGC
38488933 AAAAAAACAT
Statistics
Matches: 86, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
40 2 0.02
41 49 0.57
42 34 0.40
43 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.29, T:0.37
Consensus pattern (39 bp):
CGGCGTTTTTTTGAAGCGCCGCTAATGTTAGGTTTTTAG
Found at i:38488892 original size:42 final size:41
Alignment explanation
Indices: 38488845--38488932 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
38488835 TTAAGTAAGC
* *
38488845 GCCGCTAAAGTTAAGATTTTTAGCGGAGTTTTTTTTAGAAGA
1 GCCGCTAAAGTTAAGAGTTTTAGCGGAGTTTTTGTT-GAAGA
* * * * *
38488887 GCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTTGTTGAAGC
1 GCCGCTAAAGTTAAGAGTTTTAGCGGAGTTTTTGTTGAAGA
38488928 GCCGC
1 GCCGC
38488933 AAAAAAACAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 9 0.23
42 30 0.77
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (41 bp):
GCCGCTAAAGTTAAGAGTTTTAGCGGAGTTTTTGTTGAAGA
Found at i:38488928 original size:83 final size:80
Alignment explanation
Indices: 38488721--38488932 Score: 201
Period size: 83 Copynumber: 2.5 Consensus size: 80
38488711 TTAAGTATTC
** * * * *
38488721 GCCGCTAATGGTCGGGGGTTTTAGTGGCGTTTTTAATCAACCGCCGCTAACGTTAAAGTATTGAA
1 GCCGCTAAT-GTTAGGGGTTTTAGCGGCGTTTTT-GT-AAGCGCCGCTAAAGTTAAAGTATTGAA
* *
38488786 CGGCGTTTTCTTTGAAGC
63 CGGAGTTTTCTTTGAAGA
* ** * * *
38488804 GCCGCTAATGTTTGGTCTTTTAGCGGCGTTTTTAAGTAAGCGCCGCTAAAGTT-AAGATTTTTAG
1 GCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTT--GTAAGCGCCGCTAAAGTTAAAG-TATTGAA
*
38488868 CGGAGTTTTTTTTAGAAGA
63 CGGAGTTTTCTTT-GAAGA
38488887 GCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTTGTTGAAGCGCCGC
1 GCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTTG-T-AAGCGCCGC
38488933 AAAAAAACAT
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
81 4 0.04
82 49 0.46
83 54 0.50
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (80 bp):
GCCGCTAATGTTAGGGGTTTTAGCGGCGTTTTTGTAAGCGCCGCTAAAGTTAAAGTATTGAACGG
AGTTTTCTTTGAAGA
Found at i:38489870 original size:6 final size:7
Alignment explanation
Indices: 38489841--38489926 Score: 86
Period size: 7 Copynumber: 11.9 Consensus size: 7
38489831 CGATTAACGT
38489841 TTAGGGG
1 TTAGGGG
38489848 TTAGGGG
1 TTAGGGG
38489855 TTAGGGG
1 TTAGGGG
38489862 TTA-GGG
1 TTAGGGG
*
38489868 TTAGGGAT
1 TTAGGG-G
38489876 TTAGGGG
1 TTAGGGG
38489883 TTAGTGGG
1 TTAG-GGG
38489891 ATTTAGGGG
1 --TTAGGGG
38489900 -TAGGGG
1 TTAGGGG
*
38489906 TTAGGGAT
1 TTAGGG-G
*
38489914 TTAGGGT
1 TTAGGGG
38489921 TTAGGG
1 TTAGGG
38489927 TGTCAAAGGT
Statistics
Matches: 69, Mismatches: 3, Indels: 14
0.80 0.03 0.16
Matches are distributed among these distances:
6 12 0.17
7 35 0.51
8 15 0.22
9 3 0.04
10 4 0.06
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:38489907 original size:38 final size:35
Alignment explanation
Indices: 38489840--38489926 Score: 122
Period size: 38 Copynumber: 2.4 Consensus size: 35
38489830 GCGATTAACG
38489840 TTTAGGGGTTAGGGGTTAGGGGTTAGGGTTAGGGA
1 TTTAGGGGTTAGGGGTTAGGGGTTAGGGTTAGGGA
38489875 TTTAGGGGTTAGTGGGATTTAGGGG-TAGGGGTTAGGGA
1 TTTAGGGGTTAG-GGG--TTAGGGGTTA-GGGTTAGGGA
*
38489913 TTTAGGGTTTAGGG
1 TTTAGGGGTTAGGG
38489927 TGTCAAAGGT
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
35 12 0.26
36 3 0.06
37 4 0.09
38 28 0.60
ACGTcount: A:0.17, C:0.00, G:0.49, T:0.33
Consensus pattern (35 bp):
TTTAGGGGTTAGGGGTTAGGGGTTAGGGTTAGGGA
Found at i:38490539 original size:21 final size:20
Alignment explanation
Indices: 38490513--38490557 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 20
38490503 GATAGGATCG
38490513 AAATATAAGAAA-AAATATAAA
1 AAATATAA-AAAGAAATA-AAA
38490534 AAATATAAAAATGAAATAAAA
1 AAATATAAAAA-GAAATAAAA
38490555 AAA
1 AAA
38490558 CTAAAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.14
21 14 0.64
22 5 0.23
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (20 bp):
AAATATAAAAAGAAATAAAA
Found at i:38490654 original size:4 final size:4
Alignment explanation
Indices: 38490645--38490671 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
38490635 AACATTGAAG
38490645 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
38490672 AGATGTGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:38491813 original size:12 final size:12
Alignment explanation
Indices: 38491796--38491820 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38491786 AGTTTGAAAC
38491796 TGTTCATAATTT
1 TGTTCATAATTT
38491808 TGTTCATAATTT
1 TGTTCATAATTT
38491820 T
1 T
38491821 CACTATACTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TGTTCATAATTT
Found at i:38491875 original size:17 final size:17
Alignment explanation
Indices: 38491849--38491887 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
38491839 ATAGAAAACG
38491849 ATAA-AATGTTATTA-GA
1 ATAATAATGTTA-TACGA
38491865 ATAATAATGTTATACGA
1 ATAATAATGTTATACGA
38491882 ATAATA
1 ATAATA
38491888 TTATGAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (17 bp):
ATAATAATGTTATACGA
Found at i:38492222 original size:26 final size:26
Alignment explanation
Indices: 38492193--38492250 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
38492183 CTCATTGCAT
*
38492193 AATAATTCTTACTCTATAGCTTATCA
1 AATAATTCTTACTCTATAGCTTATAA
38492219 AATAATTCTTACTCTATAGCTTATAA
1 AATAATTCTTACTCTATAGCTTATAA
38492245 AATAAT
1 AATAAT
38492251 ATAAATCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.41
Consensus pattern (26 bp):
AATAATTCTTACTCTATAGCTTATAA
Found at i:38494237 original size:43 final size:42
Alignment explanation
Indices: 38494182--38494305 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
38494172 TAAAGGTCAT
* **
38494182 GGTCTTTTGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCGG
1 GGTCTTTAGCGGCGTTTGTGGGAAAA-CGCCGCTAAAGATAAG
* *
38494225 GGTCTTTAGCGGCGTTTGTGGAAAAAAAGCCGCTAAAGATAAG
1 GGTCTTTAGCGGCGTTTGTGG-GAAAACGCCGCTAAAGATAAG
* * *
38494268 GGTCTTTAACAGCGTTTGTTTGGAAAACGCCGCTAAAG
1 GGTCTTTAGCGGCGTTTG-TGGGAAAACGCCGCTAAAG
38494306 GTTGTCGAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 63 0.91
44 6 0.09
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (42 bp):
GGTCTTTAGCGGCGTTTGTGGGAAAACGCCGCTAAAGATAAG
Found at i:38497697 original size:44 final size:45
Alignment explanation
Indices: 38497637--38497725 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 45
38497627 GAAGTAAAAT
*
38497637 TTGCTATTCTCGGTCTGCCCCACTGCAA-CTTCAGGGAGATAAGAC
1 TTGCTATTCTCAGTCTGCCCCACTGCAACCTT-AGGGAGATAAGAC
38497682 TTGCT-TTCTCAGTCTGCCCCACTGCAACCTTAGGGAGATAAGAC
1 TTGCTATTCTCAGTCTGCCCCACTGCAACCTTAGGGAGATAAGAC
38497726 CTGATGCGAT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
44 34 0.81
45 8 0.19
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.27
Consensus pattern (45 bp):
TTGCTATTCTCAGTCTGCCCCACTGCAACCTTAGGGAGATAAGAC
Found at i:38497945 original size:173 final size:174
Alignment explanation
Indices: 38497656--38498322 Score: 952
Period size: 173 Copynumber: 3.9 Consensus size: 174
38497646 TCGGTCTGCC
* * ** * *
38497656 CCACTGCAACTTCAGGGAGATAAGACTTGCTTTC-TC-AGTCTGCCCCACTGCAACCTT-AGGGA
1 CCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGA-TCTGCCCCACTACAA-CTTCAGGGG
* *
38497718 GATAAGACCTGATGCGATCTAC-CCTACTGCAACTTCAGAGAGATAAGATCTATTATTTTAATCC
64 GATAAGACCTGATGCGATCCACTCC-ACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCC
* * *
38497782 GCTCTACTGCAACTTTAGGGAGATGGGATTATCAACTTCAATCTACA
128 GCTCCACTGCAACTTCAGGGAGATGGGATTATCAACTTCAATCTACT
* * * *
38497829 CCACTGCAACCTAAGGGAGATAAGA-TTGTCATCTTCGATTTGCCCCACTACAACTTCAGGTGGA
1 CCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCCACTACAACTTCAGGGGGA
* * * *
38497893 TAAGACCTGATGCGATCCACTCCACTGCAACTTCGGAGAGATCAGATCTATTATTTTAATCTGCT
66 TAAGACCTGATGCGATCCACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCT
*
38497958 CCACTGCAACTTCAGGGAGATGGGATTATCAACTTCAATCTGCT
131 CCACTGCAACTTCAGGGAGATGGGATTATCAACTTCAATCTACT
* * *
38498002 CTACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCTACTGCAACTTCAGGGGGA
1 CCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCCACTACAACTTCAGGGGGA
* * * * *
38498067 TAAGACCTGATGCTATCCACTCTACTGCAACTTAAGAGACATAAGATATATTACTTTAATCCGCT
66 TAAGACCTGATGCGATCCACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCT
*
38498132 CCACTAG-AACTTCAGGGAGATGGGATTATCAACATCAATCTACT
131 CCACT-GCAACTTCAGGGAGATGGGATTATCAACTTCAATCTACT
*
38498176 CCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTG-CCGACTACAACTTCAGGGGGA
1 CCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCCACTACAACTTCAGGGGGA
* * *
38498240 TAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAAAGATAAGATCTATTACTTTAATCTGCT
66 TAAGACCTGATGCGATCCACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCT
38498305 CCACTGCAACTTCAGGGA
131 CCACTGCAACTTCAGGGA
38498323 CTTCAATCTG
Statistics
Matches: 443, Mismatches: 44, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
172 9 0.02
173 258 0.58
174 175 0.40
175 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (174 bp):
CCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGATCTGCCCCACTACAACTTCAGGGGGA
TAAGACCTGATGCGATCCACTCCACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCT
CCACTGCAACTTCAGGGAGATGGGATTATCAACTTCAATCTACT
Found at i:38497998 original size:44 final size:44
Alignment explanation
Indices: 38497743--38498322 Score: 255
Period size: 44 Copynumber: 13.4 Consensus size: 44
38497733 GATCTACCCT
* * * * * *
38497743 ACTGCAACTTCAGAGAGATAAGATCTAT-TATTTTAATCCGCTCT
1 ACTGCAACTTCAGGGAGATAAGAT-TATCAACTTCAATCTGCTCC
* ** * *
38497787 ACTGCAACTTTAGGGAGATGGGATTATCAACTTCAATCTACACC
1 ACTGCAACTTCAGGGAGATAAGATTATCAACTTCAATCTGCTCC
* * * * * * *
38497831 ACTGCAACCTAAGGGAGATAAGATTGTCATCTTCGATTTGCCCC
1 ACTGCAACTTCAGGGAGATAAGATTATCAACTTCAATCTGCTCC
* ** * * * **
38497875 ACTACAACTTCAGGTG-GATAAGA-CCT-GA-TGCGATCCACTCC
1 ACTGCAACTTCAGG-GAGATAAGATTATCAACTTCAATCTGCTCC
* * * *
38497916 ACTGCAACTTC-GGAGAGATCAGATCTAT-TATTTTAATCTGCTCC
1 ACTGCAACTTCAGG-GAGATAAGAT-TATCAACTTCAATCTGCTCC
** *
38497960 ACTGCAACTTCAGGGAGATGGGATTATCAACTTCAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTATCAACTTCAATCTGCTCC
* * *
38498004 ACTGCAACCTCAGGGAGATAAGATT-TGCCATCTTCGATCTGC-CC
1 ACTGCAACTTCAGGGAGATAAGATTAT--CAACTTCAATCTGCTCC
* ** * * * ** *
38498048 TACTGCAACTTCAGGGGGATAAGA-CCT-GA-TGCTATCCACTCT
1 -ACTGCAACTTCAGGGAGATAAGATTATCAACTTCAATCTGCTCC
* * * * * *
38498090 ACTGCAACTTAAGAGACATAAGATATAT-TACTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TATCAACTTCAATCTGCTCC
** * *
38498134 ACTAG-AACTTCAGGGAGATGGGATTATCAACATCAATCTACTCC
1 ACT-GCAACTTCAGGGAGATAAGATTATCAACTTCAATCTGCTCC
* * * *
38498178 ACTGCAACCTCAGGGAGATAAGATT-TGCCATCTTCGATCTGC-CG
1 ACTGCAACTTCAGGGAGATAAGATTAT--CAACTTCAATCTGCTCC
* * ** * * * ** *
38498222 ACTACAACTTCAGGGGGATAAGA-CCT-GA-TGCGATCCACTCT
1 ACTGCAACTTCAGGGAGATAAGATTATCAACTTCAATCTGCTCC
** * *
38498263 ACTGCAACTTCAGAAAGATAAGATCTAT-TACTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGAT-TATCAACTTCAATCTGCTCC
38498307 ACTGCAACTTCAGGGA
1 ACTGCAACTTCAGGGA
38498323 CTTCAATCTG
Statistics
Matches: 389, Mismatches: 121, Indels: 52
0.69 0.22 0.09
Matches are distributed among these distances:
40 10 0.03
41 69 0.18
42 1 0.00
43 19 0.05
44 242 0.62
45 48 0.12
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTATCAACTTCAATCTGCTCC
Found at i:38498055 original size:45 final size:44
Alignment explanation
Indices: 38497650--38498244 Score: 202
Period size: 44 Copynumber: 13.7 Consensus size: 44
38497640 CTATTCTCGG
* * ** *
38497650 TCTGCCCCACTGCAACTTCAGGGAGATAAGACTT-GC-TTTCTCAG
1 TCTGCCCTACTGCAACTTCAGGGAGATAAGA-TTATCAACT-TCAA
* ** * * *
38497694 TCTGCCCCACTGCAACCTT-AGGGAGATAAGA-CCT-GA-TGCGA
1 TCTGCCCTACTGCAA-CTTCAGGGAGATAAGATTATCAACTTCAA
* * * * *
38497735 TCTACCCTACTGCAACTTCAGAGAGATAAGATCTAT-TATTTTAA
1 TCTGCCCTACTGCAACTTCAGGGAGATAAGAT-TATCAACTTCAA
* * * **
38497779 TCCGCTCTACTGCAACTTTAGGGAGATGGGATTATCAACTTCAA
1 TCTGCCCTACTGCAACTTCAGGGAGATAAGATTATCAACTTCAA
* * * * * *
38497823 TCTACACC-ACTGCAACCTAAGGGAGATAAGATTGTCATCTTCGA
1 TCTGC-CCTACTGCAACTTCAGGGAGATAAGATTATCAACTTCAA
* * * * * *
38497867 TTTGCCCCACTACAACTTCAGGTG-GATAAGACCTGATGCGA--TCCA
1 TCTGCCCTACTGCAACTTCAGG-GAGATAAGA--TTAT-CAACTTCAA
* * * *
38497912 -CT--CC-ACTGCAACTTC-GGAGAGATCAGATCTAT-TATTTTAA
1 TCTGCCCTACTGCAACTTCAGG-GAGATAAGAT-TATCAACTTCAA
**
38497952 TCTGCTCC-ACTGCAACTTCAGGGAGATGGGATTATCAACTTCAA
1 TCTGC-CCTACTGCAACTTCAGGGAGATAAGATTATCAACTTCAA
* * * *
38497996 TCTGCTCTACTGCAACCTCAGGGAGATAAGATT-TGCCATCTTCGA
1 TCTGCCCTACTGCAACTTCAGGGAGATAAGATTAT--CAACTTCAA
* ** * * *
38498041 TCTGCCCTACTGCAACTTCAGGGGGATAAGA-CCT-GA-TGCTA
1 TCTGCCCTACTGCAACTTCAGGGAGATAAGATTATCAACTTCAA
** * * * * * *
38498082 TCCACTCTACTGCAACTTAAGAGACATAAGATATAT-TACTTTAA
1 TCTGCCCTACTGCAACTTCAGGGAGATAAGAT-TATCAACTTCAA
* ** *
38498126 TCCGCTCC-ACTAG-AACTTCAGGGAGATGGGATTATCAACATCAA
1 TCTGC-CCTACT-GCAACTTCAGGGAGATAAGATTATCAACTTCAA
* * * *
38498170 TCTACTCC-ACTGCAACCTCAGGGAGATAAGATT-TGCCATCTTCGA
1 TCTGC-CCTACTGCAACTTCAGGGAGATAAGATTAT--CAACTTCAA
* * *
38498215 TCTG-CCGACTACAACTTCAGGGGGATAAGA
1 TCTGCCCTACTGCAACTTCAGGGAGATAAGA
38498245 CCTGATGCGA
Statistics
Matches: 406, Mismatches: 107, Indels: 76
0.69 0.18 0.13
Matches are distributed among these distances:
38 1 0.00
39 1 0.00
40 10 0.02
41 70 0.17
42 3 0.01
43 21 0.05
44 240 0.59
45 57 0.14
46 2 0.00
47 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (44 bp):
TCTGCCCTACTGCAACTTCAGGGAGATAAGATTATCAACTTCAA
Found at i:38498396 original size:45 final size:45
Alignment explanation
Indices: 38498328--38498449 Score: 115
Period size: 45 Copynumber: 2.7 Consensus size: 45
38498318 AGGGACTTCA
* * * * **
38498328 ATCTGCTCCACAGTAACCTCAGAGAGATAAGATTTGCCAT-CTTTG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTG-CATACTAAG
* *
38498373 ATCTGCCCCACTGCAACTTCAGAG-GAATAAGACTTGCTTACTAAG
1 ATCTGCTCCACTGCAACTTCAGAGAG-ATAAGACTTGCATACTAAG
* *
38498418 -TCTGCTCTACTGCAACTTCAGGGAGATAAGAC
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAC
38498450 CTGATGGGAT
Statistics
Matches: 63, Mismatches: 11, Indels: 7
0.78 0.14 0.09
Matches are distributed among these distances:
44 30 0.48
45 33 0.52
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (45 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGCATACTAAG
Found at i:38498463 original size:204 final size:203
Alignment explanation
Indices: 38498226--38498743 Score: 655
Period size: 217 Copynumber: 2.5 Consensus size: 203
38498216 CTGCCGACTA
* *
38498226 CAACTTCAGGGGGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAAAGATAAGATCTAT
1 CAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTAT
* *
38498291 TACTTTAATCTGCTCCACTGCAACTTCAGGGACTTCAATCTGCTCCAC-AGTAACCTCA-GAGAG
66 TACTTTAATCTGCTCCACTGCAACTTCAGGGACCTCAATCTGCTCC-CTAGCAACCTCAGGA-AG
* *
38498354 ATAAGATTTGCCATCTTTGATCTGCCCCACTGCAACTTCAG-AGGAATAAGACTTGCTTACTAAG
129 ATAAGATTTGCCATCTTCGATCTGCCCCA-TGCAACTTCAGCAGG-ATAAGACCTGCTTACTAAG
*
38498418 TCTGCTCTACTG
192 TCTGCTCCACTG
* *
38498430 CAACTTCAGGGAGATAAGACCTGATGGGATCCACTCTACTGTAACTTCAGAGAGATAAGATCTAT
1 CAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTAT
* *
38498495 TACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATTGACCTCAATCTGTTCCCTTGC
66 TACTTTAATCTGCTCCACTGCAACTTC--------AGG------GACCTCAATCTGCTCCCTAGC
* *
38498560 AACCTCAGGAAGGTAAGTTTTGCCATCTTCGATCTGCCCCATGCAACTTCAGCAGGATAAGACCT
117 AACCTCAGGAAGATAAGATTTGCCATCTTCGATCTGCCCCATGCAACTTCAGCAGGATAAGACCT
* * *
38498625 GCTTTCTCAGTCTGCTCCGCTG
182 GCTTACTAAGTCTGCTCCACTG
* * *
38498647 CAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTATTGCAACTTTAGAGAGATAAGATCTAT
1 CAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTAT
* * *
38498712 TATTTTAATCCGCTCTACTGCAACTTCAGGGA
66 TACTTTAATCTGCTCCACTGCAACTTCAGGGA
38498744 GATAGGATTA
Statistics
Matches: 273, Mismatches: 24, Indels: 35
0.82 0.07 0.11
Matches are distributed among these distances:
203 2 0.01
204 88 0.32
209 3 0.01
212 3 0.01
217 122 0.45
218 53 0.19
219 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (203 bp):
CAACTTCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTAT
TACTTTAATCTGCTCCACTGCAACTTCAGGGACCTCAATCTGCTCCCTAGCAACCTCAGGAAGAT
AAGATTTGCCATCTTCGATCTGCCCCATGCAACTTCAGCAGGATAAGACCTGCTTACTAAGTCTG
CTCCACTG
Found at i:38498529 original size:44 final size:44
Alignment explanation
Indices: 38498322--38498747 Score: 155
Period size: 44 Copynumber: 9.8 Consensus size: 44
38498312 AACTTCAGGG
* * * * * ***
38498322 ACTTCAATCTGCTCCACAGTAACCTCAGAGAGATAAGATTTGCC
1 ACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATT
** *
38498366 ATCTTTGATCTGCCCCACTGCAACTTCAGAGGA-ATAAGA-C--TT
1 A-CTTCAATCTGCTCCACTGCAACTTCAG-GGAGATAAGATCTATT
* * * *
38498408 GCTTACTAAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACCTGATG
1 ACTT-C-AA-TCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-ATT
*** * * *
38498456 GGATCCA-CT-CT--ACTGTAACTTCAGAGAGATAAGATCTATT
1 ACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATT
* *
38498496 ACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TATT
1 ACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATT
* * * * * * * ***
38498539 GACCTCAATCTGTTCC-CTTGCAACCTCAGGAAGGTAAGTTTTGCC
1 -ACTTCAATCTGCTCCAC-TGCAACTTCAGGGAGATAAGATCTATT
* * * * *
38498584 ATCTTCGATCTGCCCCA-TGCAACTTCA-GCAGGATAAGACCTGCTT
1 A-CTTCAATCTGCTCCACTGCAACTTCAGGGA-GATAAGATCT-ATT
* * * * *
38498629 TC-TCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGA-C-CTG
1 ACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATT
* * * * * * *
38498670 A-TGCGATCTACTCTATTGCAACTTTAGAGAGATAAGATCTATT
1 ACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATT
* * * *
38498713 ATTTTAATCCGCTCTACTGCAACTTCAGGGAGATA
1 ACTTCAATCTGCTCCACTGCAACTTCAGGGAGATA
38498748 GGATTAGTGG
Statistics
Matches: 273, Mismatches: 82, Indels: 54
0.67 0.20 0.13
Matches are distributed among these distances:
40 4 0.01
41 56 0.21
42 3 0.01
43 25 0.09
44 137 0.50
45 41 0.15
46 3 0.01
47 1 0.00
48 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
ACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATT
Found at i:38500964 original size:6 final size:6
Alignment explanation
Indices: 38500946--38501018 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
38500936 CATTTTCATT
* * * *
38500946 TTTTGA CTTTGA TTTTGA TTTT-- TTTCT-- TTTTGC TTTTCA TTTTTA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTT-TGA TTTTGA TTTTGA TTTTGA
*
38500991 TTTTTA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
38501019 TTTCTTCTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
4 4 0.07
5 4 0.07
6 50 0.86
ACGTcount: A:0.12, C:0.05, G:0.10, T:0.73
Consensus pattern (6 bp):
TTTTGA
Found at i:38500983 original size:41 final size:39
Alignment explanation
Indices: 38500929--38501006 Score: 104
Period size: 39 Copynumber: 1.9 Consensus size: 39
38500919 TTTTTTCTCC
38500929 TCTTTTTCATTTTCATTTTTTGACTTTGATTTTGATTTTTT
1 TCTTTTTCATTTTCA-TTTTT-ACTTTGATTTTGATTTTTT
* *
38500970 TCTTTTTGC-TTTTCATTTTTATTTTTATTTTGATTTT
1 TCTTTTT-CATTTTCATTTTTACTTTGATTTTGATTTT
38501007 GATTTTGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 15 0.44
40 5 0.15
41 13 0.38
42 1 0.03
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.73
Consensus pattern (39 bp):
TCTTTTTCATTTTCATTTTTACTTTGATTTTGATTTTTT
Found at i:38507788 original size:43 final size:43
Alignment explanation
Indices: 38507737--38508001 Score: 275
Period size: 43 Copynumber: 6.2 Consensus size: 43
38507727 AAAGGGTATT
* * *
38507737 GTCTTTAGCGGCGTTTCTCGGATAAGCGCCGCTAAAGGTTATG
1 GTCTTTAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAGGTCATG
** * * *
38507780 GTCTTTAGCATCATTTGTTGGAAAAGCGCCGCTAAAGGTCATT
1 GTCTTTAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAGGTCATG
* *
38507823 GTCTTTAGCGGCGTTTGTCGGATAAGCACCGCTAAAGGTCATG
1 GTCTTTAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAGGTCATG
* * * *
38507866 G-CTTCAGCGGTGTTTGTTGGAAAAGCGCCGCTAAAGGTCATA
1 GTCTTTAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAGGTCATG
* **
38507908 GTCTTTAGCGGCGTTTGT-GGGAAAGCGCCGCTAAAGACCATG
1 GTCTTTAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAGGTCATG
** * * * * * *
38507950 ACCTTTAGCGGCGTTT-TTGGTGAAAGAGCTGCGAAAGGTCTTG
1 GTCTTTAGCGGCGTTTGTCGG-AAAAGCGCCGCTAAAGGTCATG
38507993 GTCTTTAGC
1 GTCTTTAGC
38508002 AGCATTTATT
Statistics
Matches: 182, Mismatches: 37, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
41 1 0.01
42 72 0.40
43 109 0.60
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (43 bp):
GTCTTTAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAGGTCATG
Found at i:38507918 original size:85 final size:86
Alignment explanation
Indices: 38507737--38507943 Score: 312
Period size: 85 Copynumber: 2.4 Consensus size: 86
38507727 AAAGGGTATT
* * *
38507737 GTCTTTAGCGGCGTTTCTCGGATAAGCGCCGCTAAAGGTTATGGTCTTTAGCATCATTTGTTGGA
1 GTCTTTAGCGGCGTTTGTCGGATAAGCGCCGCTAAAGGTCATGGTCTTCAGCATCATTTGTTGGA
*
38507802 AAAGCGCCGCTAAAGGTCATT
66 AAAGCGCCGCTAAAGGTCATA
* * *
38507823 GTCTTTAGCGGCGTTTGTCGGATAAGCACCGCTAAAGGTCATGG-CTTCAGCGGT-GTTTGTTGG
1 GTCTTTAGCGGCGTTTGTCGGATAAGCGCCGCTAAAGGTCATGGTCTTCAGC-ATCATTTGTTGG
38507886 AAAAGCGCCGCTAAAGGTCATA
65 AAAAGCGCCGCTAAAGGTCATA
*
38507908 GTCTTTAGCGGCGTTTGTGGGA-AAGCGCCGCTAAAG
1 GTCTTTAGCGGCGTTTGTCGGATAAGCGCCGCTAAAG
38507944 ACCATGACCT
Statistics
Matches: 111, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
84 13 0.12
85 56 0.50
86 42 0.38
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (86 bp):
GTCTTTAGCGGCGTTTGTCGGATAAGCGCCGCTAAAGGTCATGGTCTTCAGCATCATTTGTTGGA
AAAGCGCCGCTAAAGGTCATA
Found at i:38507960 original size:85 final size:85
Alignment explanation
Indices: 38507737--38508001 Score: 302
Period size: 85 Copynumber: 3.1 Consensus size: 85
38507727 AAAGGGTATT
* * * * *
38507737 GTCTTTAGCGGCGTTTCTCGGATAAGCGCCGCTAAAGGTTATGGTCTTTAGC-ATCATTTGTTGG
1 GTCTTTAGCGGCGTTTGTCGGATAAGCGCCGCTAAAGGTCAT-GCCTTTAGCGGT-GTTTGTTGG
*
38507801 AAAAGCGCCGCTAAAGGTCATT
64 AAAAGCGCCGCTAAAGGTCATA
* * *
38507823 GTCTTTAGCGGCGTTTGTCGGATAAGCACCGCTAAAGGTCATGGCTTCAGCGGTGTTTGTTGGAA
1 GTCTTTAGCGGCGTTTGTCGGATAAGCGCCGCTAAAGGTCATGCCTTTAGCGGTGTTTGTTGGAA
38507888 AAGCGCCGCTAAAGGTCATA
66 AAGCGCCGCTAAAGGTCATA
* ** *
38507908 GTCTTTAGCGGCGTTTGTGGGA-AAGCGCCGCTAAAGACCATGACCTTTAGCGGCGTTT-TTGGT
1 GTCTTTAGCGGCGTTTGTCGGATAAGCGCCGCTAAAGGTCATG-CCTTTAGCGGTGTTTGTTGG-
* * * * * *
38507971 GAAAGAGCTGCGAAAGGTCTTG
64 AAAAGCGCCGCTAAAGGTCATA
38507993 GTCTTTAGC
1 GTCTTTAGC
38508002 AGCATTTATT
Statistics
Matches: 155, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
84 21 0.14
85 94 0.61
86 40 0.26
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (85 bp):
GTCTTTAGCGGCGTTTGTCGGATAAGCGCCGCTAAAGGTCATGCCTTTAGCGGTGTTTGTTGGAA
AAGCGCCGCTAAAGGTCATA
Found at i:38515838 original size:2 final size:2
Alignment explanation
Indices: 38515833--38515857 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
38515823 CATACACGCA
38515833 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
38515858 GAGTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:38517569 original size:11 final size:11
Alignment explanation
Indices: 38517553--38517579 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
38517543 AAAGAGCTAT
38517553 TTATTATATTA
1 TTATTATATTA
38517564 TTATTATATTA
1 TTATTATATTA
38517575 TTATT
1 TTATT
38517580 TTGCATGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATTATATTA
Found at i:38523324 original size:19 final size:18
Alignment explanation
Indices: 38523302--38523344 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
38523292 CATTAATTTT
*
38523302 TTATTAAAAATCTAATTAG
1 TTATTAAAAATAT-ATTAG
* *
38523321 TTATAAAAAATATTTTAG
1 TTATTAAAAATATATTAG
38523339 TTATTA
1 TTATTA
38523345 TTTAATTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (18 bp):
TTATTAAAAATATATTAG
Found at i:38524959 original size:15 final size:15
Alignment explanation
Indices: 38524941--38525023 Score: 55
Period size: 15 Copynumber: 5.4 Consensus size: 15
38524931 ACTTAGAAAT
38524941 TTATTTGTATGTTAA
1 TTATTTGTATGTTAA
*
38524956 TTATTTGCATGTT-A
1 TTATTTGTATGTTAA
*
38524970 TT-TTAT-TACTTTATATA
1 TTATT-TGTA-TGT-TA-A
*
38524987 TTAATTGTATGTTAA
1 TTATTTGTATGTTAA
* *
38525002 ATATTTGTATATTAA
1 TTATTTGTATGTTAA
38525017 TATATTT
1 T-TATTT
38525024 AATTTAACGA
Statistics
Matches: 51, Mismatches: 9, Indels: 15
0.68 0.12 0.20
Matches are distributed among these distances:
13 3 0.06
14 6 0.12
15 26 0.51
16 7 0.14
17 6 0.12
18 3 0.06
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.59
Consensus pattern (15 bp):
TTATTTGTATGTTAA
Found at i:38526889 original size:19 final size:18
Alignment explanation
Indices: 38526867--38526910 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
38526857 TTGAATTAGA
*
38526867 AATTAGTTGTTGAATGTT
1 AATTAGTTGTTCAATGTT
*
38526885 GAATTAATTGTTCAATGTT
1 -AATTAGTTGTTCAATGTT
38526904 AATTAGT
1 AATTAGT
38526911 ATGAATTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (18 bp):
AATTAGTTGTTCAATGTT
Found at i:38529344 original size:25 final size:25
Alignment explanation
Indices: 38529309--38529378 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
38529299 CGTCTTGACC
38529309 CACAGCTCGTGTGAGCATACCGATT
1 CACAGCTCGTGTGAGCATACCGATT
* **
38529334 TACAGCTCGTGTGAGCATATTGATT
1 CACAGCTCGTGTGAGCATACCGATT
38529359 CACAGCTCGTGTGAGCATAC
1 CACAGCTCGTGTGAGCATAC
38529379 ATGTACAAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCATACCGATT
Found at i:38536927 original size:25 final size:25
Alignment explanation
Indices: 38536886--38537004 Score: 166
Period size: 25 Copynumber: 4.8 Consensus size: 25
38536876 ACCCATTTTC
*
38536886 ACAGCTCGTGTGAGCATACCAATTT
1 ACAGCTCGTGTGAGCATACCGATTT
* *
38536911 ACAACTCGTGTGGGCATACCGATTT
1 ACAGCTCGTGTGAGCATACCGATTT
* *
38536936 ACAGCTCATGTGAGGATACCGATTT
1 ACAGCTCGTGTGAGCATACCGATTT
* *
38536961 ACAGCTCATGTGAGCATATCGATTT
1 ACAGCTCGTGTGAGCATACCGATTT
*
38536986 ATAGCTCGTGTGAGCATAC
1 ACAGCTCGTGTGAGCATAC
38537005 ATGTCCAGGA
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 82 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCGATTT
Found at i:38542468 original size:25 final size:25
Alignment explanation
Indices: 38542399--38542565 Score: 194
Period size: 25 Copynumber: 6.7 Consensus size: 25
38542389 GACACACCAC
* *
38542399 AGCTCGTATGAACTTACCGATT-TC
1 AGCTCGTATGAGCTTACCGATTATT
* * * * *
38542423 AGCTCCTGA-GAGGTTATCGATTCTC
1 AGCTCGT-ATGAGCTTACCGATTATT
*
38542448 AGCTCGTTTGAGCTTACCGATTATT
1 AGCTCGTATGAGCTTACCGATTATT
* *
38542473 AGCTCGTATAAGCTTACCGTTTATT
1 AGCTCGTATGAGCTTACCGATTATT
* *
38542498 AGCTTGTATGAGCTTACCGATTGTT
1 AGCTCGTATGAGCTTACCGATTATT
*
38542523 AGCTCGTATGAGCTTACCGATTGTT
1 AGCTCGTATGAGCTTACCGATTATT
38542548 AGCTCGTATGAGCTTACC
1 AGCTCGTATGAGCTTACC
38542566 AATTTCCAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
24 16 0.13
25 106 0.87
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATTATT
Found at i:38542577 original size:75 final size:72
Alignment explanation
Indices: 38542399--38542606 Score: 220
Period size: 75 Copynumber: 2.8 Consensus size: 72
38542389 GACACACCAC
* * * *
38542399 AGCTCGTATGAACTTACCGATTTCAGCTCCTG-AGAGGTTATCGATTCTCAGCTCGTTTGAGCTT
1 AGCTCGTATGAGCTTACC-ATTTCAGCT--TGTAGAGCTTATCGATTCTTAGCTCGTATGAGCTT
38542463 ACCGATTATT
63 ACCGATTATT
* * * * *
38542473 AGCTCGTATAAGCTTACCGTTTATTAGCTTGTATGAGCTTACCGATTGTTAGCTCGTATGAGCTT
1 AGCTCGTATGAGCTTACC-ATT-TCAGCTTGTA-GAGCTTATCGATTCTTAGCTCGTATGAGCTT
*
38542538 ACCGATTGTT
63 ACCGATTATT
* *
38542548 AGCTCGTATGAGCTTACCAATTTCCAGCTTGTGAGAGCATATCGATTCATAGCTCGTAT
1 AGCTCGTATGAGCTTACC-ATTT-CAGCTTGT-AGAGCTTATCGATTCTTAGCTCGTAT
38542607 AAGCATACAT
Statistics
Matches: 111, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
73 2 0.02
74 21 0.19
75 87 0.78
76 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (72 bp):
AGCTCGTATGAGCTTACCATTTCAGCTTGTAGAGCTTATCGATTCTTAGCTCGTATGAGCTTACC
GATTATT
Found at i:38542594 original size:50 final size:50
Alignment explanation
Indices: 38542399--38542606 Score: 190
Period size: 50 Copynumber: 4.2 Consensus size: 50
38542389 GACACACCAC
* * * * *
38542399 AGCTCGTATGAACTTACCGATT-TCAGCTCCTGA-GAGGTTATCGATTCTC
1 AGCTCGTATGAGCTTACCGATTATCAGCTCGT-ATGAGCTTACCGATTCTT
* * * * *
38542448 AGCTCGTTTGAGCTTACCGATTATTAGCTCGTATAAGCTTACCGTTTATT
1 AGCTCGTATGAGCTTACCGATTATCAGCTCGTATGAGCTTACCGATTCTT
* * * *
38542498 AGCTTGTATGAGCTTACCGATTGTTAGCTCGTATGAGCTTACCGATTGTT
1 AGCTCGTATGAGCTTACCGATTATCAGCTCGTATGAGCTTACCGATTCTT
* * * * *
38542548 AGCTCGTATGAGCTTACCAATT-TCCAGCTTGTGA-GAGCATATCGATTCAT
1 AGCTCGTATGAGCTTACCGATTAT-CAGCTCGT-ATGAGCTTACCGATTCTT
38542598 AGCTCGTAT
1 AGCTCGTAT
38542607 AAGCATACAT
Statistics
Matches: 131, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
49 22 0.17
50 108 0.82
51 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.36
Consensus pattern (50 bp):
AGCTCGTATGAGCTTACCGATTATCAGCTCGTATGAGCTTACCGATTCTT
Found at i:38549890 original size:42 final size:42
Alignment explanation
Indices: 38549793--38549980 Score: 220
Period size: 42 Copynumber: 4.5 Consensus size: 42
38549783 TAATTCAGTA
* * *
38549793 CACCGGCACTT-AGCCTGCTAGACATATAA-TCTGA-AATATTT
1 CACCGGCA-TTAAGCCTGCTAGACGTA-AAGTCTGATATTGTTT
* *
38549834 CACTGGCATTAAGCCTACTAGACGTAAAGTCTGATATTGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
* * * *
38549876 CACCGGAATTAAGCCTGCTAGACGTAAAGTCTCAAATTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
38549918 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
* * * *
38549960 CACTGTCAATAAGCCAGCTAG
1 CACCGGCATTAAGCCTGCTAG
38549981 GCGCTAAGCC
Statistics
Matches: 125, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
40 4 0.03
41 25 0.20
42 96 0.77
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (42 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGATATTGTTT
Found at i:38549933 original size:84 final size:83
Alignment explanation
Indices: 38549804--38549962 Score: 257
Period size: 84 Copynumber: 1.9 Consensus size: 83
38549794 ACCGGCACTT
* *
38549804 AGCCTGCTAGACATATAATCTGAAATATTTCACTGGCATTAAGCCTACTAGACGTAAAGTCTGAT
1 AGCCTGCTAGACATATAATCTCAAATATTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGAT
38549869 ATTGTTTCACCGGAATTA
66 ATTGTTTCACCGGAATTA
* *
38549887 AGCCTGCTAGACGTA-AAGTCTCAAATTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTG
1 AGCCTGCTAGACATATAA-TCTCAAA-TATTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTG
38549951 ATATTGTTTCAC
64 ATATTGTTTCAC
38549963 TGTCAATAAG
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
82 2 0.03
83 20 0.29
84 48 0.69
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (83 bp):
AGCCTGCTAGACATATAATCTCAAATATTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGAT
ATTGTTTCACCGGAATTA
Found at i:38549973 original size:84 final size:83
Alignment explanation
Indices: 38549804--38549980 Score: 250
Period size: 84 Copynumber: 2.1 Consensus size: 83
38549794 ACCGGCACTT
* *
38549804 AGCCTGCTAGACATATAATCTGAAATATTTCACTGGCATTAAGCCTACTAGACGTAAAGTCTGAT
1 AGCCTGCTAGACATATAATCTCAAATATTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGAT
*
38549869 ATTGTTTCACCGGAATTA
66 ATTGTTTCACCGCAATTA
* *
38549887 AGCCTGCTAGACGTA-AAGTCTCAAATTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTG
1 AGCCTGCTAGACATATAA-TCTCAAA-TATTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTG
*
38549951 ATATTGTTTCACTGTCAA-TA
64 ATATTGTTTCACCG-CAATTA
*
38549971 AGCCAGCTAG
1 AGCCTGCTAG
38549981 GCGCTAAGCC
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
82 2 0.02
83 20 0.24
84 60 0.71
85 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (83 bp):
AGCCTGCTAGACATATAATCTCAAATATTTCACCGGCATTAAGCCTACTAGACGTAAAGTCTGAT
ATTGTTTCACCGCAATTA
Found at i:38553140 original size:26 final size:26
Alignment explanation
Indices: 38553104--38553167 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
38553094 AATTTTTCAG
38553104 GTATGTTTTAATCATTTCTTCCATAA
1 GTATGTTTTAATCATTTCTTCCATAA
*
38553130 GTATGTTTTAATCATTTCTTTCATAA
1 GTATGTTTTAATCATTTCTTCCATAA
*
38553156 GTTTGTTTTAAT
1 GTATGTTTTAAT
38553168 AAATGAATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.55
Consensus pattern (26 bp):
GTATGTTTTAATCATTTCTTCCATAA
Found at i:38566471 original size:38 final size:39
Alignment explanation
Indices: 38566394--38566574 Score: 192
Period size: 38 Copynumber: 4.6 Consensus size: 39
38566384 GCTACTCGTT
* *
38566394 CAAATGCCTTCGGGACATAG-CCGGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAACTCGCA
*
38566433 CAAATGCCTTCGGACTTAACCCGGAT-TAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCA
* * *
38566471 CAAA-GGCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
38566509 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATAGTAAC-TCGCA
38566550 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
38566575 CATCATTCAA
Statistics
Matches: 119, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
37 17 0.14
38 37 0.31
39 23 0.19
40 30 0.25
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:38573667 original size:79 final size:80
Alignment explanation
Indices: 38573567--38573751 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
38573557 GCTACTCGTT
* * *
38573567 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
38573630 GGATTTAGTAACTT-GCA
63 GGATATAGTAACTTAGCA
* **
38573647 CAAAGGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
38573711 ATATGGTCACTTAGCA
65 ATATAGTAACTTAGCA
38573727 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
38573752 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.62
80 32 0.35
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:38573751 original size:40 final size:41
Alignment explanation
Indices: 38573567--38573751 Score: 204
Period size: 40 Copynumber: 4.6 Consensus size: 41
38573557 GCTACTCGTT
* *
38573567 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* * *
38573607 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
38573647 CAAAGGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTCGCA
* * * *
38573686 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTCGCA
38573727 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38573752 CATCATTCAA
Statistics
Matches: 120, Mismatches: 17, Indels: 16
0.78 0.11 0.10
Matches are distributed among these distances:
38 3 0.03
39 29 0.24
40 75 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
Found at i:38579184 original size:19 final size:18
Alignment explanation
Indices: 38579147--38579205 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
38579137 GACCCCCTTT
*
38579147 ATTAAACATA-AAATTAAA
1 ATTAAA-ATAGAAATAAAA
38579165 ATTAAAATCAGAAATAAAA
1 ATTAAAAT-AGAAATAAAA
*
38579184 ATTAAAATGGAAATGAAAA
1 ATTAAAATAGAAAT-AAAA
38579203 ATT
1 ATT
38579206 TTGTTTTCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 2 0.06
18 12 0.33
19 22 0.61
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.25
Consensus pattern (18 bp):
ATTAAAATAGAAATAAAA
Found at i:38579204 original size:25 final size:25
Alignment explanation
Indices: 38579156--38579204 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
38579146 TATTAAACAT
* *
38579156 AAAATTAAAATTAAAATCAGAAATA
1 AAAATTAAAATGAAAATCAAAAATA
* *
38579181 AAAATTAAAATGGAAATGAAAAAT
1 AAAATTAAAATGAAAATCAAAAAT
38579205 TTTGTTTTCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.22
Consensus pattern (25 bp):
AAAATTAAAATGAAAATCAAAAATA
Found at i:38600506 original size:21 final size:21
Alignment explanation
Indices: 38600458--38600506 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
38600448 AAGAGACTCG
* *
38600458 AATTAAACATTTATTAAACTT
1 AATTAAACATTTACTAAAATT
*
38600479 AACTAAAC-TTTACTAAAATAT
1 AATTAAACATTTACTAAAAT-T
38600500 AATTAAA
1 AATTAAA
38600507 ACACAACTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (21 bp):
AATTAAACATTTACTAAAATT
Found at i:38605612 original size:22 final size:22
Alignment explanation
Indices: 38605581--38605625 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
38605571 CTCTCCACAT
38605581 AGGAGACACAACATAATATAAC
1 AGGAGACACAACATAATATAAC
*
38605603 AGGAGTCACAACATAATATAAC
1 AGGAGACACAACATAATATAAC
38605625 A
1 A
38605626 ATCATGGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.18, G:0.13, T:0.16
Consensus pattern (22 bp):
AGGAGACACAACATAATATAAC
Found at i:38606163 original size:4 final size:4
Alignment explanation
Indices: 38606154--38606179 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
38606144 AATAAAGTGA
38606154 TAAG TAAG TAAG TAAG TAAG TAAG TA
1 TAAG TAAG TAAG TAAG TAAG TAAG TA
38606180 TTGTGTCCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
TAAG
Found at i:38631850 original size:17 final size:19
Alignment explanation
Indices: 38631828--38631867 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
38631818 TTTAAGTTTA
38631828 TAATA-TTT-TATATTATG
1 TAATATTTTCTATATTATG
38631845 TAATATTTTCTATATTATG
1 TAATATTTTCTATATTATG
38631864 TAAT
1 TAAT
38631868 TTATAATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.24
18 3 0.14
19 13 0.62
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (19 bp):
TAATATTTTCTATATTATG
Found at i:38631987 original size:7 final size:7
Alignment explanation
Indices: 38631977--38632001 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38631967 AAAAATTATA
38631977 AAATATT
1 AAATATT
38631984 AAATATT
1 AAATATT
38631991 AAATATT
1 AAATATT
38631998 AAAT
1 AAAT
38632002 TAAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:38632431 original size:47 final size:47
Alignment explanation
Indices: 38632374--38632475 Score: 186
Period size: 47 Copynumber: 2.2 Consensus size: 47
38632364 TTAATTGATA
*
38632374 TTTAAAAATATTTAAAAATTAATTTAGAATTATTAGTTACAATGCTT
1 TTTAAAAATATTTAAAAATTAATTTAGAATTATTAGTTACAACGCTT
*
38632421 TTTTAAAATATTTAAAAATTAATTTAGAATTATTAGTTACAACGCTT
1 TTTAAAAATATTTAAAAATTAATTTAGAATTATTAGTTACAACGCTT
38632468 TTTAAAAA
1 TTTAAAAA
38632476 AATTGAAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (47 bp):
TTTAAAAATATTTAAAAATTAATTTAGAATTATTAGTTACAACGCTT
Found at i:38636457 original size:11 final size:11
Alignment explanation
Indices: 38636441--38636465 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38636431 TTAGTTTTTT
38636441 TTTCTTTATTA
1 TTTCTTTATTA
38636452 TTTCTTTATTA
1 TTTCTTTATTA
38636463 TTT
1 TTT
38636466 TATTTAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTTATTA
Found at i:38646153 original size:29 final size:30
Alignment explanation
Indices: 38646094--38646151 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
38646084 TCCGAGCCTT
*
38646094 GGGGAAAAAATGTAATTATGTAAAAGTTTA
1 GGGGAAAAAATGTAATTATGAAAAAGTTTA
* * *
38646124 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGAAAAAATGTAATTATGAAAAAGTT
38646152 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGAAAAAATGTAATTATGAAAAAGTTTA
Found at i:38646602 original size:50 final size:50
Alignment explanation
Indices: 38646489--38646730 Score: 277
Period size: 50 Copynumber: 4.7 Consensus size: 50
38646479 ATTTGGGTAA
* *
38646489 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGA-C--G
* * * *
38646545 AGAGGTCCCCTGTAAGACCATGTCCGGGACATGGCATGGGCTCCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
38646595 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
* * * *
38646645 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
**
38646695 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
38646731 TTTGGCATGT
Statistics
Matches: 163, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
50 91 0.56
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 37 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGACG
Found at i:38646679 original size:100 final size:103
Alignment explanation
Indices: 38646489--38646738 Score: 344
Period size: 100 Copynumber: 2.4 Consensus size: 103
38646479 ATTTGGGTAA
38646489 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
38646554 CTGTAAGACCATGTCCGGGACATGGCATGGGCTCCGAGACG
63 CTATAAGACCATGTCCGGGACATGGCATGGGCACCAAGACG
* * *
38646595 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
* * *
38646657 TAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
66 TAAGACCATGTCCGGGACATGGCATGGGCACCAAGACG
* *
38646695 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
38646739 GTTATTATCA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
100 49 0.38
101 39 0.30
105 2 0.02
106 40 0.31
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCCGGGACATGGCATGGGCACCAAGACG
Found at i:38654725 original size:132 final size:132
Alignment explanation
Indices: 38654488--38655543 Score: 1709
Period size: 132 Copynumber: 8.0 Consensus size: 132
38654478 ACCGGTGAAA
*
38654488 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
* * *
38654553 GCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTTTCCAAGATAGTGGGAAGCATATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
38654618 GC
131 GC
*
38654620 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
* *
38654685 GCAGTAGAGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAAATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
38654750 GC
131 GC
* *
38654752 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAAAAGGTTGAAGAGTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCT-A
*
38654817 AGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
65 AGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
*
38654882 GGC
130 AGC
* *
38654885 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
* *
38654950 GCAGTAGTGGAGCAGATTGAAGACGGCGAATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
38655015 GC
131 GC
*
38655017 CACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
*
38655082 GCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
38655147 GC
131 GC
* * *
38655149 CACCAAGCCTTGTCTCCCTGAGCAGTAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
* * * *
38655214 GTAGTAGTGGAGCATATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTGA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
38655279 GC
131 GC
* * * * *
38655281 CACCAAGCCTTGTCTCCTTGAGCAGCAGTGGAAAAGGTTGAAGAGTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCT-A
*
38655346 AGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
65 AGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
38655411 AGC
130 AGC
* * * * * * *
38655414 CACCAAGCCTTGTCTCCCAAAGCAGTAGCGGAGAAGGTTGAAG-TTTATAAATCTTATCTCCGTG
1 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGAGTGA-AGATCTTATCTCCCTA
* ** *
38655478 AGCAGTAGCGGAGCAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTA
65 AGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
38655543 A
130 A
38655544 TTCACCAAAT
Statistics
Matches: 860, Mismatches: 61, Indels: 6
0.93 0.07 0.01
Matches are distributed among these distances:
132 622 0.72
133 238 0.28
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:38655493 original size:529 final size:529
Alignment explanation
Indices: 38654488--38655543 Score: 1781
Period size: 529 Copynumber: 2.0 Consensus size: 529
38654478 ACCGGTGAAA
* *
38654488 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
* * *
38654553 GCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTTTCCAAGATAGTGGGAAGCATATTTAA
66 GCAGTAGCGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
38654618 GCCACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCT
131 GCCACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCT
*
38654683 AAGCAGTAGAGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAAATAGTGGGAAGCAGATTT
196 AAGCAGTAGAGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCAAAATAGTGGGAAGCAGATTT
*
38654748 AAGCCACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAAAAGGTTGAAGAGTGTAGATCTTATCTCC
261 AAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGTGGAAAAGGTTGAAGAGTGTAGATCTTATCTCC
* *
38654813 CTAAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
326 CTAAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
* ** * *
38654878 TTTAGGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGAAGATCTTATC
391 TTTAAGCCACCAAGCCTTGTCTCCCAAAGCAGCAGCGGAGAAGGTTGAAGAGTGAAAATCTTATC
* * *
38654943 TCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCGAATCTTATCTTTCCAAGATAATGGGAAGCA
456 TCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAATGGGAAGCA
38655008 GATTTAAGC
521 GATTTAAGC
38655017 CACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
*
38655082 GCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGCGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* *
38655147 GCCACCAAGCCTTGTCTCCCTGAGCAGTAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
131 GCCACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCT
* * * *
38655212 AAGTAGTAGTGGAGCATATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
196 AAGCAGTAGAGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCAAAATAGTGGGAAGCAGATTT
* * *
38655277 GAGCCACCAAGCCTTGTCTCCTTGAGCAGCAGTGGAAAAGGTTGAAGAGTGTAGATCTTATCTCC
261 AAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGTGGAAAAGGTTGAAGAGTGTAGATCTTATCTCC
38655342 CTAAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
326 CTAAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
* * *
38655407 TTTAAGCCACCAAGCCTTGTCTCCCAAAGCAGTAGCGGAGAAGGTTGAAG-TTTATAAATCTTAT
391 TTTAAGCCACCAAGCCTTGTCTCCCAAAGCAGCAGCGGAGAAGGTTGAAGAGTGA-AAATCTTAT
* * * * *
38655471 CTCCGTGAGCAGTAGCGGAGCAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGT
455 CTCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAATGGGAAGC
38655536 AGATTTAA
520 AGATTTAA
38655544 TTCACCAAAT
Statistics
Matches: 491, Mismatches: 35, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
528 2 0.00
529 489 1.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (529 bp):
CACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
GCAGTAGCGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GCCACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCT
AAGCAGTAGAGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCAAAATAGTGGGAAGCAGATTT
AAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGTGGAAAAGGTTGAAGAGTGTAGATCTTATCTCC
CTAAAGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
TTTAAGCCACCAAGCCTTGTCTCCCAAAGCAGCAGCGGAGAAGGTTGAAGAGTGAAAATCTTATC
TCCCTAAGCAGTAGCGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAATGGGAAGCA
GATTTAAGC
Found at i:38655566 original size:397 final size:397
Alignment explanation
Indices: 38654488--38655543 Score: 1785
Period size: 397 Copynumber: 2.7 Consensus size: 397
38654478 ACCGGTGAAA
* * *
38654488 CACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
* * *
38654553 GCAGTAGTGGAGCAGATCGAAGACAGTGAATCTTATCTTTCCAAGATAGTGGGAAGCATATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
38654618 GCCACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCT
131 GCCACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCT
* *
38654683 AAGCAGTAGAGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAAATAGTGGGAAGCAGATTT
196 AAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
*
38654748 AAGCCACCAAGCCTTGTCTCCCTAAGCAGTAGTGGAAAAGGTTGAAGAGTGTAGATCTTATCTCC
261 AAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGTGGAAAAGGTTGAAGAGTGTAGATCTTATCTCC
* *
38654813 CTAAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
326 CTAAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
38654878 TTTAGGC
391 TTTAGGC
38654885 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
* *
38654950 GCAGTAGTGGAGCAGATTGAAGACGGCGAATCTTATCTTTCCAAGATAATGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
38655015 GCCACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCT
131 GCCACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCT
38655080 AAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
196 AAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
* *
38655145 AAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCC
261 AAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGTGGAAAAGGTTGAAGAGTGTAGATCTTATCTCC
* *
38655210 CT-AAGTAGTAGTGGAGCATATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
326 CTAAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
38655274 TTT-GAGC
391 TTTAG-GC
* * *
38655281 CACCAAGCCTTGTCTCCTTGAGCAGCAGTGGAAAAGGTTGAAGAGTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCT-A
*
38655346 AGCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
65 AGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
* * *
38655411 AGCCACCAAGCCTTGTCTCCCAAAGCAGTAGCGGAGAAGGTTGAAG-TTTATAAATCTTATCTCC
130 AGCCACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGATTGA-AGATCTTATCTCC
* * ** *
38655475 GTGAGCAGTAGCGGAGCAGATCGAAGACGGTAAATCTTATCTTTCCAAGATAGTGGGAAGTAGAT
194 CTAAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGAT
38655540 TTAA
259 TTAA
38655544 TTCACCAAAT
Statistics
Matches: 622, Mismatches: 34, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
395 1 0.00
396 125 0.20
397 496 0.80
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (397 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGAGTGAAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GCCACCAAGCCTTGTCTCCCTAAGCAGTAGCGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCT
AAGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
AAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGTGGAAAAGGTTGAAGAGTGTAGATCTTATCTCC
CTAAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGA
TTTAGGC
Found at i:38656969 original size:11 final size:11
Alignment explanation
Indices: 38656953--38656977 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38656943 TTTAGTTTTT
38656953 TTTCTTTATTA
1 TTTCTTTATTA
38656964 TTTCTTTATTA
1 TTTCTTTATTA
38656975 TTT
1 TTT
38656978 TATTTAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTTATTA
Found at i:38658528 original size:26 final size:26
Alignment explanation
Indices: 38658499--38658551 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
38658489 AATTATTCTT
38658499 TATTATAAAATTTTCATT-TTATTTGA
1 TATTATAAAATTTT-ATTATTATTTGA
* * *
38658525 TATTCTTAACTTTTATTATTATTTGA
1 TATTATAAAATTTTATTATTATTTGA
38658551 T
1 T
38658552 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (26 bp):
TATTATAAAATTTTATTATTATTTGA
Found at i:38660205 original size:17 final size:17
Alignment explanation
Indices: 38660171--38660205 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
38660161 AAATATTATT
*
38660171 ATATTAAAATAAATAAA
1 ATATTAAAATAAAAAAA
*
38660188 ATATTTAAATAAAAAAA
1 ATATTAAAATAAAAAAA
38660205 A
1 A
38660206 GTCGAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATTAAAATAAAAAAA
Found at i:38671756 original size:50 final size:50
Alignment explanation
Indices: 38671648--38671944 Score: 267
Period size: 50 Copynumber: 5.8 Consensus size: 50
38671638 ATTTGGGTAA
* * *
38671648 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
38671704 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
38671754 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
38671804 AGAGGTCTCC-CGTAAGACCATGTATGGGACATGACATGGGCACCGATATG
1 AGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * *
38671854 AGAACTCCCATGTAAGACCATATCTGGGATATGGAATT-G-ACAGTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * *
38671903 AAACATCCCGTGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
38671945 TGTTATTATC
Statistics
Matches: 200, Mismatches: 36, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
48 3 0.01
49 36 0.18
50 117 0.58
51 2 0.01
53 3 0.01
55 1 0.00
56 38 0.19
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Done.