Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 200 of 216
Found at i:62166406 original size:25 final size:24
Alignment explanation
Indices: 62166378--62166456 Score: 86
Period size: 25 Copynumber: 3.2 Consensus size: 24
62166368 AGCTCCTTAG
62166378 AGCTGAATATCGAGAAGCTCATGCA
1 AGCTGAATATCG-GAAGCTCATGCA
* * * *
62166403 AGCTGTATAACGGAAAGCTCAAGCG
1 AGCTGAATATCGG-AAGCTCATGCA
*
62166428 AGTTGAATATCGGGAAGCTCATGCA
1 AGCTGAATATC-GGAAGCTCATGCA
62166453 AGCT
1 AGCT
62166457 ATGGTGTGTC
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
24 1 0.02
25 39 0.93
26 2 0.05
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (24 bp):
AGCTGAATATCGGAAGCTCATGCA
Found at i:62166435 original size:50 final size:49
Alignment explanation
Indices: 62166354--62166456 Score: 143
Period size: 50 Copynumber: 2.1 Consensus size: 49
62166344 TGCTCATATG
***
62166354 AGCTGTAAACGGAAAGCTCCTTAGAGCTGAATATCGAGAAGCTCATGCA
1 AGCTGTAAACGGAAAGCTCAAGAGAGCTGAATATCGAGAAGCTCATGCA
* * *
62166403 AGCTGTATAACGGAAAGCTCAAGCGAGTTGAATATCGGGAAGCTCATGCA
1 AGCTGTA-AACGGAAAGCTCAAGAGAGCTGAATATCGAGAAGCTCATGCA
62166453 AGCT
1 AGCT
62166457 ATGGTGTGTC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
49 7 0.15
50 40 0.85
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.20
Consensus pattern (49 bp):
AGCTGTAAACGGAAAGCTCAAGAGAGCTGAATATCGAGAAGCTCATGCA
Found at i:62167285 original size:3 final size:3
Alignment explanation
Indices: 62167277--62167302 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
62167267 TGGCTAGGTT
62167277 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
62167303 TATTTGGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:62168942 original size:17 final size:19
Alignment explanation
Indices: 62168906--62168944 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
62168896 TAGCATTTAA
*
62168906 TTTTAGAATATATATCTAT
1 TTTTAAAATATATATCTAT
62168925 TTTTAAAATATA-AT-TAT
1 TTTTAAAATATATATCTAT
62168942 TTT
1 TTT
62168945 GTTGATTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 11 0.58
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTTAAAATATATATCTAT
Found at i:62174053 original size:34 final size:34
Alignment explanation
Indices: 62174001--62174174 Score: 186
Period size: 34 Copynumber: 5.1 Consensus size: 34
62173991 ACTACTTTAA
* * * *
62174001 TGATTTGTTAGAAACATATGAATTGCTACCATAT
1 TGATCTGTTATAAGCATATTAATTGCTACCATAT
* * * *
62174035 TGATTTGTTGTAAGCATATAAATTGCTATCATAT
1 TGATCTGTTATAAGCATATTAATTGCTACCATAT
* ** *
62174069 TGATCTGTTATAAGCATATTAATTGTTACTGTTT
1 TGATCTGTTATAAGCATATTAATTGCTACCATAT
* * ** *
62174103 TGATCTATTATAAGCATATTAATTACTACTGTAC
1 TGATCTGTTATAAGCATATTAATTGCTACCATAT
*
62174137 TGATCTGTTACAAGCATATTAATTGCTACCATAT
1 TGATCTGTTATAAGCATATTAATTGCTACCATAT
62174171 TGAT
1 TGAT
62174175 ATGTGCATGT
Statistics
Matches: 116, Mismatches: 24, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 116 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (34 bp):
TGATCTGTTATAAGCATATTAATTGCTACCATAT
Found at i:62177940 original size:60 final size:60
Alignment explanation
Indices: 62177871--62177989 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
62177861 ATATTATATC
* *
62177871 AATAATTAGATAAAATCAAAATTCATGTAAACAATTGCATATTAAACCATAGTTGATGTT
1 AATAATTAGATAAAATCAAAATTCATGTAAACAATTACATATAAAACCATAGTTGATGTT
*
62177931 AATAATTAGATCAAATCAAAATTCATGTAAACAATTACATATAAAACCATAGTTGATGT
1 AATAATTAGATAAAATCAAAATTCATGTAAACAATTACATATAAAACCATAGTTGATGT
62177990 ATAACTTTGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (60 bp):
AATAATTAGATAAAATCAAAATTCATGTAAACAATTACATATAAAACCATAGTTGATGTT
Found at i:62177990 original size:31 final size:30
Alignment explanation
Indices: 62177895--62177990 Score: 86
Period size: 31 Copynumber: 3.2 Consensus size: 30
62177885 ATCAAAATTC
*
62177895 ATGTAAACAATTGCATATTAAACCATAGTTG
1 ATGTAAACAATT-CATATAAAACCATAGTTG
* * * * * * * *
62177926 ATGTTAATAATT-AGATCAAATCAAAATTC
1 ATGTAAACAATTCATATAAAACCATAGTTG
62177955 ATGTAAACAATTACATATAAAACCATAGTTG
1 ATGTAAACAATT-CATATAAAACCATAGTTG
62177986 ATGTA
1 ATGTA
62177991 TAACTTTGAG
Statistics
Matches: 47, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
29 21 0.45
31 26 0.55
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.32
Consensus pattern (30 bp):
ATGTAAACAATTCATATAAAACCATAGTTG
Found at i:62184242 original size:32 final size:31
Alignment explanation
Indices: 62184192--62184253 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
62184182 AGTATGATGA
62184192 ATAATATAAATAACAATAT-TATAAAATAATG
1 ATAATATAAATAACAATATAT-TAAAATAATG
* *
62184223 ATAATAATAAATGATAATATATTAAAATAAT
1 ATAAT-ATAAATAACAATATATTAAAATAAT
62184254 AAAGAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 5 0.19
32 21 0.78
33 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (31 bp):
ATAATATAAATAACAATATATTAAAATAATG
Found at i:62185890 original size:43 final size:43
Alignment explanation
Indices: 62185842--62186634 Score: 565
Period size: 43 Copynumber: 18.3 Consensus size: 43
62185832 CGCTGTAACT
* ** ***
62185842 TTAGGGAGATAGGATTGGTTTCTTCTGTCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* * *
62185885 TTAGGGAGATAAGACTTGAT-GC---GATCTGCTCCACTACTGC
1 TTAGGGAGATAAGA-TTGGTGGCTTAAATCTGCTTCACTACTGC
***** * * * * *
62185925 TTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGC
1 TTAGGGAGATAAGAT-TGGTGGCTTAAATCTGCTTCACTACTGC
* * *
62185969 TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* *
62186012 TTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* * * ** *
62186055 TTAGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCTACTACTGC
1 TTAGGGAGATAAGATT-GGTGGCTTAAATCTGCTTC-ACTACTGC
* ***** ** * * *
62186100 TTAGGGAGATAAAATCTACCATCTTTGACCTACTCCACTACTGC
1 TTAGGGAGATAAGAT-TGGTGGCTTAAATCTGCTTCACTACTGC
* *
62186144 TTAGGGAGATATGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* *
62186187 TTAGGAAGATAAGATTGGTGGCTTAAATCTACTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* *
62186230 TTAGGAAGATAAGATTGGTAGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* ** * **
62186273 TTAGGAAGATAAGATTCACTGTCTTCGATCTG-TTCCTACTACTGC
1 TTAGGGAGATAAGATT-GGTGGCTTAAATCTGCTT-C-ACTACTGC
***** ** * * *
62186318 TTAGGGAGAT-AGAATCTACCATCTTTGACCTACTCCACTACTGC
1 TTAGGGAGATAAG-AT-TGGTGGCTTAAATCTGCTTCACTACTGC
* *
62186362 TTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
*** *
62186405 TTAAAAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* * *
62186448 TTAGGAAAATAAGATTGGTGGCTTAAATCAGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
* *** * ** *
62186491 TTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCTACTACTGC
1 TTAGGGAGATAAGATT-GGTGGCTTAAATCTGCTTC-ACTACTGC
***** ** * * *
62186536 TTAGGGAGAT-AGAATCTACCATCTTTGACCTACTCCACTACTGC
1 TTAGGGAGATAAG-AT-TGGTGGCTTAAATCTGCTTCACTACTGC
* * *
62186580 TTAGAGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
*
62186623 TTAGGAAGATAA
1 TTAGGGAGATAA
62186635 AACTTGATAA
Statistics
Matches: 602, Mismatches: 127, Indels: 42
0.78 0.16 0.05
Matches are distributed among these distances:
39 1 0.00
40 30 0.05
41 1 0.00
43 340 0.56
44 126 0.21
45 100 0.17
46 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
TTAGGGAGATAAGATTGGTGGCTTAAATCTGCTTCACTACTGC
Found at i:62186162 original size:175 final size:171
Alignment explanation
Indices: 62185869--62186462 Score: 701
Period size: 175 Copynumber: 3.4 Consensus size: 171
62185859 GTTTCTTCTG
* * *
62185869 TCTGCTTCACTACTGCTTAGGGAGATAAGACTTGATGC---GATCTGCTCCACTACTGCTTAGGG
1 TCTGCTTCACTACTGCTTAGGAAGATAAGA-TTGGTGCTTAAATCTGCTCCACTACTGCTTAGGG
* * *
62185931 AGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAA
65 AGATAAGATCTACAATCTTCGACCTACTCCACTACTGCTTAGGGAGATA-GACTGGTGGCTTAAA
62185996 TCTGCTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAA
129 TCTGCTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAA
* **
62186039 TCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCTACTACTGCTTAG
1 TCTGCTTCACTACTGCTTAGGAAGATAAGATT-GGTG-CTTAAATCTGCTCC-ACTACTGCTTAG
* * *
62186104 GGAGATAAAATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATATGACTGGTGGCTTA
63 GGAGATAAGATCTACAATCTTCGACCTACTCCACTACTGCTTAGGGAGATA-GACTGGTGGCTTA
*
62186169 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTGGTGGCTTAAA
127 AATCTGCTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAA
* * *
62186214 TCTACTTCACTACTGCTTAGGAAGATAAGATTGGTAGCTTAAATCTGCTTCACTACTGCTTAGGA
1 TCTGCTTCACTACTGCTTAGGAAGATAAGATTGGT-GCTTAAATCTGCTCCACTACTGCTTAGGG
** * ** *****
62186279 AGATAAGAT-TCACTGTCTTCGATCTGTTCCTACTACTGCTTAGGGAGATAGAATCTACCATCTT
65 AGATAAGATCT-ACAATCTTCGACCTACTCC-ACTACTGCTTAGGGAGATAG-A-CTGGTGGCTT
** * * * * *
62186343 TGACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAA
126 AAATCTGCTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAA
** * * *
62186389 TCTGCTTCACTACTGCTTAAAAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
1 TCTGCTTCACTACTGCTTAGGAAGATAAGATTGGT-GCTTAAATCTGCTCCACTACTGCTTAGGG
*
62186454 AAATAAGAT
65 AGATAAGAT
62186463 TGGTGGCTTA
Statistics
Matches: 371, Mismatches: 42, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
169 2 0.01
170 32 0.09
171 1 0.00
172 1 0.00
173 35 0.09
174 43 0.12
175 257 0.69
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (171 bp):
TCTGCTTCACTACTGCTTAGGAAGATAAGATTGGTGCTTAAATCTGCTCCACTACTGCTTAGGGA
GATAAGATCTACAATCTTCGACCTACTCCACTACTGCTTAGGGAGATAGACTGGTGGCTTAAATC
TGCTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAA
Found at i:62186224 original size:218 final size:218
Alignment explanation
Indices: 62185960--62186634 Score: 1188
Period size: 218 Copynumber: 3.1 Consensus size: 218
62185950 CAACCTACTC
* * * *
62185960 CACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAG
1 CACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAG
* *
62186025 ACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCTGTCTTCGATCTGCTC
66 ATTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACTGTCTTCGATCTGCTC
*
62186090 CTACTACTGCTTAGGGAGATAAAATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATA
131 CTACTACTGCTTAGGGAGATAGAATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATA
*
62186155 TGACTGGTGGCTTAAATCTGCTT
196 GGACTGGTGGCTTAAATCTGCTT
* *
62186178 CACTACTGCTTAGGAAGATAAGATTGGTGGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAG
1 CACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAG
* *
62186243 ATTGGTAGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACTGTCTTCGATCTGTTC
66 ATTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACTGTCTTCGATCTGCTC
62186308 CTACTACTGCTTAGGGAGATAGAATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATA
131 CTACTACTGCTTAGGGAGATAGAATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATA
62186373 GGACTGGTGGCTTAAATCTGCTT
196 GGACTGGTGGCTTAAATCTGCTT
** *
62186396 CACTACTGCTTAAAAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAAATAAG
1 CACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAG
* *
62186461 ATTGGTGGCTTAAATCAGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTC
66 ATTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACTGTCTTCGATCTGCTC
*
62186526 CTACTACTGCTTAGGGAGATAGAATCTACCATCTTTGACCTACTCCACTACTGCTTAGAGAGATA
131 CTACTACTGCTTAGGGAGATAGAATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATA
62186591 GGACTGGTGGCTTAAATCTGCTT
196 GGACTGGTGGCTTAAATCTGCTT
62186614 CACTACTGCTTAGGAAGATAA
1 CACTACTGCTTAGGAAGATAA
62186635 AACTTGATAA
Statistics
Matches: 433, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
218 433 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (218 bp):
CACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAG
ATTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACTGTCTTCGATCTGCTC
CTACTACTGCTTAGGGAGATAGAATCTACCATCTTTGACCTACTCCACTACTGCTTAGGGAGATA
GGACTGGTGGCTTAAATCTGCTT
Found at i:62186463 original size:175 final size:174
Alignment explanation
Indices: 62185990--62186634 Score: 629
Period size: 175 Copynumber: 3.7 Consensus size: 174
62185980 GGACTGGTGG
* * *
62185990 CTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 CTTAGATCTGCTCCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTACTTCACTACTGC
* * * * ** * * *
62186055 TTAGGAAGATAAGATTCGCTGTCTTCGATCTGCTCCTACTACTGCTTAGGGAGATAA-AATCTAC
66 TTAGAAAGATAAGACT-GGTGGCTTAAATCTGCTTC-ACTACTGCTTAGGAAGATAAGATTC-AC
** * * ** *** *
62186119 CATCTTTGACCTACTCCACTACTGCTTAGGGAGATATG-A-CTGGTGG
128 TGTCTTAGATCTGTTCCACTACTGCTTAGGGAGATA-GAATCTACCGT
* * *
62186165 CTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTGGTGGCTTAAATCTACTTCACTACTGC
1 CTTAGATCTGCTCCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTACTTCACTACTGC
* * *
62186230 TTAGGAAGATAAGATTGGTAGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACTGT
66 TTAGAAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACTGT
* *
62186295 CTTCGATCTGTTCCTACTACTGCTTAGGGAGATAGAATCTACCAT
131 CTTAGATCTGTTCC-ACTACTGCTTAGGGAGATAGAATCTACCGT
* * * * * *
62186340 CTTTGACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGC
1 CTTAGATCTGCTCCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTACTTCACTACTGC
* * ** *
62186405 TTAAAAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAAATAAGATT-GGTGG
66 TTAGAAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACTGT
* * * *
62186469 CTTAAATCAGCTT-CACTACTGCTTAGGAAGATAAGATTC-ACCGT
131 CTTAGATCTG-TTCCACTACTGCTTAGGGAGAT-AGAATCTACCGT
* * ***** ** * *
62186513 CTTCGATCTGCTCCTACTACTGCTTAGGGAGAT-AGAATCTACCATCTTTGACCTACTCCACTAC
1 CTTAGATCTGCTCC-ACTACTGCTTAGGAAGATAAG-A-CTGGTGGCTTAAATCTACTTCACTAC
* *
62186577 TGCTTAGAGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAA
63 TGCTTAGAAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAA
62186635 AACTTGATAA
Statistics
Matches: 399, Mismatches: 62, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
173 66 0.17
174 70 0.18
175 263 0.66
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (174 bp):
CTTAGATCTGCTCCACTACTGCTTAGGAAGATAAGACTGGTGGCTTAAATCTACTTCACTACTGC
TTAGAAAGATAAGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACTGT
CTTAGATCTGTTCCACTACTGCTTAGGGAGATAGAATCTACCGT
Found at i:62187640 original size:108 final size:108
Alignment explanation
Indices: 62187431--62187652 Score: 293
Period size: 108 Copynumber: 2.1 Consensus size: 108
62187421 CAGTCCATCT
* * * **
62187431 TGAAAAAGATTATCAAAATGGACAAGATGGAATTTAATTGAGAATAAGGCTCAAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGACAAGATGAAATTTAACTGAGAACAAAACTCAAAATGAATAAAT
*
62187496 TAATCAAAATAGCAAATTTTGCTAAGATTCAGAATGAATAAGA
66 TAATCAAAATAGCAAATTTTGCTAAGATTCAAAATGAATAAGA
* * * * * * *
62187539 TTAAAAGGATTATCACAATGGATAAGATGAAATTTTACTGATAACAAAACTCGAAATGAATAAAT
1 TGAAAAAGATTATCAAAATGGACAAGATGAAATTTAACTGAGAACAAAACTCAAAATGAATAAAT
* *
62187604 TAGTCAAAATAGCAAATTTTGCTAAGATAT-AAAATGAATGAGA
66 TAATCAAAATAGCAAATTTTGCTAAGAT-TCAAAATGAATAAGA
62187647 TGAAAA
1 TGAAAA
62187653 CGGGTGCCCC
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
108 96 0.99
109 1 0.01
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.27
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAGATGAAATTTAACTGAGAACAAAACTCAAAATGAATAAAT
TAATCAAAATAGCAAATTTTGCTAAGATTCAAAATGAATAAGA
Found at i:62199239 original size:32 final size:31
Alignment explanation
Indices: 62199189--62199250 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
62199179 AGTATGATGA
62199189 ATAATATAAATAACAATAT-TATAAAATAATG
1 ATAATATAAATAACAATATAT-TAAAATAATG
* *
62199220 ATAATAATAAATGATAATATATTAAAATAAT
1 ATAAT-ATAAATAACAATATATTAAAATAAT
62199251 AAAGAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 5 0.19
32 21 0.78
33 1 0.04
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (31 bp):
ATAATATAAATAACAATATATTAAAATAATG
Found at i:62207317 original size:13 final size:13
Alignment explanation
Indices: 62207299--62207325 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62207289 ATTTAGTATT
62207299 TATATAATAAATA
1 TATATAATAAATA
62207312 TATATAATAAATA
1 TATATAATAAATA
62207325 T
1 T
62207326 TTTTTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATAATAAATA
Found at i:62211582 original size:25 final size:25
Alignment explanation
Indices: 62211554--62211604 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
62211544 TAGAAGGATA
*
62211554 TGGGTTTGAATAAGCTGAAGCGCAT
1 TGGGTTTGAATAAGCTGAAGCACAT
62211579 TGGGTTTGAATAAGCTGAAGCACAT
1 TGGGTTTGAATAAGCTGAAGCACAT
62211604 T
1 T
62211605 ATCTTTCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (25 bp):
TGGGTTTGAATAAGCTGAAGCACAT
Found at i:62211931 original size:19 final size:18
Alignment explanation
Indices: 62211909--62211966 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
62211899 TTTATGCTTC
62211909 TTTTTAATTTTTATAATT
1 TTTTTAATTTTTATAATT
*
62211927 TTTTTATATTATT-TAATT
1 TTTTTA-ATTTTTATAATT
*
62211945 TTTTGAATGTTTTATAATT
1 TTTTTAAT-TTTTATAATT
62211964 TTT
1 TTT
62211967 AAATGGGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 2 0.06
18 19 0.56
19 13 0.38
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTTAATTTTTATAATT
Found at i:62211967 original size:9 final size:8
Alignment explanation
Indices: 62211909--62211966 Score: 53
Period size: 9 Copynumber: 6.5 Consensus size: 8
62211899 TTTATGCTTC
62211909 TTTTTAAT
1 TTTTTAAT
62211917 TTTTATAATT
1 TTTT-TAA-T
62211927 TTTTTATAT
1 TTTTTA-AT
*
62211936 TATTTAAT
1 TTTTTAAT
62211944 TTTTTGAAT
1 TTTTT-AAT
62211953 GTTTTATAAT
1 -TTTT-TAAT
62211963 TTTT
1 TTTT
62211967 AAATGGGTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
8 10 0.24
9 18 0.43
10 13 0.31
11 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (8 bp):
TTTTTAAT
Found at i:62215140 original size:21 final size:21
Alignment explanation
Indices: 62215111--62215150 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
62215101 AAATACTAAA
*
62215111 AAATTTTATTA-AGAAAATAAT
1 AAATATTATTACA-AAAATAAT
62215132 AAATATTATTACAAAAATA
1 AAATATTATTACAAAAATA
62215151 TTTTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
AAATATTATTACAAAAATAAT
Found at i:62218882 original size:29 final size:30
Alignment explanation
Indices: 62218849--62218916 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
62218839 TCAAAACTTT
62218849 ATGTATAAAATTGCACA-AAATCAAAGTTC
1 ATGTATAAAATTGCACATAAATCAAAGTTC
*** *
62218878 ATGTATGGCATTGCACATTAGATCAAAGTTC
1 ATGTATAAAATTGCACA-TAAATCAAAGTTC
62218909 ATGTATAA
1 ATGTATAA
62218917 TTTTGATATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 14 0.45
31 17 0.55
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (30 bp):
ATGTATAAAATTGCACATAAATCAAAGTTC
Found at i:62222084 original size:6 final size:6
Alignment explanation
Indices: 62222073--62222103 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
62222063 AGATTGGATA
62222073 TGGGCT TGGGCT TGGGCT TGGGCT TGGGCT T
1 TGGGCT TGGGCT TGGGCT TGGGCT TGGGCT T
62222104 AGTTGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.35
Consensus pattern (6 bp):
TGGGCT
Found at i:62223000 original size:11 final size:11
Alignment explanation
Indices: 62222986--62223051 Score: 66
Period size: 11 Copynumber: 5.9 Consensus size: 11
62222976 TTAAATATGG
62222986 ATTTGAGAGAA
1 ATTTGAGAGAA
*
62222997 ATTTG-GAAGGA
1 ATTTGAG-AGAA
62223008 ATTTGAGAGCAA
1 ATTTGAGAG-AA
62223020 A-TTGAGAGGAA
1 ATTTGAGA-GAA
62223031 A-TTGAGAGGAA
1 ATTTGAGA-GAA
62223042 ATTTGAGAGA
1 ATTTGAGAGA
62223052 GGATTAATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
10 1 0.02
11 37 0.77
12 10 0.21
ACGTcount: A:0.42, C:0.02, G:0.32, T:0.24
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:62223011 original size:22 final size:23
Alignment explanation
Indices: 62222986--62223054 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 23
62222976 TTAAATATGG
62222986 ATTTGAGAGAAATTTGGA-AGGA
1 ATTTGAGAGAAATTTGGAGAGGA
62223008 ATTTGAGAGCAAA-TT-GAGAGGA
1 ATTTGAGAG-AAATTTGGAGAGGA
*
62223030 AATTGAGAGGAAATTTGAGAGAGGA
1 ATTTGAGA-GAAATTTG-GAGAGGA
62223055 TTAATTTGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
21 2 0.05
22 25 0.62
23 6 0.15
25 7 0.17
ACGTcount: A:0.42, C:0.01, G:0.33, T:0.23
Consensus pattern (23 bp):
ATTTGAGAGAAATTTGGAGAGGA
Found at i:62223054 original size:14 final size:11
Alignment explanation
Indices: 62223004--62223050 Score: 67
Period size: 11 Copynumber: 4.2 Consensus size: 11
62222994 GAAATTTGGA
*
62223004 AGGAATTTGAG
1 AGGAAATTGAG
*
62223015 AGCAAATTGAG
1 AGGAAATTGAG
62223026 AGGAAATTGAG
1 AGGAAATTGAG
62223037 AGGAAATTTGAG
1 AGGAAA-TTGAG
62223049 AG
1 AG
62223051 AGGATTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 25 0.78
12 7 0.22
ACGTcount: A:0.43, C:0.02, G:0.34, T:0.21
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:62224981 original size:24 final size:24
Alignment explanation
Indices: 62224933--62225017 Score: 120
Period size: 23 Copynumber: 3.6 Consensus size: 24
62224923 CGTTATTGGG
62224933 AAAGGATGAATTGACG-AAAATGT
1 AAAGGATGAATTGACGAAAAATGT
62224956 AAAGGATGAATTGACGAAAAATGT
1 AAAGGATGAATTGACGAAAAATGT
* **
62224980 AAAGGATGAATTGA-TAGTAATGT
1 AAAGGATGAATTGACGAAAAATGT
*
62225003 AAATGATGAATTGAC
1 AAAGGATGAATTGAC
62225018 CGTAAGTTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
23 35 0.62
24 21 0.38
ACGTcount: A:0.47, C:0.04, G:0.25, T:0.25
Consensus pattern (24 bp):
AAAGGATGAATTGACGAAAAATGT
Found at i:62226772 original size:83 final size:82
Alignment explanation
Indices: 62226605--62226772 Score: 237
Period size: 83 Copynumber: 2.0 Consensus size: 82
62226595 AAAAAATGAT
* * *
62226605 TATTGAATCAATTTATAAGTTGTTTAAATTTTTTACTTTTTACTTGTTTATTTAATCATTGTTGG
1 TATTGAATCAATTTATAAGTTGTTTAAATTTTTTACTTTTTACTTGTTTAATTAATCATTATTAG
* *
62226670 AATGACGATTGAATGAA
66 AATGACGATCGAATCAA
* * *
62226687 TATTGAATTAATTTATAAGTTGTTTAATTTTTTTTATTTTTTACTTGTTTAATTAATCATTATTA
1 TATTGAATCAATTTATAAGTTGTTTAA-ATTTTTTACTTTTTACTTGTTTAATTAATCATTATTA
* *
62226752 GAATGACGGTCGGATCAA
65 GAATGACGATCGAATCAA
62226770 TAT
1 TAT
62226773 GGTTTTCAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
82 26 0.35
83 49 0.65
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.51
Consensus pattern (82 bp):
TATTGAATCAATTTATAAGTTGTTTAAATTTTTTACTTTTTACTTGTTTAATTAATCATTATTAG
AATGACGATCGAATCAA
Found at i:62228581 original size:13 final size:13
Alignment explanation
Indices: 62228563--62228628 Score: 71
Period size: 13 Copynumber: 5.1 Consensus size: 13
62228553 AGTTTAACAT
62228563 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
62228576 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
62228589 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
* *
62228602 TGCATTTGAGAAG
1 TGCTTTTGAAAAG
*
62228615 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
62228628 T
1 T
62228629 TTAGCTTAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
12 2 0.05
13 39 0.93
14 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:62229929 original size:15 final size:15
Alignment explanation
Indices: 62229911--62229955 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
62229901 TATGGGTACC
62229911 ATTAATTGCACCTAT
1 ATTAATTGCACCTAT
*
62229926 ATTAATTGCACCTAC
1 ATTAATTGCACCTAT
*
62229941 AATAATTGCACCTAT
1 ATTAATTGCACCTAT
62229956 GCAATCCTGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (15 bp):
ATTAATTGCACCTAT
Found at i:62230716 original size:72 final size:72
Alignment explanation
Indices: 62230606--62230790 Score: 291
Period size: 72 Copynumber: 2.6 Consensus size: 72
62230596 AACAAATTTT
* *
62230606 ATATCC-AAAATCAAACATAAACAACTATTGATAAAACTAGATTATACATAAATAAGTAGAACAT
1 ATATCCAAAAATCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTACAACAT
62230670 AAATTCA
66 AAATTCA
* * * *
62230677 ATATCCAAAAACCAAACATAAGCAACTATTGATACAACTAGATTACACATAAATAAGTACAATAT
1 ATATCCAAAAATCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTACAACAT
62230742 AAATTCA
66 AAATTCA
*
62230749 ATATCCAAAAATCAAACATAAACAACAATTGATAAAAACTAG
1 ATATCCAAAAATCAAACATAAACAACTATTGAT-AAAACTAG
62230791 TTTTGCATTG
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
71 6 0.06
72 89 0.87
73 7 0.07
ACGTcount: A:0.55, C:0.16, G:0.05, T:0.23
Consensus pattern (72 bp):
ATATCCAAAAATCAAACATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTACAACAT
AAATTCA
Found at i:62231957 original size:7 final size:7
Alignment explanation
Indices: 62231939--62231973 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
62231929 TATGAAGGAG
62231939 AAAGTAAA
1 AAAG-AAA
*
62231947 AAAGGAA
1 AAAGAAA
62231954 AAAGAAA
1 AAAGAAA
62231961 AAAGAAA
1 AAAGAAA
62231968 AAAGAA
1 AAAGAA
62231974 GCATACCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (7 bp):
AAAGAAA
Found at i:62231963 original size:14 final size:14
Alignment explanation
Indices: 62231933--62231973 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
62231923 TTTACCTATG
*
62231933 AAGGAGAAAGTAAAA
1 AAGGAAAAAG-AAAA
62231948 AAGGAAAAAGAAAA
1 AAGGAAAAAGAAAA
*
62231962 AAGAAAAAAGAA
1 AAGGAAAAAGAA
62231974 GCATACCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (14 bp):
AAGGAAAAAGAAAA
Found at i:62237842 original size:21 final size:20
Alignment explanation
Indices: 62237807--62237852 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
62237797 CTATATGAGT
* *
62237807 AAATTTAACTCAATTTAATG
1 AAATTTAACTCAATTCAATC
*
62237827 AAATTTATATTCAATTCAATC
1 AAATTTA-ACTCAATTCAATC
62237848 AAATT
1 AAATT
62237853 CACATTTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (20 bp):
AAATTTAACTCAATTCAATC
Found at i:62243395 original size:15 final size:14
Alignment explanation
Indices: 62243375--62243435 Score: 63
Period size: 15 Copynumber: 4.3 Consensus size: 14
62243365 AGACAACGCC
62243375 CAGCAGCAACAGCAG
1 CAGCAGCAACAG-AG
*
62243390 CAGCAGCCACAAGAG
1 CAGCAGCAAC-AGAG
62243405 CAGCAGCAACA-AG
1 CAGCAGCAACAGAG
*
62243418 -AGCAACAACAGCAG
1 CAGCAGCAACAG-AG
62243432 CAGC
1 CAGC
62243436 CACAACCGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
12 9 0.23
13 2 0.05
14 3 0.08
15 23 0.59
16 2 0.05
ACGTcount: A:0.43, C:0.33, G:0.25, T:0.00
Consensus pattern (14 bp):
CAGCAGCAACAGAG
Found at i:62243440 original size:15 final size:15
Alignment explanation
Indices: 62243375--62243447 Score: 59
Period size: 15 Copynumber: 5.3 Consensus size: 15
62243365 AGACAACGCC
*
62243375 CAGCAGCAACAGCAG
1 CAGCAGCAACAACAG
*
62243390 CAGCAGCCAC-A-AG
1 CAGCAGCAACAACAG
*
62243403 -AGCAGCAGCAACA-
1 CAGCAGCAACAACAG
62243416 -AG-AGCAACAACAG
1 CAGCAGCAACAACAG
* *
62243429 CAGCAGCCACAACCG
1 CAGCAGCAACAACAG
62243444 CAGC
1 CAGC
62243448 TGCCGCGAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
12 16 0.35
13 5 0.11
14 3 0.07
15 22 0.48
ACGTcount: A:0.41, C:0.36, G:0.23, T:0.00
Consensus pattern (15 bp):
CAGCAGCAACAACAG
Found at i:62243510 original size:18 final size:18
Alignment explanation
Indices: 62243476--62243514 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
62243466 AACTGGTCAA
*
62243476 GGTTAAGAAAGTAGTGGT
1 GGTTAAGAAAGAAGTGGT
62243494 GGTTAAG-AAGAAGGTGGT
1 GGTTAAGAAAGAA-GTGGT
62243512 GGT
1 GGT
62243515 GGGAGCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.31, C:0.00, G:0.44, T:0.26
Consensus pattern (18 bp):
GGTTAAGAAAGAAGTGGT
Found at i:62243524 original size:3 final size:3
Alignment explanation
Indices: 62243518--62243575 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
62243508 TGGTGGTGGG
* * *
62243518 AGC AGC AGC AGC AGC AGC AGC AGC CGC AGC CGC AGC AGC AGC AGC CGC
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC
*
62243566 AGC CGC AGC A
1 AGC AGC AGC A
62243576 ACATCACAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.28, C:0.40, G:0.33, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:62243552 original size:21 final size:21
Alignment explanation
Indices: 62243522--62243575 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
62243512 GGTGGGAGCA
*
62243522 GCAGCAGCAGCAGCAGCAGCC
1 GCAGCCGCAGCAGCAGCAGCC
62243543 GCAGCCGCAGCAGCAGCAGCC
1 GCAGCCGCAGCAGCAGCAGCC
62243564 GCAGCCGCAGCA
1 GCAGCCGCAGCA
62243576 ACATCACAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.41, G:0.33, T:0.00
Consensus pattern (21 bp):
GCAGCCGCAGCAGCAGCAGCC
Found at i:62244762 original size:21 final size:21
Alignment explanation
Indices: 62244714--62244754 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
62244704 GAGCGATCCC
* *
62244714 CATGGGACAGATCCCCATATA
1 CATGTGACAAATCCCCATATA
62244735 CATGTGACAAATCCCCATAT
1 CATGTGACAAATCCCCATAT
62244755 GCTCGTGATA
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:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (21 bp):
CATGTGACAAATCCCCATATA
Found at i:62261914 original size:10 final size:9
Alignment explanation
Indices: 62261898--62261922 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
62261888 CATGACAATT
62261898 TAAAAAAAA
1 TAAAAAAAA
62261907 TAAAAAAAA
1 TAAAAAAAA
62261916 TAAAAAA
1 TAAAAAA
62261923 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:62262105 original size:19 final size:20
Alignment explanation
Indices: 62262064--62262105 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
62262054 TCAAAGAAAT
** *
62262064 AAAAAAATTAATAATTTATA
1 AAAAAAATTAATAAAATACA
62262084 AAAAAAATT-ATAAAATACA
1 AAAAAAATTAATAAAATACA
62262103 AAA
1 AAA
62262106 TTGTTACATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAAAATTAATAAAATACA
Found at i:62264550 original size:24 final size:24
Alignment explanation
Indices: 62264522--62264570 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
62264512 TTTCTAGGAC
* *
62264522 ATTTAATATTTATGAATATAATAT
1 ATTTAACATTTATGAAAATAATAT
* *
62264546 ATTTAGCATTTATTAAAATAATAT
1 ATTTAACATTTATGAAAATAATAT
62264570 A
1 A
62264571 CTTGACTTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTTAACATTTATGAAAATAATAT
Found at i:62282290 original size:46 final size:46
Alignment explanation
Indices: 62282219--62282313 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
62282209 AATCCTTACT
*
62282219 TACGTTCCACAACTCAGTATTGTTTTCTTCACTGAAATACCATACC
1 TACGTTCCACAACTCAGTATGGTTTTCTTCACTGAAATACCATACC
* *
62282265 TACGTTCCACAACTCAGTATGGTTTTCTTTACTGAATTACCATACC
1 TACGTTCCACAACTCAGTATGGTTTTCTTCACTGAAATACCATACC
62282311 TAC
1 TAC
62282314 ATCCCACACT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.36
Consensus pattern (46 bp):
TACGTTCCACAACTCAGTATGGTTTTCTTCACTGAAATACCATACC
Found at i:62285143 original size:3 final size:3
Alignment explanation
Indices: 62285104--62285128 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
62285094 TAAAATGATA
62285104 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
62285129 GAATGCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:62285314 original size:25 final size:27
Alignment explanation
Indices: 62285286--62285338 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
62285276 ATAAAACAAC
62285286 AAAATAAAA-A-ACAAAAACAAA-AATA
1 AAAATAAAATACACAAAAA-AAAGAATA
62285311 AAAATAAAATACACAAAAAAAAGAATA
1 AAAATAAAATACACAAAAAAAAGAATA
62285338 A
1 A
62285339 TCTATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 9 0.36
26 4 0.16
27 12 0.48
ACGTcount: A:0.81, C:0.08, G:0.02, T:0.09
Consensus pattern (27 bp):
AAAATAAAATACACAAAAAAAAGAATA
Found at i:62285332 original size:19 final size:17
Alignment explanation
Indices: 62285283--62285332 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
62285273 ATAATAAAAC
62285283 AACAAAATAAAAAACAAA
1 AACAAAA-AAAAAACAAA
*
62285301 AACAAAAATAAAAATAAA
1 AACAAAAA-AAAAACAAA
*
62285319 ATACACAAAAAAAA
1 A-ACAAAAAAAAAA
62285333 GAATAATCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 21 0.75
19 6 0.21
ACGTcount: A:0.82, C:0.10, G:0.00, T:0.08
Consensus pattern (17 bp):
AACAAAAAAAAAACAAA
Found at i:62285414 original size:22 final size:21
Alignment explanation
Indices: 62285375--62285426 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
62285365 AAGGATGAAG
*
62285375 AAATAAAAATTAACAAATAAT
1 AAATAAAAATAAACAAATAAT
*
62285396 AAATAAAAAGTAAATAAATAAT
1 AAATAAAAA-TAAACAAATAAT
62285418 ATAATAAAA
1 A-AATAAAA
62285427 GAATGCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 9 0.33
22 11 0.41
23 7 0.26
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (21 bp):
AAATAAAAATAAACAAATAAT
Found at i:62288592 original size:2 final size:2
Alignment explanation
Indices: 62288585--62288615 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
62288575 TGCACATGTT
62288585 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62288616 CCAAACTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62293512 original size:24 final size:24
Alignment explanation
Indices: 62293480--62293528 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
62293470 GATAAAGAAG
62293480 ATTAAAACTTATGTTAATTTTTCT
1 ATTAAAACTTATGTTAATTTTTCT
*
62293504 ATTAAAACTTCTGTTAATTTTTCT
1 ATTAAAACTTATGTTAATTTTTCT
62293528 A
1 A
62293529 GTGTCTATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (24 bp):
ATTAAAACTTATGTTAATTTTTCT
Found at i:62293831 original size:4 final size:4
Alignment explanation
Indices: 62293824--62293858 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
62293814 TCGTACGTAC
62293824 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
62293859 CATGTGTGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:62301678 original size:14 final size:15
Alignment explanation
Indices: 62301659--62301687 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62301649 TTAACTTGAC
62301659 AAACAAAAA-TAAAT
1 AAACAAAAACTAAAT
62301673 AAACAAAAACTAAAT
1 AAACAAAAACTAAAT
62301688 TTTTCATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.14
Consensus pattern (15 bp):
AAACAAAAACTAAAT
Found at i:62305698 original size:20 final size:21
Alignment explanation
Indices: 62305652--62305700 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
62305642 CCCCATAAAT
62305652 AGAA-ATAAAAAAAAACAACA
1 AGAATATAAAAAAAAACAACA
62305672 ATGAATATAATAAAAAAACAA-A
1 A-GAATATAA-AAAAAAACAACA
62305694 A-AATATA
1 AGAATATA
62305701 TATATAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 7 0.27
21 3 0.12
22 6 0.23
23 10 0.38
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (21 bp):
AGAATATAAAAAAAAACAACA
Found at i:62306980 original size:24 final size:22
Alignment explanation
Indices: 62306948--62306997 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 22
62306938 GGCCTCTCCT
*
62306948 TTTTCTTTTTTCATTCTTCTTTTC
1 TTTTCTTTTTTC-TT-TTCGTTTC
62306972 TTTTCTTTTTTCTTTTCGTTTC
1 TTTTCTTTTTTCTTTTCGTTTC
62306994 TTTT
1 TTTT
62306998 TTTCAAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 11 0.44
23 2 0.08
24 12 0.48
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTCTTTTTTCTTTTCGTTTC
Found at i:62306984 original size:17 final size:17
Alignment explanation
Indices: 62306964--62306999 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
62306954 TTTTTCATTC
*
62306964 TTCTTTTCTTTTCTTTT
1 TTCTTTTCGTTTCTTTT
62306981 TTCTTTTCGTTTCTTTT
1 TTCTTTTCGTTTCTTTT
62306998 TT
1 TT
62307000 TCAAGTGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.81
Consensus pattern (17 bp):
TTCTTTTCGTTTCTTTT
Found at i:62307451 original size:14 final size:13
Alignment explanation
Indices: 62307434--62307473 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 13
62307424 GGTAGAGTTT
62307434 TTTTTGTCTTTTTG
1 TTTTT-TCTTTTTG
62307448 TTTTTTCGTTTTTG
1 TTTTTTC-TTTTTG
62307462 TTTTTTCTTTTT
1 TTTTTTCTTTTT
62307474 TCGTTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.82
Consensus pattern (13 bp):
TTTTTTCTTTTTG
Found at i:62307466 original size:21 final size:20
Alignment explanation
Indices: 62307434--62307491 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 20
62307424 GGTAGAGTTT
62307434 TTTTTGTCTTTTTGTTTTTTCG
1 TTTTTGT-TTTTT-TTTTTTCG
62307456 TTTTTGTTTTTTCTTTTTTCG
1 TTTTTGTTTTTT-TTTTTTCG
62307477 -TTTTGTTTTTTTTTT
1 TTTTTGTTTTTTTTTT
62307492 GCCTCCACTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 4 0.11
20 11 0.31
21 13 0.37
22 7 0.20
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (20 bp):
TTTTTGTTTTTTTTTTTTCG
Found at i:62307474 original size:14 final size:14
Alignment explanation
Indices: 62307442--62307489 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
62307432 TTTTTTTGTC
*
62307442 TTTTTGTTTTTTCG
1 TTTTTGTTTTTTCT
62307456 TTTTTGTTTTTTCT
1 TTTTTGTTTTTTCT
62307470 TTTTTCGTTTTGTT-T
1 TTTTT-GTTTT-TTCT
62307485 TTTTT
1 TTTTT
62307490 TTGCCTCCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
14 18 0.58
15 11 0.35
16 2 0.06
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.83
Consensus pattern (14 bp):
TTTTTGTTTTTTCT
Found at i:62313975 original size:21 final size:23
Alignment explanation
Indices: 62313935--62313987 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 23
62313925 CCAATAAAAT
*
62313935 GAAAAAGACTTGGGGTTTTAT-AG
1 GAAAAA-ACTTGGAGTTTTATAAG
62313958 GAAAAAACTT-GAGTTTTATAAG
1 GAAAAAACTTGGAGTTTTATAAG
62313980 GAAAAAAC
1 GAAAAAAC
62313988 ATTTCATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 8 0.29
22 14 0.50
23 6 0.21
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (23 bp):
GAAAAAACTTGGAGTTTTATAAG
Found at i:62314307 original size:19 final size:20
Alignment explanation
Indices: 62314283--62314323 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
62314273 AAAACAACTA
62314283 AAAGAAGAAAT-TTAAAAAC
1 AAAGAAGAAATATTAAAAAC
* *
62314302 AAAGAATAAATATTTAAAAC
1 AAAGAAGAAATATTAAAAAC
62314322 AA
1 AA
62314324 TAAATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGAAGAAATATTAAAAAC
Found at i:62314338 original size:20 final size:20
Alignment explanation
Indices: 62314297--62314338 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
62314287 AAGAAATTTA
*
62314297 AAAACAAAGAATAAATATTT
1 AAAACAAAGAATAAATAATT
*
62314317 AAAACAATA-AATAATTAATT
1 AAAACAA-AGAATAAATAATT
62314337 AA
1 AA
62314339 TTAAAAGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAACAAAGAATAAATAATT
Found at i:62315202 original size:25 final size:25
Alignment explanation
Indices: 62315151--62315225 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
62315141 TTATACAGAT
*
62315151 AGCACAAATGTGCT-A-AA-CGGAG
1 AGCACTAATGTGCTAATAATCGGAG
62315173 AGCACTAATGTGCTAATAATCGGAG
1 AGCACTAATGTGCTAATAATCGGAG
* *
62315198 AGCACTAACGTGCTAATAATCAGAG
1 AGCACTAATGTGCTAATAATCGGAG
62315223 AGC
1 AGC
62315226 GCGCTAGGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
22 13 0.28
23 1 0.02
24 2 0.04
25 31 0.66
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.19
Consensus pattern (25 bp):
AGCACTAATGTGCTAATAATCGGAG
Found at i:62317603 original size:19 final size:19
Alignment explanation
Indices: 62317579--62317620 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
62317569 TAAATTTCGA
62317579 AATAAATAAATAATAAA-AT
1 AATAAA-AAATAATAAATAT
*
62317598 AATAAAAACTAATAAATAT
1 AATAAAAAATAATAAATAT
62317617 AATA
1 AATA
62317621 TTGGGCTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAAAAATAATAAATAT
Found at i:62322582 original size:23 final size:23
Alignment explanation
Indices: 62322556--62322628 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
62322546 AACAATATGC
62322556 CACAATAGCATCAACACACATAA
1 CACAATAGCATCAACACACATAA
*
62322579 CACAAT--CA-CTAAC-CA-ATATGC
1 CACAATAGCATC-AACACACATA--A
62322600 CACAATAGCATCAACACACATAA
1 CACAATAGCATCAACACACATAA
62322623 CACAAT
1 CACAAT
62322629 CACATGAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
19 3 0.08
20 3 0.08
21 11 0.28
23 17 0.43
24 3 0.08
25 3 0.08
ACGTcount: A:0.49, C:0.32, G:0.04, T:0.15
Consensus pattern (23 bp):
CACAATAGCATCAACACACATAA
Found at i:62322605 original size:44 final size:44
Alignment explanation
Indices: 62322542--62322631 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
62322532 TTCCTGACAA
62322542 ACTAAACAATATGCCACAATAGCATCAACACACATAACACAATC
1 ACTAAACAATATGCCACAATAGCATCAACACACATAACACAATC
*
62322586 ACTAACCAATATGCCACAATAGCATCAACACACATAACACAATC
1 ACTAAACAATATGCCACAATAGCATCAACACACATAACACAATC
62322630 AC
1 AC
62322632 ATGAATCAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.49, C:0.31, G:0.04, T:0.16
Consensus pattern (44 bp):
ACTAAACAATATGCCACAATAGCATCAACACACATAACACAATC
Found at i:62332591 original size:15 final size:14
Alignment explanation
Indices: 62332561--62332604 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
62332551 ATACAACAAA
62332561 AAAATAATGTTATAAT
1 AAAATAAT-TT-TAAT
*
62332577 AAATTTAATTTTAAT
1 AAA-ATAATTTTAAT
62332592 AAAATAATTTTAA
1 AAAATAATTTTAA
62332605 CAGTATGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 9 0.36
15 7 0.28
16 5 0.20
17 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
AAAATAATTTTAAT
Found at i:62338710 original size:120 final size:119
Alignment explanation
Indices: 62338480--62338851 Score: 534
Period size: 120 Copynumber: 3.1 Consensus size: 119
62338470 GAAGCTGCAA
** *
62338480 CAGTTTGAGATTGAGGAGCCGCCGTCGTCATTGGTGGTTTAGGCTCAGTTACAGCC-TT--TGGA
1 CAGTTTGAGCCTGAGGAGCCGCCGTCGCCATTGGTGGTTTAGGCTCAGTTACAGCCTTTGGTGGA
* * *
62338542 GATGACGGTACTTTCTCGTCTCTTTGTTTTTCAATACTGGAGGCTGAAGCTATAG
66 GGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAATACTGGAGGCTGAAGC-ACAG
* * * *
62338597 CAGTTTGAGCCTGAGGAACCGCCATCGCCATTTGTGGTTTAGGCTCAGTTACATCCTTTGGTGGA
1 CAGTTTGAGCCTGAGGAGCCGCCGTCGCCATTGGTGGTTTAGGCTCAGTTACAGCCTTTGGTGGA
* * *
62338662 GGTGACGGTACTTTCTGGTCTCTCTGTTTTTCAACACTGGAGGTTGAAGCGACAG
66 GGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAATACTGGAGGCTGAAGC-ACAG
* *
62338717 CAGTTTGAGCCTGAGGAGCCGTCGTCGCCATTGGTGGTTTAGGCTCAGATACAGCCTTTGGTGGA
1 CAGTTTGAGCCTGAGGAGCCGCCGTCGCCATTGGTGGTTTAGGCTCAGTTACAGCCTTTGGTGGA
* * *
62338782 GGTGACGGTACTTTTTGGCCTCTTTGTTTTTCAATACCGGAGGCTGAAGCAGCAG
66 GGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAATACTGGAGGCTGAAGCA-CAG
62338837 CAGTTTGAGCCTGAG
1 CAGTTTGAGCCTGAG
62338852 CCGTTGGCAA
Statistics
Matches: 225, Mismatches: 26, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
117 49 0.22
118 2 0.01
119 1 0.00
120 173 0.77
ACGTcount: A:0.18, C:0.20, G:0.30, T:0.32
Consensus pattern (119 bp):
CAGTTTGAGCCTGAGGAGCCGCCGTCGCCATTGGTGGTTTAGGCTCAGTTACAGCCTTTGGTGGA
GGTGACGGTACTTTCTGGTCTCTTTGTTTTTCAATACTGGAGGCTGAAGCACAG
Found at i:62352853 original size:12 final size:12
Alignment explanation
Indices: 62352836--62352860 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62352826 AGTTACCCAC
62352836 TGGCTAAAGTTT
1 TGGCTAAAGTTT
62352848 TGGCTAAAGTTT
1 TGGCTAAAGTTT
62352860 T
1 T
62352861 CGATTCATGT
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:0.24, T:0.44
Consensus pattern (12 bp):
TGGCTAAAGTTT
Found at i:62356621 original size:98 final size:98
Alignment explanation
Indices: 62356503--62356699 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
62356493 AAAAAAATAA
** *
62356503 TAAAGGAAATATTCTGAGTTTAGGATTTTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTAGGATTTTAGAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
62356568 TTAAATCTTGAATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGAATAAGTGGATGTTCTTTTAAAG
* *
62356601 TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCTCTAACGTATTAGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTAGGATTTTAGAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
*
62356666 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGAATAAGTGGATGTTCTTTTAAAG
62356699 T
1 T
62356700 TTTATTGCAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTAGGATTTTAGAGGAATCGTGCCCTAACGTATTAGGTGTGATTTC
TTAAATCTTGAATAAGTGGATGTTCTTTTAAAG
Found at i:62358335 original size:3 final size:3
Alignment explanation
Indices: 62358309--62358359 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
62358299 AATATAGTGG
* * * * *
62358309 TTA TAA TTA TTA TAA TAA TAA TTA TTA TTA TCA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
62358356 TTA T
1 TTA T
62358360 ACTTACATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:62364487 original size:14 final size:13
Alignment explanation
Indices: 62364460--62364518 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 13
62364450 AGATTCAATC
62364460 CAAAAAA-AACAAA
1 CAAAAAACAA-AAA
62364473 CAAAAAACCAAAAA
1 CAAAAAA-CAAAAA
62364487 CAAAAAA-AAAGAA
1 CAAAAAACAAA-AA
*
62364500 GAAAAAAACAAAAA
1 -CAAAAAACAAAAA
62364514 CAAAA
1 CAAAA
62364519 GCAAAGAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 3 0.08
13 13 0.33
14 18 0.46
15 5 0.13
ACGTcount: A:0.83, C:0.14, G:0.03, T:0.00
Consensus pattern (13 bp):
CAAAAAACAAAAA
Found at i:62364487 original size:18 final size:17
Alignment explanation
Indices: 62364464--62364530 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
62364454 TCAATCCAAA
62364464 AAAAACAAACAAAAAACC
1 AAAAACAAACAAAAAA-C
*
62364482 AAAAACAAA-AAAAAAG
1 AAAAACAAACAAAAAAC
*
62364498 AAGAAAAAAAC-AAAAAC
1 AA-AAACAAACAAAAAAC
* *
62364515 AAAAGCAAAGAAAAAA
1 AAAAACAAACAAAAAA
62364531 ACCTCCGCTG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
16 7 0.17
17 24 0.60
18 9 0.22
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (17 bp):
AAAAACAAACAAAAAAC
Found at i:62364525 original size:24 final size:21
Alignment explanation
Indices: 62364482--62364532 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 21
62364472 ACAAAAAACC
62364482 AAAAACAAAAAAAAAGAAGAA
1 AAAAACAAAAAAAAAGAAGAA
62364503 AAAAACAAAAACAAAAGCAAAGAA
1 AAAAACAAAAA-AAAAG--AAGAA
62364527 AAAAAC
1 AAAAAC
62364533 CTCCGCTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 11 0.41
22 5 0.19
24 11 0.41
ACGTcount: A:0.82, C:0.10, G:0.08, T:0.00
Consensus pattern (21 bp):
AAAAACAAAAAAAAAGAAGAA
Found at i:62365077 original size:15 final size:14
Alignment explanation
Indices: 62365026--62365075 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
62365016 GATGATGTGA
62365026 AAAAATGAAAATAA-
1 AAAAATGAAAA-AAT
62365040 AAAAATG-AAAAAT
1 AAAAATGAAAAAAT
62365053 GAAAAATGGAAAAAAT
1 -AAAAAT-GAAAAAAT
62365069 AAAAATG
1 AAAAATG
62365076 GAGAGGCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 2 0.06
13 3 0.09
14 14 0.44
15 7 0.22
16 6 0.19
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAAAT
Found at i:62366553 original size:50 final size:50
Alignment explanation
Indices: 62366495--62366867 Score: 200
Period size: 50 Copynumber: 7.5 Consensus size: 50
62366485 ACAATTAAAA
*
62366495 AGATTGAAGCCACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTAGAGC
1 AGATTGAAGCCACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
* * ** * * * * * * **
62366545 AGATTGAAGTCACAACGGCGGATC-TGGTTTCCTCGACAGCGCAATTGAAA
1 AGATTGAAGCCACAACAGCGGATCTTACTTCCCT-GGCGGTGCAGTGGAGC
*
62366595 AGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCCACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
* * ** * * * * * ** **
62366645 AGATTGAAGTCA-TA-A--GGATC-TGGTTTCCTCGACAGCGCAATTTAAA
1 AGATTGAAGCCACAACAGCGGATCTTACTTCCCT-GGCGGTGCAGTGGAGC
* *
62366691 AGTTTGAAGCCACAACAGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCCACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
* * * *** * * * * ** **
62366741 AGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGCGCAATTAAAA
1 AGATTGAAGCCACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
** * * * *
62366791 ATTTTTTAAAGCCACAACAGCAGATCTTACTTCCCTGGCGGTGTAGTGGAGT
1 A--GATTGAAGCCACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
* * *
62366843 AGATTGAAGTCACAACGGCGAATCT
1 AGATTGAAGCCACAACAGCGGATCT
62366868 GGTTTCTTCG
Statistics
Matches: 223, Mismatches: 90, Indels: 20
0.67 0.27 0.06
Matches are distributed among these distances:
45 6 0.03
46 23 0.10
47 1 0.00
48 1 0.00
49 7 0.03
50 140 0.63
51 12 0.05
52 33 0.15
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (50 bp):
AGATTGAAGCCACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGC
Found at i:62366901 original size:50 final size:50
Alignment explanation
Indices: 62366843--62367001 Score: 151
Period size: 50 Copynumber: 3.2 Consensus size: 50
62366833 GTAGTGGAGT
62366843 AGATTGAAGTCACAACGGCGAATCTGGTTTCTTCGACAGCGCAATTAAAA
1 AGATTGAAGTCACAACGGCGAATCTGGTTTCTTCGACAGCGCAATTAAAA
* ** ** * * * * * *
62366893 AGATTGAAGCCACAACGGTAAATCTTACTTCCTT-GGCGGTGCAGTGT-AAC
1 AGATTGAAGTCACAACGGCGAATC-TGGTTTCTTCGACAGCGCAAT-TAAAA
* * * *
62366943 AGATTGAAGTCTCAACGGCGGATTTGGTTTCTCCGACAGCGCAATTAAAA
1 AGATTGAAGTCACAACGGCGAATCTGGTTTCTTCGACAGCGCAATTAAAA
62366993 AGATTGAAG
1 AGATTGAAG
62367002 CCAAAGCGGC
Statistics
Matches: 79, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
49 6 0.08
50 66 0.84
51 7 0.09
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (50 bp):
AGATTGAAGTCACAACGGCGAATCTGGTTTCTTCGACAGCGCAATTAAAA
Found at i:62366960 original size:100 final size:100
Alignment explanation
Indices: 62366486--62367028 Score: 751
Period size: 100 Copynumber: 5.5 Consensus size: 100
62366476 TTTGGCATTA
* *
62366486 CAATTAAAAAGATTGAAGCCACAACAGCGGATCTTACTTCCCTGGCGGTGCAGTAGAGCAGATTG
1 CAATTAAAAAGATTGAAGCCACAACAGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTG
*
62366551 AAGTCACAACGGCGGATCTGGTTTCCTCGACAGCG
66 AAGTCACAACGGCGAATCTGGTTTCCTCGACAGCG
* * *
62366586 CAATTGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTG
1 CAATTAAAAAGATTGAAGCCACAACAGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTG
*
62366651 AAGTCATAA--G-G-ATCTGGTTTCCTCGACAGCG
66 AAGTCACAACGGCGAATCTGGTTTCCTCGACAGCG
* *
62366682 CAATTTAAAAGTTTGAAGCCACAACAGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTG
1 CAATTAAAAAGATTGAAGCCACAACAGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTG
62366747 AAGTCACAACGGC-AGATCTGGTTTCC-CTGACAGCG
66 AAGTCACAACGGCGA-ATCTGGTTTCCTC-GACAGCG
** * * *
62366782 CAATTAAAAATTTTTTAAAGCCACAACAGCAGATCTTACTTCCCTGGCGGTGTAGTGGAGTAGAT
1 CAATTAAAAA--GATTGAAGCCACAACAGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGAT
*
62366847 TGAAGTCACAACGGCGAATCTGGTTTCTTCGACAGCG
64 TGAAGTCACAACGGCGAATCTGGTTTCCTCGACAGCG
* * * * * *
62366884 CAATTAAAAAGATTGAAGCCACAACGGTAAATCTTACTTCCTTGGCGGTGCAGTGTAACAGATTG
1 CAATTAAAAAGATTGAAGCCACAACAGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTG
* * *
62366949 AAGTCTCAACGGCGGATTTGGTTT-CTCCGACAGCG
66 AAGTCACAACGGCGAATCTGGTTTCCT-CGACAGCG
*
62366984 CAATTAAAAAGATTGAAGCCA-AAGCGGCAGATCTTACTTCCCTGG
1 CAATTAAAAAGATTGAAGCCACAA-CAGCAGATCTTACTTCCCTGG
62367029 TGATGAAGTG
Statistics
Matches: 398, Mismatches: 33, Indels: 24
0.87 0.07 0.05
Matches are distributed among these distances:
96 89 0.22
97 1 0.00
98 2 0.01
99 4 0.01
100 209 0.53
102 91 0.23
103 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (100 bp):
CAATTAAAAAGATTGAAGCCACAACAGCAGATCTTACTTCCCTGGCGGTGCAGTGGAGCAGATTG
AAGTCACAACGGCGAATCTGGTTTCCTCGACAGCG
Found at i:62367398 original size:16 final size:17
Alignment explanation
Indices: 62367377--62367409 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
62367367 CCAAATTACA
62367377 AACCC-AATACCCAAAC
1 AACCCAAATACCCAAAC
*
62367393 AACCCAAATACCTAAAC
1 AACCCAAATACCCAAAC
62367410 CACTAGCCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.52, C:0.39, G:0.00, T:0.09
Consensus pattern (17 bp):
AACCCAAATACCCAAAC
Found at i:62368752 original size:19 final size:19
Alignment explanation
Indices: 62368728--62368764 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
62368718 TTAATGTGCG
*
62368728 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
62368747 AATATATATATATGTGTG
1 AATATATATATATGTGTG
62368765 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:62369038 original size:41 final size:41
Alignment explanation
Indices: 62368976--62369315 Score: 527
Period size: 41 Copynumber: 8.3 Consensus size: 41
62368966 GTTTGGAATT
* *
62368976 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62369017 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62369058 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62369099 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62369140 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62369181 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62369222 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62369263 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
*
62369304 GGTGATCCGAAT
1 GGTGATCTGAAT
62369316 ATGATGAATT
Statistics
Matches: 270, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 270 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
Found at i:62369113 original size:82 final size:82
Alignment explanation
Indices: 62368976--62369309 Score: 668
Period size: 82 Copynumber: 4.1 Consensus size: 82
62368966 GTTTGGAATT
62368976 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
62369041 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
62369058 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
62369123 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
62369140 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
62369205 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
62369222 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
62369287 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
62369304 GGTGAT
1 GGTGAT
62369310 CCGAATATGA
Statistics
Matches: 252, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 252 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:62375644 original size:19 final size:19
Alignment explanation
Indices: 62375620--62375656 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
62375610 TTAATGTGCG
*
62375620 AATATATGTATATGTGTGT
1 AATATATATATATGTGTGT
62375639 AATATATATATATGTGTG
1 AATATATATATATGTGTG
62375657 GATCGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (19 bp):
AATATATATATATGTGTGT
Found at i:62375929 original size:41 final size:41
Alignment explanation
Indices: 62375867--62376206 Score: 527
Period size: 41 Copynumber: 8.3 Consensus size: 41
62375857 GTTTGGAATT
* *
62375867 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62375908 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62375949 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62375990 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62376031 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62376072 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62376113 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
* *
62376154 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
*
62376195 GGTGATCCGAAT
1 GGTGATCTGAAT
62376207 ATGATGAATT
Statistics
Matches: 270, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 270 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAACCTAGCAGGCTAAGCGCC
Found at i:62376004 original size:82 final size:82
Alignment explanation
Indices: 62375867--62376200 Score: 668
Period size: 82 Copynumber: 4.1 Consensus size: 82
62375857 GTTTGGAATT
62375867 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
62375932 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
62375949 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
62376014 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
62376031 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
62376096 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
62376113 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
1 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
62376178 CTAGCAGGCTAAGTGCC
66 CTAGCAGGCTAAGTGCC
62376195 GGTGAT
1 GGTGAT
62376201 CCGAATATGA
Statistics
Matches: 252, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 252 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (82 bp):
GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGCTATAAGC
CTAGCAGGCTAAGTGCC
Found at i:62378275 original size:3 final size:3
Alignment explanation
Indices: 62378249--62378299 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
62378239 AATATAGTGG
* * * * *
62378249 TTA TAA TTA TTA TAA TAA TAA TTA TTA TTA TCA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
62378296 TTA T
1 TTA T
62378300 ACTTACATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:62387927 original size:76 final size:76
Alignment explanation
Indices: 62387837--62387992 Score: 260
Period size: 76 Copynumber: 2.1 Consensus size: 76
62387827 AACCACTTAA
* * *
62387837 TTAAGAATTTTCAAGTTAAATCAATTTAAGGAAAAATA-AGTTTTTTTAGTTGCATTTATCTCAC
1 TTAAGAATTTTCAAGTTAAATCAATTTAAGGAAAAATATA-TTTTTGTAGTTACATTTATCTCAA
62387901 ATATTTTCCTTT
65 ATATTTTCCTTT
*
62387913 TTAAGAATTTTCAAGTTAAATCAATTTAAGGAAAGATATATTTTTGTAGTTACATTTATCTCAAA
1 TTAAGAATTTTCAAGTTAAATCAATTTAAGGAAAAATATATTTTTGTAGTTACATTTATCTCAAA
62387978 TATTTTCCTTT
66 TATTTTCCTTT
62387989 TTAA
1 TTAA
62387993 ATTTTACCAA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
76 74 0.99
77 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.09, T:0.46
Consensus pattern (76 bp):
TTAAGAATTTTCAAGTTAAATCAATTTAAGGAAAAATATATTTTTGTAGTTACATTTATCTCAAA
TATTTTCCTTT
Found at i:62391625 original size:15 final size:15
Alignment explanation
Indices: 62391601--62391639 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
62391591 TTGCAATACG
*
62391601 AAAACATAAGTGACT
1 AAAACGTAAGTGACT
62391616 AAAACGTAAGTGACT
1 AAAACGTAAGTGACT
*
62391631 AAAATGTAA
1 AAAACGTAA
62391640 CCTGAGACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (15 bp):
AAAACGTAAGTGACT
Found at i:62394394 original size:18 final size:17
Alignment explanation
Indices: 62394346--62394401 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
62394336 GGTTTCCAAT
*
62394346 TTTCAATTCAAATGCAC
1 TTTCAATTCAAATTCAC
* *
62394363 TTTCATTTCAAAATTTAC
1 TTTCAATTC-AAATTCAC
62394381 TTTCAATATCAAATTCAC
1 TTTCAAT-TCAAATTCAC
62394399 TTT
1 TTT
62394402 TTCATTCACT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
17 8 0.25
18 22 0.69
19 2 0.06
ACGTcount: A:0.34, C:0.20, G:0.02, T:0.45
Consensus pattern (17 bp):
TTTCAATTCAAATTCAC
Found at i:62396212 original size:30 final size:31
Alignment explanation
Indices: 62396168--62396246 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 31
62396158 GCTTATATAC
*
62396168 TAAATATAATAATAAAATAATA-ATATCTCAT
1 TAAA-ATAATAATAAAATAATATATATCTAAT
* * *
62396199 TAAAATATTAATAAAATGATATTTATCTAAT
1 TAAAATAATAATAAAATAATATATATCTAAT
*
62396230 T-AAATAATCATAAAATA
1 TAAAATAATAATAAAATA
62396247 TTAAAATATC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 28 0.70
31 12 0.30
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (31 bp):
TAAAATAATAATAAAATAATATATATCTAAT
Found at i:62397904 original size:17 final size:17
Alignment explanation
Indices: 62397882--62397919 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
62397872 AACACAGGCA
*
62397882 ATCCACATGGCCATGTG
1 ATCCACATAGCCATGTG
*
62397899 ATCCACATAGCCGTGTG
1 ATCCACATAGCCATGTG
62397916 -TCCA
1 ATCCA
62397920 GGGAGTGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (17 bp):
ATCCACATAGCCATGTG
Found at i:62398737 original size:38 final size:40
Alignment explanation
Indices: 62398679--62398756 Score: 126
Period size: 37 Copynumber: 2.0 Consensus size: 40
62398669 CCGAATATAA
62398679 AAAATATATTTTTTTTATTTTTTATTTTTAAAAT-ACTTTT
1 AAAATATATTTTTTTTA-TTTTTATTTTTAAAATAACTTTT
62398719 AAAATA-A-TTTTTTTATTTTTATTTTTAAAATAACTTTT
1 AAAATATATTTTTTTTATTTTTATTTTTAAAATAACTTTT
62398757 TAATGTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
37 16 0.43
38 14 0.38
39 1 0.03
40 6 0.16
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.63
Consensus pattern (40 bp):
AAAATATATTTTTTTTATTTTTATTTTTAAAATAACTTTT
Found at i:62398744 original size:26 final size:26
Alignment explanation
Indices: 62398715--62398775 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
62398705 TTTAAAATAC
* * *
62398715 TTTTAAAATAATTTTTTTATTTTTAT
1 TTTTAAAATAACTTTTTAATGTTTAT
62398741 TTTTAAAATAACTTTTTAATGTTTAT
1 TTTTAAAATAACTTTTTAATGTTTAT
*
62398767 TTTAAAAAT
1 TTTTAAAAT
62398776 GGGCCGGGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTTAAAATAACTTTTTAATGTTTAT
Found at i:62399801 original size:25 final size:25
Alignment explanation
Indices: 62399772--62399877 Score: 108
Period size: 25 Copynumber: 4.3 Consensus size: 25
62399762 GAAGTTCCTC
*
62399772 CGAGCTGAATAACGGGAAGCTCATG
1 CGAGCTGAATAACAGGAAGCTCATG
* * * * *
62399797 TGAGCTAAATAACAGGACGCTCGTA
1 CGAGCTGAATAACAGGAAGCTCATG
* *
62399822 CGAGCTGTATAACAGAAAGCTCATG
1 CGAGCTGAATAACAGGAAGCTCATG
*
62399847 CGAGCT-ATATAACA-GAAGCTCATA
1 CGAGCTGA-ATAACAGGAAGCTCATG
62399871 CGAGCTG
1 CGAGCTG
62399878 TGGTGTGTCC
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
24 14 0.22
25 49 0.78
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (25 bp):
CGAGCTGAATAACAGGAAGCTCATG
Found at i:62399834 original size:50 final size:49
Alignment explanation
Indices: 62399772--62399878 Score: 142
Period size: 50 Copynumber: 2.2 Consensus size: 49
62399762 GAAGTTCCTC
* * * * * *
62399772 CGAGCTGAATAACGGGAAGCTCATGTGAGCTAAATAACAGGACGCTCGTA
1 CGAGCTGTATAACAGAAAGCTCATGCGAGCTAAATAACA-GAAGCTCATA
*
62399822 CGAGCTGTATAACAGAAAGCTCATGCGAGCTATATAACAGAAGCTCATA
1 CGAGCTGTATAACAGAAAGCTCATGCGAGCTAAATAACAGAAGCTCATA
62399871 CGAGCTGT
1 CGAGCTGT
62399879 GGTGTGTCCG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 16 0.32
50 34 0.68
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (49 bp):
CGAGCTGTATAACAGAAAGCTCATGCGAGCTAAATAACAGAAGCTCATA
Found at i:62401025 original size:6 final size:6
Alignment explanation
Indices: 62401014--62401038 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62401004 AGTAAAACAT
62401014 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
62401039 TTTTTTCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:62427481 original size:25 final size:25
Alignment explanation
Indices: 62427447--62427494 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
62427437 CCTGCGAAGC
62427447 CAAAAGAAAAAATAAAGAA-AGAATT
1 CAAAAGAAAAAA-AAAGAACAGAATT
*
62427472 CAAAAGAAAATAAAAGAACAGAA
1 CAAAAGAAAAAAAAAGAACAGAA
62427495 ATGAAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.73, C:0.06, G:0.12, T:0.08
Consensus pattern (25 bp):
CAAAAGAAAAAAAAAGAACAGAATT
Found at i:62427501 original size:25 final size:26
Alignment explanation
Indices: 62427448--62427506 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
62427438 CTGCGAAGCC
*
62427448 AAAAGAAAAAATAAAGAAAGAATTC-
1 AAAAGAAAAAATAAAGAAAGAAATCA
* *
62427473 AAAAGAAAATA-AAAGAACAGAAATGA
1 AAAAGAAAAAATAAAGAA-AGAAATCA
62427499 AAAAGAAA
1 AAAAGAAA
62427507 CGAAAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 6 0.21
25 15 0.52
26 8 0.28
ACGTcount: A:0.75, C:0.03, G:0.14, T:0.08
Consensus pattern (26 bp):
AAAAGAAAAAATAAAGAAAGAAATCA
Found at i:62427613 original size:18 final size:17
Alignment explanation
Indices: 62427581--62427614 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
62427571 GGCGTGAAAA
*
62427581 CAAAATTGGCTTAAATG
1 CAAAATTGCCTTAAATG
62427598 CAAAATTGACCTTAAAT
1 CAAAATTG-CCTTAAAT
62427615 TGTACTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (17 bp):
CAAAATTGCCTTAAATG
Found at i:62435787 original size:31 final size:29
Alignment explanation
Indices: 62435752--62435831 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 29
62435742 AGTTCAAAAC
*
62435752 TATATATTAATTTTAGTTTAATGTGCAATGT
1 TATATATTAATTTTAATTT--TGTGCAATGT
* * *
62435783 TATATATGAATTTTAATTTTGTGTAATTT
1 TATATATTAATTTTAATTTTGTGCAATGT
*
62435812 TATATATTTAATGTTAATTT
1 TATATA-TTAATTTTAATTT
62435832 GATTCAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 14 0.33
30 11 0.26
31 17 0.40
ACGTcount: A:0.33, C:0.01, G:0.10, T:0.56
Consensus pattern (29 bp):
TATATATTAATTTTAATTTTGTGCAATGT
Found at i:62435832 original size:29 final size:29
Alignment explanation
Indices: 62435773--62435831 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
62435763 TTTAGTTTAA
*
62435773 TGTGCAATGTTATATATGAATTTTAATTT
1 TGTGCAATGTTATATATGAATGTTAATTT
* * *
62435802 TGTGTAATTTTATATATTTAATGTTAATTT
1 TGTGCAATGTTATATA-TGAATGTTAATTT
62435832 GATTCAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (29 bp):
TGTGCAATGTTATATATGAATGTTAATTT
Found at i:62437545 original size:13 final size:13
Alignment explanation
Indices: 62437527--62437562 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
62437517 TTTTTCATTG
62437527 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
*
62437540 CTTTTGAGAAGTA
1 CTTTTGAAAAGTA
62437553 CTTTTGAAAA
1 CTTTTGAAAA
62437563 TTTTGAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:62440315 original size:41 final size:41
Alignment explanation
Indices: 62440246--62440426 Score: 256
Period size: 41 Copynumber: 4.4 Consensus size: 41
62440236 GATTCACTGG
*
62440246 CACTTAGCCCTGTTAGGCTTA-AAGCCTGATTCAGATCACCGA
1 CACTTAG-CCTGCTAGGCTTATAA-CCTGATTCAGATCACCGA
* *
62440288 CACTTAGCCTGCTAGGCTTATAACCTGATTTAGATCATCGA
1 CACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGA
* * * *
62440329 CACTTAGCCTGTTAGGCTTATAGCCTGATTCAGTTCACCGG
1 CACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGA
* *
62440370 CACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGG
1 CACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGA
62440411 CACTTAGCCTGCTAGG
1 CACTTAGCCTGCTAGG
62440427 TTTTAACACC
Statistics
Matches: 127, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
41 118 0.93
42 9 0.07
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (41 bp):
CACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGA
Found at i:62443197 original size:72 final size:72
Alignment explanation
Indices: 62443016--62443206 Score: 213
Period size: 72 Copynumber: 2.6 Consensus size: 72
62443006 TCACCTGTGA
** * * *
62443016 ATAAATTTTATATCCAAAATCAAATATAAACAACTATTAATAAAACTAATTTAGTAAAAAAAAAA
1 ATAAATTCAATATCCAAAAACAAACATAAACAACTATTAATAAAACTAAATTAG-AAAAAAAAAA
*
62443081 AGTGGAAC
65 AGTAGAAC
* * * * * *
62443089 ATAAATTCAATATCTAAAGACCAAACATAAACAACTATTAATAAAACTAAATTA-CACATAAATA
1 ATAAATTCAATATCCAAA-AACAAACATAAACAACTATTAATAAAACTAAATTAGAAAAAAAAAA
62443153 AGTAGAAC
65 AGTAGAAC
* * *
62443161 ATAAATTCAGTATCCAAAAACTAAACATAAATAACTATTGATAAAA
1 ATAAATTCAATATCCAAAAAC-AAACATAAACAACTATTAATAAAA
62443207 ACATACTTCG
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
71 2 0.02
72 51 0.51
73 15 0.15
74 32 0.32
ACGTcount: A:0.57, C:0.13, G:0.05, T:0.26
Consensus pattern (72 bp):
ATAAATTCAATATCCAAAAACAAACATAAACAACTATTAATAAAACTAAATTAGAAAAAAAAAAA
GTAGAAC
Found at i:62444593 original size:15 final size:14
Alignment explanation
Indices: 62444573--62444604 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
62444563 ATTTGTAATA
62444573 AAATAAGCAGGCGAG
1 AAATAAGCAGGC-AG
62444588 AAATAAGCAGGCAG
1 AAATAAGCAGGCAG
62444602 AAA
1 AAA
62444605 ATTGTGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.53, C:0.12, G:0.28, T:0.06
Consensus pattern (14 bp):
AAATAAGCAGGCAG
Found at i:62449139 original size:17 final size:18
Alignment explanation
Indices: 62449107--62449141 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
62449097 AGAATTCATG
*
62449107 ATAATTATATATTTAATA
1 ATAATTATAGATTTAATA
62449125 ATAATTAT-GATTTAATA
1 ATAATTATAGATTTAATA
62449142 GAAGTTGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
ATAATTATAGATTTAATA
Found at i:62450001 original size:17 final size:18
Alignment explanation
Indices: 62449937--62450005 Score: 63
Period size: 17 Copynumber: 4.0 Consensus size: 18
62449927 GAAAGTTGTG
*
62449937 ATAATTATACATTTAAAA
1 ATAATTATACATTTAAAT
* *
62449955 ACAACTATA-ATTT-AAT
1 ATAATTATACATTTAAAT
* * *
62449971 AGAAGTACACATTTAAAT
1 ATAATTATACATTTAAAT
62449989 ATAATTATA-ATTTAAAT
1 ATAATTATACATTTAAAT
62450006 TGCAATTATT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
16 8 0.20
17 16 0.40
18 16 0.40
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATTATACATTTAAAT
Found at i:62461912 original size:29 final size:30
Alignment explanation
Indices: 62461856--62461924 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
62461846 ATTATATCTA
**
62461856 AAAATAAAAAATAAAAAGATTACGTTTTTT
1 AAAATAAAAAATAAAAAGATTAAATTTTTT
62461886 AAAAT-AAAAATACAAAAG-TTAAA--TTTT
1 AAAATAAAAAATA-AAAAGATTAAATTTTTT
*
62461913 AAATTAAAAAAT
1 AAAATAAAAAAT
62461925 TATGTAAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 8 0.24
28 6 0.18
29 10 0.29
30 10 0.29
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (30 bp):
AAAATAAAAAATAAAAAGATTAAATTTTTT
Found at i:62467899 original size:21 final size:21
Alignment explanation
Indices: 62467873--62467914 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
62467863 TTTAGTTAAC
**
62467873 GGTTAAAGGATTAAAAAGTTT
1 GGTTAAAAAATTAAAAAGTTT
62467894 GGTTAAAAAATTAAAAAGTTT
1 GGTTAAAAAATTAAAAAGTTT
62467915 AACTAATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (21 bp):
GGTTAAAAAATTAAAAAGTTT
Found at i:62471568 original size:35 final size:35
Alignment explanation
Indices: 62471529--62471595 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
62471519 AAGTAAAATA
* * *
62471529 TTTTTCGTAAAATAATTT-CTGGAAAATGTTTTAC
1 TTTTTTGTAAAATAATTTACTAGAAAATATTTTAC
*
62471563 TTTTTTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTTTGTAAAATAATTTACTAGAAAATATTTT
62471596 CTGCTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.49
Consensus pattern (35 bp):
TTTTTTGTAAAATAATTTACTAGAAAATATTTTAC
Found at i:62473762 original size:14 final size:14
Alignment explanation
Indices: 62473743--62473772 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
62473733 CATTAGGGAA
62473743 TATAAATTTATATT
1 TATAAATTTATATT
*
62473757 TATAAATTTATGTT
1 TATAAATTTATATT
62473771 TA
1 TA
62473773 ATTAAGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (14 bp):
TATAAATTTATATT
Found at i:62475015 original size:21 final size:21
Alignment explanation
Indices: 62474989--62475031 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
62474979 GGTTCGCTGT
*
62474989 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
62475010 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
62475031 A
1 A
62475032 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:62475031 original size:16 final size:16
Alignment explanation
Indices: 62475012--62475044 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
62475002 TGTATTGGAT
*
62475012 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
62475028 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
62475044 T
1 T
62475045 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:62475089 original size:45 final size:44
Alignment explanation
Indices: 62475023--62475117 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
62475013 GGATTAGAGG
* *
62475023 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
62475068 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
62475112 TGTAAT
1 TGTAAT
62475118 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:62475300 original size:18 final size:17
Alignment explanation
Indices: 62475279--62475313 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62475269 TTATTATTTA
*
62475279 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62475297 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62475314 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62475307 original size:28 final size:27
Alignment explanation
Indices: 62475237--62475309 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
62475227 TTTATTATCA
*
62475237 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
62475265 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
62475292 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
62475310 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:62475426 original size:144 final size:147
Alignment explanation
Indices: 62475198--62475469 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
62475188 ATGATTATTG
62475198 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
62475263 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
62475328 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
62475347 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
62475409 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
62475470 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:62475444 original size:18 final size:17
Alignment explanation
Indices: 62475423--62475457 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62475413 TTATTATTAA
*
62475423 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62475441 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62475458 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62475501 original size:54 final size:54
Alignment explanation
Indices: 62475443--62475621 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
62475433 ATTAAAATAT
*
62475443 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
62475497 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
62475560 TAT
53 -AC
*
62475563 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
62475617 ATAAT
1 ATAAT
62475622 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:62475503 original size:61 final size:61
Alignment explanation
Indices: 62475438--62475625 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
62475428 TTTTAATTAA
*
62475438 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
62475499 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
62475558 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
62475619 AATATAT
1 AATATAT
62475626 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:62475536 original size:120 final size:120
Alignment explanation
Indices: 62475406--62475628 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
62475396 ATCATATTTA
* *
62475406 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
62475471 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
62475526 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
62475591 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
62475629 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:62475564 original size:18 final size:17
Alignment explanation
Indices: 62475543--62475577 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62475533 TTATTATTAA
62475543 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
62475561 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
62475578 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:62475640 original size:17 final size:16
Alignment explanation
Indices: 62475618--62475664 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
62475608 ACTCAAATCA
62475618 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
62475635 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
62475649 TAAATATATGATTTAA
1 T-AATATATGATTTAA
62475665 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Done.