Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 125 of 770
Found at i:36561465 original size:5 final size:5
Alignment explanation
Indices: 36561451--36561541 Score: 62
Period size: 5 Copynumber: 17.0 Consensus size: 5
36561441 CAATCTTTCT
*
36561451 TTTTA TTTTTA TTTTTA TTTTTA TTTATTA TTTTCC TTTCT- TTTTA -TTTA
1 TTTTA -TTTTA -TTTTA -TTTTA -TT-TTA TTTT-A TTT-TA TTTTA TTTTA
*
36561501 TTATT- TATTA TTTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TT-TTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
36561542 GTTAAATATT
Statistics
Matches: 74, Mismatches: 3, Indels: 17
0.79 0.03 0.18
Matches are distributed among these distances:
4 7 0.09
5 32 0.43
6 31 0.42
7 4 0.05
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:36561498 original size:23 final size:22
Alignment explanation
Indices: 36561444--36561506 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 22
36561434 GGCGACCCAA
36561444 TCTTTCTTTTTATTT-TTA--T
1 TCTTTCTTTTTATTTATTATTT
*
36561463 T-TTTATTTTTATTTATTATTT
1 TCTTTCTTTTTATTTATTATTT
36561484 TCCTTTCTTTTTATTTATTATTT
1 T-CTTTCTTTTTATTTATTATTT
36561507 ATTATTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 12 0.32
19 4 0.11
21 2 0.05
23 19 0.51
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (22 bp):
TCTTTCTTTTTATTTATTATTT
Found at i:36561526 original size:30 final size:29
Alignment explanation
Indices: 36561450--36561534 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 29
36561440 CCAATCTTTC
36561450 TTTTTATTTTTATTTTTATTTTTATTTATTA
1 TTTTTA-TTTTA-TTTTATTTTTATTTATTA
**
36561481 TTTTCCTTTCT-TTTTATTTATTATTTATTA
1 TTTTTATTT-TATTTTATTT-TTATTTATTA
36561511 TTTTTATTTTATTTTA-TTTTATTT
1 TTTTTATTTTATTTTATTTTTATTT
36561535 TATTTTAGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
28 6 0.13
29 11 0.23
30 25 0.53
31 5 0.11
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTTATTTTATTTTATTTTTATTTATTA
Found at i:36562702 original size:118 final size:118
Alignment explanation
Indices: 36562482--36562711 Score: 343
Period size: 118 Copynumber: 1.9 Consensus size: 118
36562472 GTTTTCCATT
* * * * *
36562482 GTTATGAGTACAGCTTAGATCGTGACTAACTGAGTAATCGGGGTAGGGTGCTTGGGTTGTCATTC
1 GTTATGAGTACAGCTCAAATCGTGACTAACTGAGTAACCGAGATAGGGTGCTTGGGTTGTCATTC
* *
36562547 TACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCGGCTAGCCGAG
66 TACTTCGCGTCAAAAGGTTGTGCGACGTGACAAGTAAAACTCCGCTAGCCGAG
* *
36562600 GTTATGAGTATAGCTCAAATCGTGACTGACTGAGTAACCGAGATAGGGTGCTTGGGTTGTCATTC
1 GTTATGAGTACAGCTCAAATCGTGACTAACTGAGTAACCGAGATAGGGTGCTTGGGTTGTCATTC
****
36562665 TACTTCGCGTCAAAAGGTTGTGCGACGTGTTGGGTAAAACTCCGCTA
66 TACTTCGCGTCAAAAGGTTGTGCGACGTGACAAGTAAAACTCCGCTA
36562712 ATCAAAATAA
Statistics
Matches: 99, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
118 99 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (118 bp):
GTTATGAGTACAGCTCAAATCGTGACTAACTGAGTAACCGAGATAGGGTGCTTGGGTTGTCATTC
TACTTCGCGTCAAAAGGTTGTGCGACGTGACAAGTAAAACTCCGCTAGCCGAG
Found at i:36562857 original size:18 final size:18
Alignment explanation
Indices: 36562836--36562876 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
36562826 AATAAAATTT
*
36562836 AAAAAAAATAAA-AAAAGG
1 AAAAAAAA-AAAGAAAAAG
36562854 AAAAAAAAAAAGAAAAAG
1 AAAAAAAAAAAGAAAAAG
36562872 AAAAA
1 AAAAA
36562877 TAAGTACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAAGAAAAAG
Found at i:36570463 original size:153 final size:153
Alignment explanation
Indices: 36570185--36571414 Score: 1219
Period size: 153 Copynumber: 8.1 Consensus size: 153
36570175 GGGTGTTACA
* * * *
36570185 AAAATCAAGATTAATGTGCTACTAATATTCATCTTTGAG-AACTTATAGCTTAACTCGATCGATA
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAAC-TATAGCTTAACTCGATCGATT
* *
36570249 CATGCAACTAGCTAGTAAATATAGTAGTTGGACTTCCCCTTAATCTC-AATGTATTACCTCTTTT
65 CATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAAT-TATTACCTCTTTT
* *
36570313 ATTAAAAATATAAAACATCACCCAC
129 ATTAAAAATATAAACCATCACCGAC
* * * * * * * * *
36570338 AAAATCAATATTAATGTACTACTAATATGTGCCTTTGAGAAACTATAGTTTAACTTGATCAATCC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATTC
* *
36570403 ATGTATCTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
*
36570468 TAAAAATATAAACCATTGA-CGAC
131 TAAAAATATAAACCA-TCACCGAC
* * * * * *
36570491 AAAAATCAAAATTAATGTACTGCTAATATGCATCTTTAAG-AACTTATAACTTAACTCGACCGAT
1 -AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAAC-TATAGCTTAACTCGATCGAT
* * * * * *
36570555 CCATGCATCTAGCTAATAAATATAGTAGTTGAACTTTCCCTTAATCTCAAATTGTTACCTCTTTT
64 TCATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTT
* *
36570620 ATTAAAAAAATAAATCATCACCGAC
129 ATTAAAAATATAAACCATCACCGAC
* * * * * *
36570645 AAAATCAATATTAAGGTGTTGCTAATATGCGTCTTTGAGAACCTATAGCTTAACTCGACCGATAC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATTC
* * ** * *
36570710 ATGTAGCTAGCTAATAAATATAGCAGTTGGACTTCCTATTAATCTTAAAGTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
* * *
36570775 TAAAAATATAAACCATCGCAGTC
131 TAAAAATATAAACCATCACCGAC
** *
36570798 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAATGTACAGCTTAACTCGATCGATTC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATTC
*
36570863 ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
* *
36570928 TAAAAATATAAACCATCGCCGAGAA
131 TAAAAATATAAACCATCACC--GAC
* * * ** * * *
36570953 AAAATCAAGACTAATGTGCTGCTAAT-GGTCGTGTTTGAGAATTTAT-GTTTTAAATCGATCAAT
1 AAAATCAAGATTAATGTGCTGCTAATATG-CGTCTTTGAGAAACTATAG-CTTAACTCGATCGAT
* * * * * * *
36571016 TCTTACAACTA-CTTAATAAATA-ATGCAATTGAACTTCCCCTTAATATGAAATTATTACCTTTT
64 TCATGCAACTAGC-TAATAAATATA-GCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTT
* * * *
36571079 TTA-AAAAAATATAAACTATCGCCGTC
127 TTATTAAAAATATAAACCATCACCGAC
* * * *
36571105 AAAATTAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAATTATAACTTAACTCAATCGATTC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATTC
*
36571170 ATGCAACTAGCTAATAAATATAGCTGTTGGACTT-CCCTTAATCTC--------ACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
*
36571226 TAAAAATATAAACCATCCCCGAC
131 TAAAAATATAAACCATCACCGAC
* * * * * * ** * * *
36571249 AAATTCAATATCAATGTGTTGCAAATGTTTGTGTTTGAG-AACTTATAGTTTAACTCGATCCATT
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAAC-TATAGCTTAACTCGATCGATT
* * * * ** * * * ** *
36571313 -GTG--ACTACCTAATAAGTATATCTTTTGAACCACTCCACTTAATCTCAAATTACGACTTC-TT
65 CATGCAACTAGCTAATAAATATAGCAGTTGGA-C-TTCCCCTTAATCTCAAATTATTACCTCTTT
* * *
36571374 TATTAAAAATATAAACTATAACCGGC
128 TATTAAAAATATAAACCATCACCGAC
36571400 AAAATCAAGATTAAT
1 AAAATCAAGATTAAT
36571415 ATGCAACTAA
Statistics
Matches: 896, Mismatches: 151, Indels: 62
0.81 0.14 0.06
Matches are distributed among these distances:
141 21 0.02
142 1 0.00
143 14 0.02
144 75 0.08
151 45 0.05
152 82 0.09
153 393 0.44
154 159 0.18
155 106 0.12
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (153 bp):
AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAACTATAGCTTAACTCGATCGATTC
ATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTAT
TAAAAATATAAACCATCACCGAC
Found at i:36570736 original size:307 final size:304
Alignment explanation
Indices: 36570185--36571452 Score: 1336
Period size: 307 Copynumber: 4.2 Consensus size: 304
36570175 GGGTGTTACA
* * * *
36570185 AAAATCAAGATTAATGTGCTACTAATATTCATCTTTGAGAACTTATAGCTTAACTCGATCGATAC
1 AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACTTATAACTTAACTCGATCGATTC
*
36570250 ATGCAACTAGCTAGTAAATATAGTAGTTGGACTTCCCCTTAATCTCAATGTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAT-TATTACCTCTTTTAT
* * * * * * *
36570315 TAAAAATATAAAACATCACCCACAAAATCAATATTAATGTACTACTAATATGTGCCTTTGAGAAA
130 TAAAAATATAAACCATCACCGACAAAATCAATATTAATGTGCTGCTAATATGCGTCTTTGAGAAC
* * *
36570380 CTATAGTTTAACTTGATCAATCCATGTATCTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAA
195 CTATAGTTTAACTCGATCAATACATGTAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAA
*
36570445 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATTGACGAC
260 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCG-CGAC
* * * * *
36570491 AAAAATCAAAATTAATGTACTGCTAATATGCATCTTTAAGAACTTATAACTTAACTCGACCGATC
1 -AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACTTATAACTTAACTCGATCGATT
* * * *
36570556 CATGCATCTAGCTAATAAATATAGTAGTTGAACTTTCCCTTAATCTCAAATTGTTACCTCTTTTA
65 CATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTC-AATTATTACCTCTTTTA
* * * *
36570621 TTAAAAAAATAAATCATCACCGACAAAATCAATATTAAGGTGTTGCTAATATGCGTCTTTGAGAA
129 TTAAAAATATAAACCATCACCGACAAAATCAATATTAATGTGCTGCTAATATGCGTCTTTGAGAA
* * * * **
36570686 CCTATAGCTTAACTCGACCGATACATGTAGCTAGCTAATAAATATAGCAGTTGGACTTCCTATTA
194 CCTATAGTTTAACTCGATCAATACATGTAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTA
* * *
36570751 ATCTTAAAGTATTACCTCTTTTATTAAAAATATAAACCATCGCAGTC
259 ATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGC-GAC
* * *
36570798 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAA-TGTACAGCTTAACTCGATCGATT
1 AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACT-TATAACTTAACTCGATCGATT
36570862 CATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAAATTATTACCTCTTTTA
65 CATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTC-AATTATTACCTCTTTTA
* * * * * *
36570927 TTAAAAATATAAACCATCGCCGAGAAAAAATCAAGACTAATGTGCTGCTAAT-GGTCGTGTTTGA
129 TTAAAAATATAAACCATCACC--GACAAAATCAATATTAATGTGCTGCTAATATG-CGTCTTTGA
** * * * ** * *
36570991 GAATTTAT-GTTTTAAATCGATCAATTCTTACAACTA-CTTAATAAATA-ATGCAATTGAACTTC
191 GAACCTATAG-TTTAACTCGATCAATACATGTAACTAGC-TAATAAATATA-GCAGTTGGACTTC
* * * * * *
36571053 CCCTTAATATGAAATTATTACCTTTTTTA-AAAAAATATAAACTATCGCCGTC
253 CCCTTAATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCG-CGAC
* * * *
36571105 AAAATTAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAATTATAACTTAACTCAATCGATTC
1 AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACTTATAACTTAACTCGATCGATTC
36571170 ATGCAACTAGCTAATAAATATAGCT-GTTGGACTT-CCCTTAATCTC-------ACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAG-TAGTTGGACTTCCCCTTAATCTCAATTATTACCTCTTTTAT
* * * * * * ** *
36571226 TAAAAATATAAACCATCCCCGACAAATTCAATATCAATGTGTTGCAAATGTTTGTGTTTGAGAAC
130 TAAAAATATAAACCATCACCGACAAAATCAATATTAATGTGCTGCTAATATGCGTCTTTGAGAAC
* * * * * * ** * * *
36571291 TTATAGTTTAACTCGATCCAT---TGTGACTACCTAATAAGTATATCTTTTGAACCACTCCACTT
195 CTATAGTTTAACTCGATCAATACATGTAACTAGCTAATAAATATAGCAGTTGGA-C-TTCCCCTT
** * * *
36571353 AATCTCAAATTACGACTTC-TTTATTAAAAATATAAACTATAAC-CGGC
258 AATCTCAAATTATTACCTCTTTTATTAAAAATATAAACCAT--CGCGAC
* ** * * *
36571400 AAAATCAAGATTAATATGCAACTAATA-GTCATCTTTAAAAACTTATAATTTAA
1 AAAATCAAGATTAATGTGCTGCTAATATG-CATCTTTGAGAACTTATAACTTAA
36571453 TTTAATTAAT
Statistics
Matches: 817, Mismatches: 122, Indels: 56
0.82 0.12 0.06
Matches are distributed among these distances:
293 19 0.02
294 8 0.01
295 79 0.10
296 50 0.06
297 2 0.00
298 30 0.04
305 1 0.00
306 145 0.18
307 379 0.46
308 104 0.13
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (304 bp):
AAAATCAAGATTAATGTGCTGCTAATATGCATCTTTGAGAACTTATAACTTAACTCGATCGATTC
ATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAATCTCAATTATTACCTCTTTTATT
AAAAATATAAACCATCACCGACAAAATCAATATTAATGTGCTGCTAATATGCGTCTTTGAGAACC
TATAGTTTAACTCGATCAATACATGTAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAAT
CTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGCGAC
Found at i:36571130 original size:460 final size:459
Alignment explanation
Indices: 36570185--36571215 Score: 1309
Period size: 460 Copynumber: 2.2 Consensus size: 459
36570175 GGGTGTTACA
* * *
36570185 AAAATCAAGATTAATGTGCTACTAATATTCATCTTTGAGAACTTATAGCTTAACTCGATCGATAC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCGATAC
* * *
36570250 ATGCAACTAGCTAGTAAATATAGTAGTTGGACTTCCCCTTAATCTCAATGTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGCAGTTGGACTT-CCCTTAATCTCAAAGTATTACCTCTTTTAT
* * *
36570315 TAAAAATATAAAACATCACCCACAAAATCAATATTAATGTACTACTAATATGTGCCTTTGAGAAA
130 TAAAAATATAAAACATCACACACAAAATCAAGATTAATGTACTACTAATATGCGCCTTTGAGAAA
* * * * *
36570380 CTATAGTTTAACTTGATCAATCCATGTATCTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAA
195 CTACAGCTTAACTCGATCAATCCATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAA
* * *
36570445 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATTGACGACAAAAATCAAAATTAATGTA
260 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGACGAAAAAAATCAAAACTAATGTA
* * * *
36570510 CTGCTAATATGCATCTTTAAGAACTTATAACTTAACTCGACCGATCCATGCATCTAGCTAATAAA
325 CTGCTAATATGCATCTTTAAGAACTTATAACTTAAATCGACCAATCCATACAACTAGCTAATAAA
* * * * * *
36570575 TATAGTAGTTGAACTTTCCCTTAATCTCAAATTGTTACCTCTTTTATTAAAAAAATAAATCATCA
390 TATAGCAATTGAACTTCCCCTTAATATCAAATTATTACCTCTTTTATAAAAAAAATAAATCATCA
36570640 CCGAC
455 CCGAC
* * * * *
36570645 AAAATCAATATTAAGGTGTTGCTAATATGCGTCTTTGAGAACCTATAGCTTAACTCGACCGATAC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCGATAC
* * * *
36570710 ATGTAGCTAGCTAATAAATATAGCAGTTGGACTTCCTATTAATCTTAAAGTATTACCTCTTTTAT
66 ATGCAACTAGCTAATAAATATAGCAGTTGGACTTCC-CTTAATCTCAAAGTATTACCTCTTTTAT
* * ** * * * *
36570775 TAAAAATATAAACCATCGCAGTCAAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAT
130 TAAAAATATAAAACATCACACACAAAATCAAGATTAATGTACTACTAATATGCGCCTTTGAGAAA
* * * *
36570840 GTACAGCTTAACTCGATCGATTCATGCAACTAGCTAATAAATATAGTAGTTGGACTTCCCCTTAA
195 CTACAGCTTAACTCGATCAATCCATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAA
* *
36570905 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGCCGAGAAAAAATCAAGACTAATGT
260 TCTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGACGA-AAAAAATCAAAACTAATGT
* * * * * * *** * * *
36570970 GCTGCTAAT-GGTCGTGTTTGAGAATTTATGTTTTAAATCGATCAATTCTTACAACTA-CTTAAT
324 ACTGCTAATATG-CATCTTTAAGAACTTATAACTTAAATCGACCAATCCATACAACTAGC-TAAT
*
36571033 AAATA-ATGCAATTGAACTTCCCCTTAATATGAAATTATTACCT-TTTT-TAAAAAAATATAAA-
387 AAATATA-GCAATTGAACTTCCCCTTAATATCAAATTATTACCTCTTTTATAAAAAAA-ATAAAT
* *
36571094 CTATCGCCGTC
450 C-ATCACCGAC
* * * * *
36571105 AAAATTAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAAATTATAACTTAACTCAATCGATTC
1 AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCGATAC
*
36571170 ATGCAACTAGCTAATAAATATAGCTGTTGGACTTCCCTTAATCTCA
66 ATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCTTAATCTCA
36571216 CCTCTTTTAT
Statistics
Matches: 484, Mismatches: 80, Indels: 15
0.84 0.14 0.03
Matches are distributed among these distances:
459 18 0.04
460 372 0.77
461 94 0.19
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (459 bp):
AAAATCAAGATTAATGTGCTGCTAATATGCGTCTTTGAGAACTTATAGCTTAACTCGATCGATAC
ATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCTTAATCTCAAAGTATTACCTCTTTTATT
AAAAATATAAAACATCACACACAAAATCAAGATTAATGTACTACTAATATGCGCCTTTGAGAAAC
TACAGCTTAACTCGATCAATCCATGCAACTAGCTAATAAATATAGCAGTTGGACTTCCCCTTAAT
CTCAAATTATTACCTCTTTTATTAAAAATATAAACCATCGACGAAAAAAATCAAAACTAATGTAC
TGCTAATATGCATCTTTAAGAACTTATAACTTAAATCGACCAATCCATACAACTAGCTAATAAAT
ATAGCAATTGAACTTCCCCTTAATATCAAATTATTACCTCTTTTATAAAAAAAATAAATCATCAC
CGAC
Found at i:36576272 original size:132 final size:131
Alignment explanation
Indices: 36576098--36576362 Score: 419
Period size: 132 Copynumber: 2.0 Consensus size: 131
36576088 GTTATTGAAT
36576098 TCATTGAGTCGAATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTATTATAACACTTA
1 TCATTGAGTCGAATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTATTATAACACTTA
36576163 CATGTGATTTTTTTATCT-A-AGTATTTTTGTCATTTATACCTTAATTTATTATAACATTTACAT
66 CATGTGATTTTTTTATCTAACAGTATTTTTG---TTTATACCTTAATTTATTATAACATTTACAT
36576226 GTGA
128 GTGA
36576230 TCATTGAGTC-ACATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTATTATAACACTT
1 TCATTGAGTCGA-ATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTATTATAACACTT
** * * *
36576294 ATGTGTGATTTTTTTATCTGAACATTATTTTTGTTTATACCTTAATTTCTTATAACATTTATATG
65 ACATGTGATTTTTTTATCT-AACAGTATTTTTGTTTATACCTTAATTTATTATAACATTTACATG
36576359 TGA
129 TGA
36576362 T
1 T
36576363 ATTTTTACCT
Statistics
Matches: 124, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
131 1 0.01
132 113 0.91
134 1 0.01
135 9 0.07
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (131 bp):
TCATTGAGTCGAATCAATAATCAGATAACTTTTATCGTTTATATCTTCATTTATTATAACACTTA
CATGTGATTTTTTTATCTAACAGTATTTTTGTTTATACCTTAATTTATTATAACATTTACATGTG
A
Found at i:36579774 original size:23 final size:24
Alignment explanation
Indices: 36579715--36579777 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
36579705 CTCTAAACTC
**
36579715 AAAAACCCTAAACCTAAAAGTATT
1 AAAAACCCTAAACCTAAAAACATT
* *
36579739 -AAAATCTTAAACCTAAAAACATT
1 AAAAACCCTAAACCTAAAAACATT
*
36579762 AAAAACCCTAACCCTA
1 AAAAACCCTAAACCTA
36579778 GGAGAGAGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.54, C:0.24, G:0.02, T:0.21
Consensus pattern (24 bp):
AAAAACCCTAAACCTAAAAACATT
Found at i:36587299 original size:16 final size:16
Alignment explanation
Indices: 36587278--36587312 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
36587268 ACTGCCGGGT
36587278 CGGGCCAGGTTCAGGC
1 CGGGCCAGGTTCAGGC
36587294 CGGGCCAGGTTCAGGC
1 CGGGCCAGGTTCAGGC
36587310 CGG
1 CGG
36587313 TACGAGCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.31, G:0.46, T:0.11
Consensus pattern (16 bp):
CGGGCCAGGTTCAGGC
Found at i:36587476 original size:12 final size:12
Alignment explanation
Indices: 36587459--36587493 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
36587449 CCAACCCGTC
36587459 TATATTAATTTT
1 TATATTAATTTT
*
36587471 TATATTATTTTT
1 TATATTAATTTT
36587483 TATA-TAATTTT
1 TATATTAATTTT
36587494 AAAATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:36587517 original size:18 final size:18
Alignment explanation
Indices: 36587494--36587531 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
36587484 ATATAATTTT
*
36587494 AAAATA-TATAAACCATCA
1 AAAATACTA-AAAACATCA
36587512 AAAATACTAAAAACATCA
1 AAAATACTAAAAACATCA
36587530 AA
1 AA
36587532 TAAATATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAATACTAAAAACATCA
Found at i:36587673 original size:19 final size:21
Alignment explanation
Indices: 36587630--36587674 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
36587620 TTTCTAAAAT
**
36587630 AATAACAAAATTAACAAATCT
1 AATAACAAAATTAACAAATAA
36587651 AATAA-AAAATTAAC-AATAA
1 AATAACAAAATTAACAAATAA
36587670 AATAA
1 AATAA
36587675 GTTTTATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 9 0.41
21 5 0.23
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (21 bp):
AATAACAAAATTAACAAATAA
Found at i:36587743 original size:11 final size:11
Alignment explanation
Indices: 36587703--36587742 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
36587693 ATAATAACAA
36587703 CAAAATAATAG
1 CAAAATAATAG
*
36587714 CAACATAATAG
1 CAAAATAATAG
* *
36587725 TAAAATAGTAG
1 CAAAATAATAG
36587736 CAAAATA
1 CAAAATA
36587743 GGGAGAAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:36589896 original size:14 final size:14
Alignment explanation
Indices: 36589877--36589905 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36589867 ATCAATATCA
36589877 AATAGAGGTAGTAT
1 AATAGAGGTAGTAT
36589891 AATAGAGGTAGTAT
1 AATAGAGGTAGTAT
36589905 A
1 A
36589906 CTTCTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (14 bp):
AATAGAGGTAGTAT
Found at i:36591864 original size:21 final size:19
Alignment explanation
Indices: 36591838--36591880 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
36591828 AGTGATTACG
*
36591838 TGTGTAAATTTAATATACATA
1 TGTGTAAA-TTAATA-AAATA
*
36591859 TGTGTATATTAATAAAATA
1 TGTGTAAATTAATAAAATA
36591878 TGT
1 TGT
36591881 TTACGTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (19 bp):
TGTGTAAATTAATAAAATA
Found at i:36592956 original size:40 final size:40
Alignment explanation
Indices: 36592898--36592999 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
36592888 TTTGGTTCAA
* * *
36592898 CCGATGAGACACTAGGTGTCAGTTTATTACTTTGGATTTAT
1 CCGATGAGACACTAGGTGTCAATTTACTACTTT-GAATTAT
* *
36592939 TCGATGAGACACT-GGTGTTAATTTACTACTTTGAATTAT
1 CCGATGAGACACTAGGTGTCAATTTACTACTTTGAATTAT
* * *
36592978 CCGATGAGGCATTGGGTGTCAA
1 CCGATGAGACACTAGGTGTCAA
36593000 ATTGGTGTGT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 16 0.31
40 23 0.45
41 12 0.24
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (40 bp):
CCGATGAGACACTAGGTGTCAATTTACTACTTTGAATTAT
Found at i:36597968 original size:13 final size:13
Alignment explanation
Indices: 36597952--36597984 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
36597942 TAGCCGTGTG
36597952 AGTCACACGGCCT
1 AGTCACACGGCCT
36597965 AGTCACACGGCCT
1 AGTCACACGGCCT
36597978 AGTCACA
1 AGTCACA
36597985 TAACCGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.27, C:0.36, G:0.21, T:0.15
Consensus pattern (13 bp):
AGTCACACGGCCT
Found at i:36601316 original size:21 final size:20
Alignment explanation
Indices: 36601263--36601343 Score: 56
Period size: 21 Copynumber: 3.9 Consensus size: 20
36601253 GAGTTTCAGA
*
36601263 TTAACCCTTATGGGTTTCCGT
1 TTAACCCTTAT-GGCTTCCGT
* *
36601284 TCAGCTCC-TATGAGCTTCCGT
1 TTAAC-CCTTATG-GCTTCCGT
*
36601305 TTAACCCTTATGGGTTCCCGT
1 TTAACCCTTATGGCTT-CCGT
* *
36601326 TTAGCACTTATGTGCTTC
1 TTAACCCTTATG-GCTTC
36601344 AGTGTAGCCT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
20 6 0.13
21 35 0.76
22 5 0.11
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.40
Consensus pattern (20 bp):
TTAACCCTTATGGCTTCCGT
Found at i:36601343 original size:42 final size:42
Alignment explanation
Indices: 36601263--36601343 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
36601253 GAGTTTCAGA
* *
36601263 TTAACCCTTATGGGTTTCCGTTCAGCTCCTATGAGCTTCCGT
1 TTAACCCTTATGGGTTCCCGTTCAGCACCTATGAGCTTCCGT
* * *
36601305 TTAACCCTTATGGGTTCCCGTTTAGCACTTATGTGCTTC
1 TTAACCCTTATGGGTTCCCGTTCAGCACCTATGAGCTTC
36601344 AGTGTAGCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.40
Consensus pattern (42 bp):
TTAACCCTTATGGGTTCCCGTTCAGCACCTATGAGCTTCCGT
Found at i:36603355 original size:25 final size:25
Alignment explanation
Indices: 36603327--36603377 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
36603317 AAGATTAATT
*
36603327 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCTGATATTGCCTAATAAA
* *
36603352 TGAATATCTGATATTGCTTAGTAAA
1 TGAATATCTGATATTGCCTAATAAA
36603377 T
1 T
36603378 ATCAAGCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (25 bp):
TGAATATCTGATATTGCCTAATAAA
Found at i:36603926 original size:20 final size:20
Alignment explanation
Indices: 36603884--36603925 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
36603874 CGAAAAATGA
36603884 TTTCTGGAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
*
36603904 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATAATTTACT
36603923 TTT
1 TTT
36603926 TTGGTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:36604031 original size:18 final size:18
Alignment explanation
Indices: 36604005--36604047 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
36603995 AAAAGTTATT
*
36604005 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
36604023 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
36604041 TTTATAT
1 TTTATAT
36604048 TTTAAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:36604055 original size:13 final size:13
Alignment explanation
Indices: 36604037--36604083 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
36604027 TATATATTAA
36604037 TAAATTTATATTT
1 TAAATTTATATTT
*
36604050 TAAATTGT-TTTTT
1 TAAATT-TATATTT
36604063 AATAAATTTATATTT
1 --TAAATTTATATTT
36604078 TAAATT
1 TAAATT
36604084 GTTTTTACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 16 0.57
14 2 0.07
15 10 0.36
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TAAATTTATATTT
Found at i:36604099 original size:28 final size:28
Alignment explanation
Indices: 36604033--36604089 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
36604023 TTTATATATA
36604033 TTAATAAATTTATATTTTAAATTGTTTT
1 TTAATAAATTTATATTTTAAATTGTTTT
36604061 TTAATAAATTTATATTTTAAATTGTTTT
1 TTAATAAATTTATATTTTAAATTGTTTT
36604089 T
1 T
36604090 ACATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (28 bp):
TTAATAAATTTATATTTTAAATTGTTTT
Found at i:36608733 original size:44 final size:44
Alignment explanation
Indices: 36608633--36608724 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
36608623 TGTTCAGGGA
* *
36608633 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGACTTTGAGTCGATGAGGCACTATAAGTGCCGTACTGT
**
36608677 TACTTCGACTTTGAGTCGATGAGGCACCT-TGTGTGCCGTACTGT
1 TACTTCGACTTTGAGTCGATGAGGCA-CTATAAGTGCCGTACTGT
36608721 TACT
1 TACT
36608725 GTTACTTTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 41 0.95
45 2 0.05
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.34
Consensus pattern (44 bp):
TACTTCGACTTTGAGTCGATGAGGCACTATAAGTGCCGTACTGT
Found at i:36609044 original size:20 final size:21
Alignment explanation
Indices: 36609004--36609044 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36608994 TATGGGTCGT
*
36609004 ATTTTAGGCACCTCGTGTGTC
1 ATTTTAGGCACCTCATGTGTC
*
36609025 ATTTTAGGCA-CTTATGTGTC
1 ATTTTAGGCACCTCATGTGTC
36609045 GTATACTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (21 bp):
ATTTTAGGCACCTCATGTGTC
Found at i:36609246 original size:6 final size:6
Alignment explanation
Indices: 36609223--36609264 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
36609213 TGGAATTATG
36609223 AATTGA AATGTG- AATTGA AATTGA AATGTG- AATTGA AATTGA
1 AATTGA AAT-TGA AATTGA AATTGA AAT-TGA AATTGA AATTGA
36609265 GATATAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.12
6 24 0.75
7 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (6 bp):
AATTGA
Found at i:36609246 original size:18 final size:18
Alignment explanation
Indices: 36609223--36609264 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
36609213 TGGAATTATG
36609223 AATTGAAATGTGAATTGA
1 AATTGAAATGTGAATTGA
36609241 AATTGAAATGTGAATTGA
1 AATTGAAATGTGAATTGA
36609259 AATTGA
1 AATTGA
36609265 GATATAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.33
Consensus pattern (18 bp):
AATTGAAATGTGAATTGA
Found at i:36609995 original size:22 final size:22
Alignment explanation
Indices: 36609936--36609988 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
36609926 TTTTTGATTA
36609936 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCCGT
*
36609958 TTAGCACGTTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCCGT
36609980 TTAGCACAT
1 TTAGCACAT
36609989 CTGTGCTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCCGT
Found at i:36613148 original size:25 final size:25
Alignment explanation
Indices: 36613119--36613169 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
36613109 AAGAATAATT
* *
36613119 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCTAATATTGCCTAATAAA
* *
36613144 TGAATATCTAATATTGCTTAGTAAA
1 TGAATATCTAATATTGCCTAATAAA
36613169 T
1 T
36613170 ATCAAGCCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (25 bp):
TGAATATCTAATATTGCCTAATAAA
Found at i:36617033 original size:42 final size:43
Alignment explanation
Indices: 36616891--36617078 Score: 220
Period size: 42 Copynumber: 4.3 Consensus size: 43
36616881 CTCCACGAGT
*
36616891 GCCCGAATACACATCACCGGCACGAAGCCTGCTGCTAGGCACGAAG
1 GCCCGAATATACATCACCGGCACGAAG-C--CTGCTAGGCACGAAG
* * *
36616937 GCCTGAATGAATGAATATCA-C-TCACGAAGCCTGCTAGGCACGAAG
1 GCCCGAAT--AT--ACATCACCGGCACGAAGCCTGCTAGGCACGAAG
* *
36616982 GCCGCGAATATACATCACCGGCACGAAGACTGCTAGGCAC-AAA
1 GCC-CGAATATACATCACCGGCACGAAGCCTGCTAGGCACGAAG
*
36617025 GCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAG
1 GCCCGAATATACATCACCGGCACGAAGCCTGCTAGGCACGAAG
36617068 GCCCGAATATA
1 GCCCGAATATA
36617079 ATACCAGCAC
Statistics
Matches: 121, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
42 39 0.32
43 18 0.15
44 20 0.17
45 18 0.15
46 11 0.09
47 1 0.01
48 8 0.07
49 1 0.01
50 5 0.04
ACGTcount: A:0.32, C:0.31, G:0.24, T:0.13
Consensus pattern (43 bp):
GCCCGAATATACATCACCGGCACGAAGCCTGCTAGGCACGAAG
Found at i:36617134 original size:38 final size:39
Alignment explanation
Indices: 36617069--36617193 Score: 164
Period size: 39 Copynumber: 3.2 Consensus size: 39
36617059 GGCACGAAGG
* * * *
36617069 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTTAA
36617108 CCCGGATATAATA-CAGCACGAAGCCTGCGGGATTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTTAA
**
36617146 CCCGGATATTTTACCAGCACGAAGCCTGCGGG-TCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGAT-TTTAA
36617185 GCCCGGATA
1 -CCCGGATA
36617194 CACATCAAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
38 34 0.44
39 35 0.45
40 8 0.10
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (39 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTTAA
Found at i:36623920 original size:32 final size:31
Alignment explanation
Indices: 36623885--36623946 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
36623875 AACATGTGTT
36623885 TTTTTTTC-CATTATTTTCTATCAAAAATGAA
1 TTTTTTTCACATTATTTTCTAT-AAAAATGAA
36623916 TTTTTTTCACATTATTTTCTATAAAAATGAA
1 TTTTTTTCACATTATTTTCTATAAAAATGAA
36623947 AGTGAAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 17 0.57
32 13 0.43
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.52
Consensus pattern (31 bp):
TTTTTTTCACATTATTTTCTATAAAAATGAA
Found at i:36627687 original size:25 final size:27
Alignment explanation
Indices: 36627644--36627699 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
36627634 CAAGTGCGAT
* * *
36627644 TTTTTTATATTAGAGTATT-TTTTTTG
1 TTTTTTAAATAAGAGTATTATTTTTTA
36627670 TTTTTTAAATAAGA-TATTATTTTTTA
1 TTTTTTAAATAAGAGTATTATTTTTTA
36627696 TTTT
1 TTTT
36627700 CAAATTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (27 bp):
TTTTTTAAATAAGAGTATTATTTTTTA
Found at i:36627931 original size:23 final size:24
Alignment explanation
Indices: 36627905--36627949 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
36627895 AAAATTAAAT
*
36627905 GAGC-ACAGACACAAAATTTAGCA
1 GAGCAACAGAAACAAAATTTAGCA
36627928 GAGCAACAGAAACAAAATTTAG
1 GAGCAACAGAAACAAAATTTAG
36627950 TTGAACGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.13
Consensus pattern (24 bp):
GAGCAACAGAAACAAAATTTAGCA
Found at i:36634357 original size:14 final size:14
Alignment explanation
Indices: 36634332--36634399 Score: 68
Period size: 14 Copynumber: 4.9 Consensus size: 14
36634322 AATACATTAC
*
36634332 CTTTATTTCTTCTTT
1 CTTTCTTTCTTC-TT
36634347 CTTTC-TTCTTCTT
1 CTTTCTTTCTTCTT
* *
36634360 CTTTTTTTCTTCTC
1 CTTTCTTTCTTCTT
*
36634374 CTTTCTCTCTT-TT
1 CTTTCTTTCTTCTT
*
36634387 CTTTCTCTCTTCT
1 CTTTCTTTCTTCT
36634400 CATGGGTGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
13 18 0.40
14 23 0.51
15 4 0.09
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.69
Consensus pattern (14 bp):
CTTTCTTTCTTCTT
Found at i:36634360 original size:17 final size:17
Alignment explanation
Indices: 36634338--36634372 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
36634328 TTACCTTTAT
36634338 TTCTTCTTTCTTTCTTC
1 TTCTTCTTTCTTTCTTC
*
36634355 TTCTTCTTTTTTTCTTC
1 TTCTTCTTTCTTTCTTC
36634372 T
1 T
36634373 CCTTTCTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTCTTCTTTCTTTCTTC
Found at i:36634372 original size:20 final size:22
Alignment explanation
Indices: 36634341--36634399 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 22
36634331 CCTTTATTTC
36634341 TTCTTTCTTTCTTCTTCT-TCTT
1 TTCTTTC-TTCTTCTTCTCTCTT
*
36634363 TT-TTTCTTCTCCTTTCTCTCTT
1 TTCTTTCTTCTTC-TTCTCTCTT
36634385 TTCTTTCTCTCTTCT
1 TTCTTTCT-TCTTCT
36634400 CATGGGTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 5 0.16
21 8 0.26
22 8 0.26
23 6 0.19
24 4 0.13
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
TTCTTTCTTCTTCTTCTCTCTT
Found at i:36634400 original size:20 final size:20
Alignment explanation
Indices: 36634344--36634400 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 20
36634334 TTATTTCTTC
36634344 TTTCTTTCT-TCTTCT-TCT
1 TTTCTTTCTCTCTTCTCTCT
36634362 TTT-TTTCTTCTCCTTTCTCTCT
1 TTTCTTTC-TCT-C-TTCTCTCT
36634384 TTTCTTTCTCTCTTCTC
1 TTTCTTTCTCTCTTCTC
36634401 ATGGGTGGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
17 4 0.12
18 4 0.12
19 1 0.03
20 6 0.18
21 5 0.15
22 9 0.27
23 4 0.12
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTCTTTCTCTCTTCTCTCT
Found at i:36634758 original size:28 final size:26
Alignment explanation
Indices: 36634688--36634762 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
36634678 ATATAAATTT
36634688 AAATATTTTTAATA-AAAATAAAAAAAA
1 AAATA-TTTTAATATAAAA-AAAAAAAA
* *
36634715 TAATATTTT-ATTTAAAAAAATAAAAA
1 AAATATTTTAATATAAAAAAA-AAAAA
*
36634741 AACATGTTTTAATATAAAAAAA
1 AA-ATATTTTAATATAAAAAAA
36634763 GAGTCGCGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
25 5 0.13
26 14 0.36
27 10 0.26
28 10 0.26
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (26 bp):
AAATATTTTAATATAAAAAAAAAAAA
Found at i:36636015 original size:18 final size:16
Alignment explanation
Indices: 36635977--36636017 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
36635967 TTTTTTTATT
36635977 AATTTTAAAATTTTGA
1 AATTTTAAAATTTTGA
*
36635993 AATTTTAAAATATCTTTA
1 AATTTTAAAAT-T-TTGA
36636011 AATTTTA
1 AATTTTA
36636018 TTTGTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.50
17 1 0.05
18 10 0.45
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
AATTTTAAAATTTTGA
Found at i:36637815 original size:10 final size:10
Alignment explanation
Indices: 36637800--36637834 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
36637790 TATTAGTACT
36637800 TTTTTTCTTC
1 TTTTTTCTTC
*
36637810 TTTTTTTTTC
1 TTTTTTCTTC
36637820 TTTTTTCTT-
1 TTTTTTCTTC
36637829 TTTTTT
1 TTTTTT
36637835 TTAAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.26
10 17 0.74
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:36637817 original size:13 final size:12
Alignment explanation
Indices: 36637799--36637836 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
36637789 TTATTAGTAC
36637799 TTTTTTTCTTCTT
1 TTTTTTTCTT-TT
36637812 TTTTTTTCTTTT
1 TTTTTTTCTTTT
36637824 TTCTTTTT-TTTT
1 TT-TTTTTCTTTT
36637836 T
1 T
36637837 AAATTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:36637829 original size:17 final size:18
Alignment explanation
Indices: 36637802--36637835 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
36637792 TTAGTACTTT
36637802 TTTTCTTCTTTTTTTTTC
1 TTTTCTTCTTTTTTTTTC
36637820 TTTT-TTCTTTTTTTTT
1 TTTTCTTCTTTTTTTTT
36637836 TAAATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTCTTCTTTTTTTTTC
Found at i:36637835 original size:10 final size:10
Alignment explanation
Indices: 36637798--36637836 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
36637788 TTTATTAGTA
36637798 CTTTTTTTCTT
1 CTTTTTTT-TT
36637809 CTTTTTTTTT
1 CTTTTTTTTT
36637819 CTTTTTTCTTT
1 CTTTTTT-TTT
36637830 -TTTTTTT
1 CTTTTTTT
36637837 AAATTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 1 0.04
10 15 0.56
11 11 0.41
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:36637843 original size:20 final size:20
Alignment explanation
Indices: 36637800--36637843 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
36637790 TATTAGTACT
**
36637800 TTTTTTCTTCTTTTTTTTTC
1 TTTTTTCTTCTTTTTTTTAA
36637820 TTTTTTCTT-TTTTTTTTAA
1 TTTTTTCTTCTTTTTTTTAA
*
36637839 ATTTT
1 TTTTT
36637844 ATTATTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.07, C:0.09, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTCTTCTTTTTTTTAA
Found at i:36638122 original size:118 final size:118
Alignment explanation
Indices: 36637980--36638192 Score: 372
Period size: 118 Copynumber: 1.8 Consensus size: 118
36637970 TTTTGCCCAA
*
36637980 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGTACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
* *
36638045 TCAGTCACGATTTGAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
66 TCAGTCACGATCTAAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
*
36638098 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACTCCGGTTACTCAG
1 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
**
36638163 TCAGTCACGATCTAAGCTGTACTCATAACC
66 TCAGTCACGATCTAAGCCATACTCATAACC
36638193 ATGGAAAACT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 89 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (118 bp):
CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
TCAGTCACGATCTAAGCCATACTCATAACCTCGGCTAGCGGAGTTTTACTTGT
Found at i:36639036 original size:42 final size:43
Alignment explanation
Indices: 36638949--36639038 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
36638939 TGAAAAGGGG
* * *
36638949 TGTTTGGCTGCAGATTTTGGGGATTCTAGGGCTGGAATAAGAC
1 TGTTTGGCTGCAGAATATGGGCATTCTAGGGCTGGAATAAGAC
36638992 TGTTTGGCTGCAGAGATAT-GGCATTCT-GGGCTGGAAT-AGAAC
1 TGTTTGGCTGCAGA-ATATGGGCATTCTAGGGCTGGAATAAG-AC
36639034 TGTTT
1 TGTTT
36639039 TGGTACCATG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 2 0.05
42 17 0.40
43 21 0.50
44 2 0.05
ACGTcount: A:0.21, C:0.12, G:0.33, T:0.33
Consensus pattern (43 bp):
TGTTTGGCTGCAGAATATGGGCATTCTAGGGCTGGAATAAGAC
Found at i:36639218 original size:5 final size:6
Alignment explanation
Indices: 36639148--36639225 Score: 69
Period size: 5 Copynumber: 13.7 Consensus size: 6
36639138 ATATTTAACT
36639148 AAAAT- AAAAT- AAAAT- AAAAT- AAAAT- AAAATA ATAAATA AAAA-A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA
* **
36639191 GAAAGG AAAATA ATAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA A-AAATA AAAATA AAAATA AAAA
36639226 GAAAGATTGG
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
5 29 0.45
6 23 0.36
7 12 0.19
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:36639224 original size:24 final size:24
Alignment explanation
Indices: 36639148--36639224 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
36639138 ATATTTAACT
36639148 AAAATAAAAT-A-AAAT-AAAAT-
1 AAAATAAAATAATAAATAAAAATA
36639168 AAAATAAAATAATAAATAAAAA-A
1 AAAATAAAATAATAAATAAAAATA
**
36639191 GAAAGGAAAATAATAAATAAAAATA
1 -AAAATAAAATAATAAATAAAAATA
36639216 AAAATAAAA
1 AAAATAAAA
36639225 AGAAAGATTG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
20 10 0.21
21 1 0.02
22 4 0.09
23 4 0.09
24 27 0.57
25 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAATAAAATAATAAATAAAAATA
Found at i:36645686 original size:27 final size:26
Alignment explanation
Indices: 36645656--36645717 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
36645646 AGATAATTAA
36645656 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
36645683 AATAATGATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
36645710 AATAAAAT
1 AATAAAAT
36645718 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.37
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:36647243 original size:5 final size:5
Alignment explanation
Indices: 36647233--36647270 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
36647223 CATTTTTGTG
36647233 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
36647271 GAACACACAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:36651589 original size:5 final size:5
Alignment explanation
Indices: 36651579--36651606 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
36651569 CTAATTTGTG
36651579 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
36651607 TAACACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:36658703 original size:7 final size:7
Alignment explanation
Indices: 36658691--36658715 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36658681 AGATTATGAT
36658691 GGGCATA
1 GGGCATA
36658698 GGGCATA
1 GGGCATA
36658705 GGGCATA
1 GGGCATA
36658712 GGGC
1 GGGC
36658716 TGACAGACGC
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:0.24, C:0.16, G:0.48, T:0.12
Consensus pattern (7 bp):
GGGCATA
Found at i:36659136 original size:17 final size:19
Alignment explanation
Indices: 36659114--36659152 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
36659104 TTTTTTTCAT
36659114 AAAAATTAT-AAATTA-TA
1 AAAAATTATAAAATTAGTA
36659131 AAAAATTATAAAATTAGTA
1 AAAAATTATAAAATTAGTA
36659150 AAA
1 AAA
36659153 TATATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
18 6 0.30
19 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAAATTATAAAATTAGTA
Found at i:36659153 original size:17 final size:16
Alignment explanation
Indices: 36659112--36659152 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
36659102 TATTTTTTTC
36659112 ATAAAAATTATAAATT
1 ATAAAAATTATAAATT
36659128 ATAAAAAATTATAAAATT
1 AT-AAAAATTAT-AAATT
36659146 AGTAAAA
1 A-TAAAA
36659153 TATATTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 2 0.09
17 9 0.41
18 10 0.45
19 1 0.05
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
ATAAAAATTATAAATT
Found at i:36659180 original size:22 final size:21
Alignment explanation
Indices: 36659155--36659195 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
36659145 TAGTAAAATA
* *
36659155 TATTTAAATTTTTATAAAAACG
1 TATTAAAATTCTT-TAAAAACG
36659177 TATTAAAATTCTTTAAAAA
1 TATTAAAATTCTTTAAAAA
36659196 TCATAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (21 bp):
TATTAAAATTCTTTAAAAACG
Found at i:36659257 original size:19 final size:19
Alignment explanation
Indices: 36659235--36659277 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
36659225 TTTAAAGTAT
* * *
36659235 TAAAACTAATATAAATTTA
1 TAAAAATAATAAAAAATTA
*
36659254 TAAAAATTATAAAAAATTA
1 TAAAAATAATAAAAAATTA
36659273 TAAAA
1 TAAAA
36659278 TCTTAAATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATAATAAAAAATTA
Found at i:36659278 original size:8 final size:9
Alignment explanation
Indices: 36659112--36659277 Score: 56
Period size: 10 Copynumber: 17.7 Consensus size: 9
36659102 TATTTTTTTC
36659112 ATAAAAATT
1 ATAAAAATT
36659121 AT--AAATT
1 ATAAAAATT
36659128 ATAAAAAATT
1 AT-AAAAATT
36659138 AT-AAAATT
1 ATAAAAATT
36659146 AGTAAAATATAT
1 A-TAAAA-AT-T
* **
36659158 TTAAATTTTT
1 ATAAA-AATT
*
36659168 ATAAAAACGT
1 ATAAAAA-TT
*
36659178 ATTAAAATTCT
1 A-TAAAAAT-T
* *
36659189 TTAAAAATC
1 ATAAAAATT
36659198 ATAAAAAATT
1 AT-AAAAATT
*
36659208 ATAAAAAGT
1 ATAAAAATT
**
36659217 ATTTAAATT
1 ATAAAAATT
* *
36659226 TTAAAGTATT
1 ATAAA-AATT
36659236 A-AAACTAA-T
1 ATAAA--AATT
*
36659245 AT-AAATTT
1 ATAAAAATT
36659253 ATAAAAATT
1 ATAAAAATT
36659262 ATAAAAAATT
1 AT-AAAAATT
36659272 ATAAAA
1 ATAAAA
36659278 TCTTAAATTG
Statistics
Matches: 112, Mismatches: 27, Indels: 36
0.64 0.15 0.21
Matches are distributed among these distances:
7 8 0.07
8 10 0.09
9 36 0.32
10 44 0.39
11 13 0.12
12 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (9 bp):
ATAAAAATT
Found at i:36660164 original size:27 final size:29
Alignment explanation
Indices: 36660111--36660166 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
36660101 AAATAGGGGA
36660111 AATTATTTTGTTAGTCACTCAATTATTAAT
1 AATTATTTTGTTA-TCACTCAATTATTAAT
*
36660141 AATTATTTT-TT-TCATTCAATTATTAA
1 AATTATTTTGTTATCACTCAATTATTAA
36660167 AAGTTATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 14 0.56
29 2 0.08
30 9 0.36
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.54
Consensus pattern (29 bp):
AATTATTTTGTTATCACTCAATTATTAAT
Found at i:36664970 original size:165 final size:165
Alignment explanation
Indices: 36664687--36665015 Score: 595
Period size: 165 Copynumber: 2.0 Consensus size: 165
36664677 GAAACTCAGT
36664687 TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
1 TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
*
36664752 ATGCAATATATGTCAAAGTCTGCAAATGAGCAGAGCTACCGGGAAAGTGTTAAACATGGACAAGA
66 ATGCAATATATGTCAAAGTCTGCAAATGAGCAGAGCTACCAGGAAAGTGTTAAACATGGACAAGA
*
36664817 AATGCAAACCGGTTCTTTCAGGCATGGAGATGATA
131 AATGCAAACCAGTTCTTTCAGGCATGGAGATGATA
* * *
36664852 TTGATGTACCAATAGTCGTCTCCACTACATCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
1 TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
* *
36664917 ATGCAATATATGTCAAAGTCTGGAAATGAGCAGAGCTACCAGGAAATTGTTAAACATGGACAAGA
66 ATGCAATATATGTCAAAGTCTGCAAATGAGCAGAGCTACCAGGAAAGTGTTAAACATGGACAAGA
36664982 AATGCAAACCAGTTCTTTCAGGCATGGAGATGAT
131 AATGCAAACCAGTTCTTTCAGGCATGGAGATGAT
36665016 GTTGGGCTTC
Statistics
Matches: 157, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 157 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (165 bp):
TTGATGCACCAATAGTCATCTCCACTACACCCGCTTTTGATAATGGAAGGGACAGGCTGGGAAGA
ATGCAATATATGTCAAAGTCTGCAAATGAGCAGAGCTACCAGGAAAGTGTTAAACATGGACAAGA
AATGCAAACCAGTTCTTTCAGGCATGGAGATGATA
Found at i:36667591 original size:10 final size:10
Alignment explanation
Indices: 36667578--36667694 Score: 66
Period size: 10 Copynumber: 11.8 Consensus size: 10
36667568 TAAATCTAAG
36667578 TTATAAAAAA
1 TTATAAAAAA
*
36667588 TTAT--TAAA
1 TTATAAAAAA
*
36667596 TTTTAATAAAA
1 TTATAA-AAAA
* *
36667607 ATATTAAAAA
1 TTATAAAAAA
*
36667617 TTAGAAAAGAA
1 TTATAAAA-AA
36667628 TTAT-AAAAA
1 TTATAAAAAA
**
36667637 TCGTAAAAAA
1 TTATAAAAAA
36667647 -TATAAAAAA
1 TTATAAAAAA
36667656 TTAT--AAAA
1 TTATAAAAAA
*
36667664 TTGTATAAAAA
1 TTATA-AAAAA
*
36667675 TCATAAAAAAAA
1 T--TATAAAAAA
36667687 TTATAAAA
1 TTATAAAA
36667695 TACATTAAAA
Statistics
Matches: 78, Mismatches: 18, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
8 13 0.17
9 11 0.14
10 30 0.38
11 16 0.21
12 6 0.08
13 2 0.03
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:36667633 original size:29 final size:27
Alignment explanation
Indices: 36667601--36667704 Score: 82
Period size: 29 Copynumber: 3.6 Consensus size: 27
36667591 TTAAATTTTA
36667601 ATAAAAATATTAAAAATTAGAAAAGAATT
1 ATAAAAATATTAAAAATTA-AAAA-AATT
** *
36667630 ATAAAAATCGTAAAAAATATAAAAAATT
1 ATAAAAATATTAAAAATTA-AAAAAATT
* *
36667658 ATAAAATTGTATAAAAATCATAAAAAAAATT
1 ATAAAAATAT-TAAAAAT--T-AAAAAAATT
*
36667689 ATAAAATACATTAAAA
1 ATAAAA-ATATTAAAA
36667705 TGCCCTTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
28 11 0.19
29 26 0.44
31 20 0.34
32 2 0.03
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (27 bp):
ATAAAAATATTAAAAATTAAAAAAATT
Found at i:36667647 original size:39 final size:38
Alignment explanation
Indices: 36667603--36667695 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 38
36667593 AAATTTTAAT
*
36667603 AAAAATATTAAAAATTAGAAAAGAAT-TATAAAAATCGTA
1 AAAAATATTAAAAATTA-AAAA-AATGTATAAAAATCATA
* * *
36667642 AAAAATATAAAAAATTATAAAATTGTATAAAAATCATA
1 AAAAATATTAAAAATTAAAAAAATGTATAAAAATCATA
*
36667680 AAAAAAATTATAAAAT
1 AAAAATATTA-AAAAT
36667696 ACATTAAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
37 2 0.04
38 23 0.50
39 21 0.46
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (38 bp):
AAAAATATTAAAAATTAAAAAAATGTATAAAAATCATA
Found at i:36667919 original size:18 final size:19
Alignment explanation
Indices: 36667875--36667919 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
36667865 TTTGGTACTA
*
36667875 TAATTATTATATTTTTTTAC
1 TAATT-TTATATTTCTTTAC
36667895 TAATTTTATATTTCTTTAC
1 TAATTTTATATTTCTTTAC
36667914 -AATTTT
1 TAATTTT
36667920 TTATAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.25
19 13 0.54
20 5 0.21
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (19 bp):
TAATTTTATATTTCTTTAC
Found at i:36667934 original size:21 final size:22
Alignment explanation
Indices: 36667898--36667950 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
36667888 TTTTTACTAA
*
36667898 TTTTAT-A-TTTCTTTACAATT
1 TTTTATAATTTTCTTTACAACT
36667918 TTTTATAATTTTC-TTACAACT
1 TTTTATAATTTTCTTTACAACT
* *
36667939 TTATAAAATTTT
1 TTTTATAATTTT
36667951 ATAATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.21
21 18 0.64
22 4 0.14
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTATAATTTTCTTTACAACT
Found at i:36667960 original size:10 final size:10
Alignment explanation
Indices: 36667881--36668019 Score: 67
Period size: 10 Copynumber: 14.1 Consensus size: 10
36667871 ACTATAATTA
*
36667881 TTATATTTTT
1 TTATAATTTT
36667891 TTACTAA--TT
1 TTA-TAATTTT
36667900 TTAT-ATTTCT
1 TTATAATTT-T
*
36667910 TTACAATTTT
1 TTATAATTTT
36667920 TTATAATTTT
1 TTATAATTTT
* *
36667930 CTTACAA--CT
1 -TTATAATTTT
**
36667939 TTATAAAATT
1 TTATAATTTT
36667949 TTATAATTTT
1 TTATAATTTT
*
36667959 TTTTAATTTT
1 TTATAATTTT
* *
36667969 TAATAATATT
1 TTATAATTTT
36667979 TTA-ATATTTT
1 TTATA-ATTTT
**
36667989 TTATTAAAATT
1 TTA-TAATTTT
* *
36668000 TAATCA-TTT
1 TTATAATTTT
36668009 TTATAATTTT
1 TTATAATTTT
36668019 T
1 T
36668020 ATTGAATTTT
Statistics
Matches: 95, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
7 1 0.01
8 6 0.06
9 14 0.15
10 57 0.60
11 16 0.17
12 1 0.01
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (10 bp):
TTATAATTTT
Found at i:36667988 original size:30 final size:30
Alignment explanation
Indices: 36667941--36668029 Score: 92
Period size: 30 Copynumber: 2.9 Consensus size: 30
36667931 TTACAACTTT
*
36667941 ATAAAATTTTATAATTTTTTTTAATTTTTA
1 ATAATATTTTATAATTTTTTTTAATTTTTA
**
36667971 ATAATATTTTA-ATATTTTTTATTAAAATTTA
1 ATAATATTTTATA-ATTTTTT-TTAATTTTTA
* *
36668002 ATCAT-TTTTATAATTTTTATTGAATTTT
1 ATAATATTTTATAATTTTT-TTTAATTTT
36668030 ATTTTTAGCA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
29 1 0.02
30 33 0.69
31 14 0.29
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (30 bp):
ATAATATTTTATAATTTTTTTTAATTTTTA
Found at i:36667989 original size:21 final size:21
Alignment explanation
Indices: 36667965--36668015 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
36667955 TTTTTTTTAA
*
36667965 TTTTTAATAATATTTTAAT-AT
1 TTTTTAATAA-AATTTAATCAT
*
36667986 TTTTTATTAAAATTTAATCAT
1 TTTTTAATAAAATTTAATCAT
36668007 TTTTATAAT
1 TTTT-TAAT
36668016 TTTTATTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 7 0.28
21 15 0.60
22 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTTAATAAAATTTAATCAT
Found at i:36668266 original size:101 final size:102
Alignment explanation
Indices: 36668145--36668351 Score: 292
Period size: 101 Copynumber: 2.0 Consensus size: 102
36668135 TAACAATCAA
*** *
36668145 AGGG-CCTTTTTGATGCATTTTGGCAGTTCAAGTACCTAATTGAGTGCAAAAAAAAAAAAAAAAA
1 AGGGCCCTTTTTGATGCATTTTCAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAAAAAAAAAAA
** *
36668209 AAAGCAGGGGTTTAATTTCTTTTTTGGAAAAAGTTTG
66 AAAGCAGGGACTTAATTGCTTTTTTGGAAAAAGTTTG
* * *
36668246 AGGGCCCTTTTT-ATGCATTTTCAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAGAAGAAGAAA
1 AGGGCCCTTTTTGATGCATTTTCAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAAAAAAAAAAA
* *
36668310 AAAGCAGTGACTTAATTGCTTTTTTTGAAAAAGTTTG
66 AAAGCAGGGACTTAATTGCTTTTTTGGAAAAAGTTTG
36668347 AGGGC
1 AGGGC
36668352 TTTTTACACC
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 86 0.92
102 7 0.08
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (102 bp):
AGGGCCCTTTTTGATGCATTTTCAAAGTTCAAGTACCAAATTGAGTGCAAAAAAAAAAAAAAAAA
AAAGCAGGGACTTAATTGCTTTTTTGGAAAAAGTTTG
Found at i:36673600 original size:343 final size:342
Alignment explanation
Indices: 36672964--36673649 Score: 962
Period size: 343 Copynumber: 2.0 Consensus size: 342
36672954 GGTTTGTAGA
*
36672964 TATTGAGCTACTAAATTTGCTCCTTCAACGCTGACACCATGGTCTCGAGAGAATTATTCTTCTTA
1 TATTGAGCTACTAAATTTGCTCCTTCAACGCTGACACCATGGTCTCGAGAGAATCATTCTTCTTA
* * * *
36673029 GTCAACTTCTTGATTTGATCATCTATAGAGACATTAAGGGTCTCTCTATTGCACCTTGATTGGAA
66 GTCAAATTCTAGATCTGATCATCCATAGAGACATTAAGGGTCTCTCTATTGCACCTTGATTGGAA
* * * * *
36673094 TTGAGAGCCTTCACAACATTGTCCCTAAGCTGCTCTCTTATTGAGTCCAACTCATCGATGCGTCC
131 CTGAGAGCCTTCACAACATAGTCCCTAAGCTGCTCTCTCATCGAGTCCAACTCATCGATGCATCC
* * * * **
36673159 TTCAATTATCTCGAGTGTTTCCTTCACACCACCCATGGATTCCTCGAGATTGGTCACTTAGCCTT
196 CTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTCCTCAAGATTGGTCACCCAGCCTT
* **
36673224 CCAAAGCCAACAACATATCCTTCGATATGCTATTTTCCTGGTCTTCTTATGGGTCTCTATCGAGA
261 CCAAAGCCAACAACATATCCTTCAATATGCTATTTTCCTGGTCTTCCCATGGGTCTCTATCGAGA
*
36673289 CATTTTGTACGTTTACT
326 CATTTTGTACGTCTACT
* * *
36673306 TATTGAGCTACTAAATTTGTTCCTTCAAGGCTGACACCATGGTCTTGAGAGAATCATTCTTCTTA
1 TATTGAGCTACTAAATTTGCTCCTTCAACGCTGACACCATGGTCTCGAGAGAATCATTCTTCTTA
* * *
36673371 GTCAAATTCTCAG-TCTGATCATCCATGGCA-ACATTGAGGGTCTCTCTCATTGCATCTTGATTG
66 GTCAAATTCT-AGATCTGATCATCCATAG-AGACATTAAGGGTCTCTCT-ATTGCACCTTGATTG
* * * *
36673434 GAACTGATAGCCTTCACCACATAGTCCTTAAGCTGCTCTCTCATCGAGTCCAACTCATCGGTGCA
128 GAACTGAGAGCCTTCACAACATAGTCCCTAAGCTGCTCTCTCATCGAGTCCAACTCATCGATGCA
* *
36673499 TCCCTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTTCTCAAGATTGGTCACCCATC
193 TCCCTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTCCTCAAGATTGGTCACCCAGC
** * * * * **
36673564 CTTCCAAATTCGACAGCATATCTTTCAATTTGCTATTTTGTTGGTCTTCCCATGGGTCTCTATCG
258 CTTCCAAAGCCAACAACATATCCTTCAATATGCTATTTTCCTGGTCTTCCCATGGGTCTCTATCG
*
36673629 AGACATTTTGTTCGTCTACT
323 AGACATTTTGTACGTCTACT
36673649 T
1 T
36673650 CTTTTATCAT
Statistics
Matches: 300, Mismatches: 41, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
342 98 0.33
343 202 0.67
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (342 bp):
TATTGAGCTACTAAATTTGCTCCTTCAACGCTGACACCATGGTCTCGAGAGAATCATTCTTCTTA
GTCAAATTCTAGATCTGATCATCCATAGAGACATTAAGGGTCTCTCTATTGCACCTTGATTGGAA
CTGAGAGCCTTCACAACATAGTCCCTAAGCTGCTCTCTCATCGAGTCCAACTCATCGATGCATCC
CTCAATTACCTCGAGCGTTTCCTTCACACCACCCATGGATTCCTCAAGATTGGTCACCCAGCCTT
CCAAAGCCAACAACATATCCTTCAATATGCTATTTTCCTGGTCTTCCCATGGGTCTCTATCGAGA
CATTTTGTACGTCTACT
Found at i:36675681 original size:28 final size:28
Alignment explanation
Indices: 36675641--36675704 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
36675631 TGTACTAGAG
*
36675641 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATGACCATTA
*
36675669 TACCCCTATGTATGCAAAATGACCTTTA
1 TACCCCTATGTATGCAAAATGACCATTA
36675697 TACCCCTA
1 TACCCCTA
36675705 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCATTA
Found at i:36675851 original size:28 final size:28
Alignment explanation
Indices: 36675810--36675899 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
36675800 AGGAAGCGTC
*
36675810 CTGGTGGCTA-TGCCACAAACTATCTATT
1 CTGGTGGC-ACTGCCACAAACTATCTGTT
* * *
36675838 CTGGTGGCCCTGCCACATA-TATCTGCT
1 CTGGTGGCACTGCCACAAACTATCTGTT
36675865 CTGGTGGCACTGCCAC-AACATATCTGTAT
1 CTGGTGGCACTGCCACAAAC-TATCTGT-T
36675894 CTGGTG
1 CTGGTG
36675900 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 21 0.41
28 22 0.43
29 7 0.14
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAACTATCTGTT
Found at i:36675910 original size:29 final size:28
Alignment explanation
Indices: 36675820--36675910 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 28
36675810 CTGGTGGCTA
* *
36675820 TGCCACAA-ACTATCT-ATTCTGGTGGCCC
1 TGCCACAACA-TATCTGA-TCTGGTGACAC
* * *
36675848 TGCCAC-ATATATCTGCTCTGGTGGCAC
1 TGCCACAACATATCTGATCTGGTGACAC
*
36675875 TGCCACAACATATCTGTATCTGGTGACTC
1 TGCCACAACATATCTG-ATCTGGTGACAC
*
36675904 TGTCACA
1 TGCCACA
36675911 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
27 22 0.42
28 15 0.29
29 15 0.29
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.30
Consensus pattern (28 bp):
TGCCACAACATATCTGATCTGGTGACAC
Found at i:36680339 original size:80 final size:81
Alignment explanation
Indices: 36680239--36680424 Score: 191
Period size: 80 Copynumber: 2.3 Consensus size: 81
36680229 CCGCACCAAG
* * * * * *
36680239 GCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAGCCCGGATAG
1 GCCTTCGGGACTTAGCCCGGATATCAGCCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAG
36680303 AATGACTC-GCATGAA-T
66 AATGAC-CAGCAT-AATT
* * * * *
36680319 GCCTTCGGGTCTTAGCCCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAACCCGGTTAT
1 GCCTTCGGGACTTAGCCCGGATATCAGCCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAG
**
36680383 AATTTCCAGCATAATT
66 AATGACCAGCATAATT
* *
36680399 GTCTTCGGGGCTTAGCCCGGATATCA
1 GCCTTCGGGACTTAGCCCGGATATCA
36680425 ATCAATTTCT
Statistics
Matches: 86, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
79 4 0.05
80 81 0.94
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (81 bp):
GCCTTCGGGACTTAGCCCGGATATCAGCCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAG
AATGACCAGCATAATT
Found at i:36680362 original size:40 final size:39
Alignment explanation
Indices: 36680271--36680421 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 39
36680261 ATCACGATTT
*
36680271 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
36680311 GCATGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCA-CAATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * ** *
36680351 GCACAATTGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * *
36680391 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
36680422 TCAATCAATT
Statistics
Matches: 89, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 83 0.93
41 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:36684203 original size:49 final size:49
Alignment explanation
Indices: 36684147--36684247 Score: 157
Period size: 49 Copynumber: 2.1 Consensus size: 49
36684137 CTCTTCAGAA
* *
36684147 GTTAGCCAAGTTGTATGTGGCGAAGATTGTACGACTGCATGGAGTTTCG
1 GTTAGCCAAGTTGTATATGGCGAAGATTGTACGACTGCATGGAGTTCCG
* **
36684196 GTTAGCCAAGTTGTATATGGCGGAGATTGTGTGACTGCATGGAGTTCCG
1 GTTAGCCAAGTTGTATATGGCGAAGATTGTACGACTGCATGGAGTTCCG
36684245 GTT
1 GTT
36684248 TCGATTATCT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.21, C:0.14, G:0.34, T:0.32
Consensus pattern (49 bp):
GTTAGCCAAGTTGTATATGGCGAAGATTGTACGACTGCATGGAGTTCCG
Found at i:36686919 original size:28 final size:28
Alignment explanation
Indices: 36686879--36686942 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
36686869 TGTACTAGAG
*
36686879 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATGACCATTA
*
36686907 TACCCCTATGTATGCAAAATGACCTTTA
1 TACCCCTATGTATGCAAAATGACCATTA
36686935 TACCCCTA
1 TACCCCTA
36686943 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCATTA
Found at i:36687089 original size:28 final size:27
Alignment explanation
Indices: 36687048--36687136 Score: 108
Period size: 27 Copynumber: 3.2 Consensus size: 27
36687038 AGGAAGCGTC
*
36687048 CTGGTGGCTA-TGCCACAAACTATCTATT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
36687076 CTGGTGGCCCTGCCACATATATCTGCT
1 CTGGTGGCACTGCCACAAATATCTGTT
36687103 CTGGTGGCACTGCCACAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATATCTGT-T
36687131 CTGGTG
1 CTGGTG
36687137 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 29 0.56
28 23 0.44
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.30
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:36687161 original size:55 final size:55
Alignment explanation
Indices: 36687048--36687161 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 55
36687038 AGGAAGCGTC
* *
36687048 CTGGTGGCTATGCCACAAACTATCTATTCTGGTGGCCCTGCCACATATATCTGCT
1 CTGGTGGCTATGCCACAAACTATCTATTCTGGTGACCCTGCCACATATATCTGAT
* * * *
36687103 CTGGTGGC-ACTGCCACAAA-TATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAACTATCTAT-TCTGGTGACCCTGCCACATATATCTG-AT
36687158 CTGG
1 CTGG
36687162 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
54 12 0.24
55 38 0.76
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAACTATCTATTCTGGTGACCCTGCCACATATATCTGAT
Found at i:36691097 original size:13 final size:13
Alignment explanation
Indices: 36691079--36691109 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
36691069 TTCTTGTAAA
36691079 CATTTCACATAAC
1 CATTTCACATAAC
*
36691092 CATTTCATATAAC
1 CATTTCACATAAC
36691105 CATTT
1 CATTT
36691110 GTCATCTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (13 bp):
CATTTCACATAAC
Found at i:36691296 original size:46 final size:46
Alignment explanation
Indices: 36691246--36691474 Score: 343
Period size: 46 Copynumber: 5.0 Consensus size: 46
36691236 TTCTGTCATG
* * *
36691246 TTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACT
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGT
*
36691292 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGG
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGT
**
36691338 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCA-GT
** *
36691385 TT-CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGT
**
36691430 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
36691475 AGAGCACACT
Statistics
Matches: 173, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
45 3 0.02
46 167 0.97
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGT
Found at i:36691344 original size:92 final size:92
Alignment explanation
Indices: 36691226--36691474 Score: 385
Period size: 92 Copynumber: 2.7 Consensus size: 92
36691216 TATGGTCTTA
* * ** * *
36691226 CTTATTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCA
1 CTTATTCA-TTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
36691290 -CTTTGCCATGGTATCTTTCAACCATGGT
65 GCTTT-CCATGGTATCTTTCAACCATGGT
36691318 CTTATTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CTTATTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
*
36691383 GTTTCCATGGTATCTTTCAACCATGGT
66 CTTTCCATGGTATCTTTCAACCATGGT
**
36691410 CTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CTTATTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
36691475 AGAGCACACT
Statistics
Matches: 146, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
91 4 0.03
92 139 0.95
93 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (92 bp):
CTTATTCATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
CTTTCCATGGTATCTTTCAACCATGGT
Found at i:36695485 original size:19 final size:20
Alignment explanation
Indices: 36695457--36695498 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
36695447 GTCTTTTCAC
* *
36695457 GAAATTTAATGCACATG-AT
1 GAAATGTAATGCAAATGAAT
36695476 GAAATGTAATGCAAATGAAT
1 GAAATGTAATGCAAATGAAT
36695496 GAA
1 GAA
36695499 TGCAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (20 bp):
GAAATGTAATGCAAATGAAT
Found at i:36700458 original size:17 final size:16
Alignment explanation
Indices: 36700428--36700467 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
36700418 AAAAATCAAC
* *
36700428 ATAAATATATAAACGA
1 ATAAATATACAAACAA
36700444 ATAACATATACAAACAA
1 ATAA-ATATACAAACAA
36700461 ATAAATA
1 ATAAATA
36700468 AATGAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.23
Consensus pattern (16 bp):
ATAAATATACAAACAA
Found at i:36701835 original size:52 final size:52
Alignment explanation
Indices: 36701771--36702486 Score: 391
Period size: 52 Copynumber: 13.2 Consensus size: 52
36701761 GGAAATAAGA
* * * *
36701771 ATTCAGGTAGAAGGGATTTGTAACCTCGACCTACTACACTGGAACTTC-GACG
1 ATTCAGGGAGAAGAGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGA-G
* * * *
36701823 ATTCAGGGAGAAGAGATTTGTAGTCTCGATCTTCT-CTA-TTAAACTTCAAGGATTTAG
1 ATTCAGGGAGAAGAGATTTGTAGCCTCGACCTACTAC-ACTGAAACTTC-A-G----AG
* * * *
36701880 AATTCAAGTAGGAGGGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAG
1 -ATTCAGGGAGAAGAGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAG
** * * * *
36701933 ATTCAGGGAGAAGAGATTTGTAGTTTTGATCTTCT-CTATTGAAACTTCA-AGG
1 ATTCAGGGAGAAGAGATTTGTAGCCTCGACCTACTAC-ACTGAAACTTCAGA-G
* * * * * *
36701985 GTTTAAGGAGAAGAGATTTGTAGTCTCGATCTTCT-CTATTAAGCTTTAAGGACTT-AGA-
1 ATTCAGGGAGAAGAGATTTGTAGCCTCGA-C--CTACTA--CA-C-TGAA--ACTTCAGAG
* * *
36702043 ATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAG
1 ATTCAGGGAGAAGAGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAG
** * * * *
36702095 ATTCAGGGAGAAGAGATTTGTAGTTTTGATCTTCT-CTATTGAAACTTCA-AGG
1 ATTCAGGGAGAAGAGATTTGTAGCCTCGACCTACTAC-ACTGAAACTTCAGA-G
* * * ** * * *
36702147 GTTTAAGGAGAAGAGATTTGTAGTCTCAATCTTCTCTATTAAACTTTAAGGACTT-AGA-
1 ATTCAGGGAGAAGAGATTTGTAG-C-C--TCGAC-CTACTACAC-TGAA--ACTTCAGAG
* * *
36702205 ATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAG
1 ATTCAGGGAGAAGAGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAG
* * *
36702257 ATTCAGGGAGAAGAGATTTGTAGCTTCGATCTTCT-CTACTGAAACTTCAAGGATTTAG
1 ATTCAGGGAGAAGAGATTTGTAGCCTCGACCTACTAC-ACTGAAACTTC-A-G----AG
* *
36702315 AATTCAAGTAGAA-AGGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAG
1 -ATTCAGGGAGAAGA-GATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAG
* * * *
36702368 ATTCAGGAAGAAGAGATTTGTAGCTTCGATCTTCT-CTACTGAAACTTCAAGGATTTAG
1 ATTCAGGGAGAAGAGATTTGTAGCCTCGACCTACTAC-ACTGAAACTTC-A-G----AG
* * * *
36702426 AATTCAGGTAGCAGGGATTTGTAGCCTCGACCTACTACACTGAAACTTCGGAG
1 -ATTCAGGGAGAAGAGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAG
36702479 ATTCAGGG
1 ATTCAGGG
36702487 GGAGGACCTT
Statistics
Matches: 505, Mismatches: 98, Indels: 122
0.70 0.14 0.17
Matches are distributed among these distances:
50 8 0.02
51 20 0.04
52 243 0.48
53 17 0.03
54 9 0.02
55 4 0.01
56 6 0.01
57 10 0.02
58 86 0.17
59 90 0.18
60 12 0.02
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (52 bp):
ATTCAGGGAGAAGAGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAG
Found at i:36702001 original size:162 final size:162
Alignment explanation
Indices: 36701829--36702313 Score: 889
Period size: 162 Copynumber: 3.0 Consensus size: 162
36701819 GACGATTCAG
* * *
36701829 GGAGAAGAGATTTGTAGTCTCGATCTTCTCTATTAAACTTCAAGGATTTAGAATTCAAGTAGGAG
1 GGAGAAGAGATTTGTAGTCTCGATCTTCTCTATTAAACTTTAAGGACTTAGAATTCAAGTAGAAG
36701894 GGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAGTTT
66 GGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAGTTT
36701959 TGATCTTCTCTATTGAAACTTCAAGGGTTTAA
131 TGATCTTCTCTATTGAAACTTCAAGGGTTTAA
*
36701991 GGAGAAGAGATTTGTAGTCTCGATCTTCTCTATTAAGCTTTAAGGACTTAGAATTCAAGTAGAAG
1 GGAGAAGAGATTTGTAGTCTCGATCTTCTCTATTAAACTTTAAGGACTTAGAATTCAAGTAGAAG
36702056 GGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAGTTT
66 GGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAGTTT
36702121 TGATCTTCTCTATTGAAACTTCAAGGGTTTAA
131 TGATCTTCTCTATTGAAACTTCAAGGGTTTAA
*
36702153 GGAGAAGAGATTTGTAGTCTCAATCTTCTCTATTAAACTTTAAGGACTTAGAATTCAAGTAGAAG
1 GGAGAAGAGATTTGTAGTCTCGATCTTCTCTATTAAACTTTAAGGACTTAGAATTCAAGTAGAAG
*
36702218 GGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAGCTT
66 GGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAGTTT
* * *
36702283 CGATCTTCTCTACTGAAACTTCAAGGATTTA
131 TGATCTTCTCTATTGAAACTTCAAGGGTTTA
36702314 GAATTCAAGT
Statistics
Matches: 313, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
162 313 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (162 bp):
GGAGAAGAGATTTGTAGTCTCGATCTTCTCTATTAAACTTTAAGGACTTAGAATTCAAGTAGAAG
GGATTTGTAGCCTCGACCTACTACACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAGTTT
TGATCTTCTCTATTGAAACTTCAAGGGTTTAA
Found at i:36702337 original size:111 final size:111
Alignment explanation
Indices: 36701695--36702486 Score: 799
Period size: 110 Copynumber: 7.2 Consensus size: 111
36701685 TGATTCACTC
* * * * * *
36701695 CACTGCAACTTCGGAGATTTAAGGAGAAGATATTTGTAGCCTT-GATCTTCTCTACTAAAACTTC
1 CACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAG-CTTCGATCTTCTCTACTGAAACTTC
* * * * *
36701759 GAGGAAATAAGAATTCAGGTAGAAGGGATTTGTAACCTCGACCTACTA
65 AAGG-ATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
* *
36701807 CACTGGAACTTC-GACGATTCAGGGAGAAGAGATTTGTAG-TCTCGATCTTCTCTA-TTAAACTT
1 CACTGAAACTTCAGA-GATTCAGGGAGAAGAGATTTGTAGCT-TCGATCTTCTCTACTGAAACTT
*
36701869 CAAGGATTTAGAATTCAAGTAGGAGGGATTTGTAGCCTCGACCTACTA
64 CAAGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
* * *
36701917 CACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAGTTTTGATCTTCTCTATTGAAACTTCA
1 CACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAGCTTCGATCTTCTCTACTGAAACTTCA
* * * *
36701982 AGG-----G--TTTAAGGAGAAGAGATTTGTAGTCTCGATCTTCT-CTA
66 AGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGA-C--CTACTA
* * * * * * * *
36702023 TTAAGCTTTAAGGACTT-AGA-ATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTAC-ACTGA
1 --CA-C-TGAA--ACTTCAGAGATTCAGGGAGAAGAGATTTGTAGCTTCGATCTTCT-CTACTGA
* * * ** * * *
36702085 AACTTC-A-G----AG-ATTCAGGGAGAAGAGATTTGTAGTTTTGATCTTCT-
59 AACTTCAAGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
* * * * * *
36702130 CTATTGAAACTTCA-AGGGTTTAAGGAGAAGAGATTTGTAG-TCTCAATCTTCTCTA-TTAAACT
1 C-ACTGAAACTTCAGA-GATTCAGGGAGAAGAGATTTGTAGCT-TCGATCTTCTCTACTGAAACT
* *
36702192 TTAAGGACTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
63 TCAAGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
36702241 CACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAGCTTCGATCTTCTCTACTGAAACTTCA
1 CACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAGCTTCGATCTTCTCTACTGAAACTTCA
*
36702306 AGGATTTAGAATTCAAGTAGAAAGGATTTGTAGCCTCGACCTACTA
66 AGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
*
36702352 CACTGAAACTTCAGAGATTCAGGAAGAAGAGATTTGTAGCTTCGATCTTCTCTACTGAAACTTCA
1 CACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAGCTTCGATCTTCTCTACTGAAACTTCA
* *
36702417 AGGATTTAGAATTCAGGTAGCAGGGATTTGTAGCCTCGACCTACTA
66 AGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
*
36702463 CACTGAAACTTCGGAGATTCAGGG
1 CACTGAAACTTCAGAGATTCAGGG
36702487 GGAGGACCTT
Statistics
Matches: 573, Mismatches: 71, Indels: 73
0.80 0.10 0.10
Matches are distributed among these distances:
102 5 0.01
103 9 0.02
104 54 0.09
105 2 0.00
106 5 0.01
107 4 0.01
108 4 0.01
109 5 0.01
110 221 0.39
111 217 0.38
112 47 0.08
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (111 bp):
CACTGAAACTTCAGAGATTCAGGGAGAAGAGATTTGTAGCTTCGATCTTCTCTACTGAAACTTCA
AGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
Found at i:36702338 original size:59 final size:58
Alignment explanation
Indices: 36702257--36702474 Score: 229
Period size: 59 Copynumber: 3.8 Consensus size: 58
36702247 AACTTCAGAG
* * * *
36702257 ATTCAGGGAGAAGAGATTTGTAGCTTCGATCTTCT-CTACTGAAACTTCAAGGATTTAGA
1 ATTCAGGTAGAAG-GATTTGTAGCCTCGACCTACTAC-ACTGAAACTTCAAGGATTTAGA
*
36702316 ATTCAAGTAGAAAGGATTTGTAGCCTCGACCTACTACACTGAAACTTC-A-G----AG-
1 ATTCAGGTAG-AAGGATTTGTAGCCTCGACCTACTACACTGAAACTTCAAGGATTTAGA
* * * *
36702368 ATTCAGGAAGAAGAGATTTGTAGCTTCGATCTTCT-CTACTGAAACTTCAAGGATTTAGA
1 ATTCAGGTAGAAG-GATTTGTAGCCTCGACCTACTAC-ACTGAAACTTCAAGGATTTAGA
*
36702427 ATTCAGGTAGCAGGGATTTGTAGCCTCGACCTACTACACTGAAACTTC
1 ATTCAGGTAG-AAGGATTTGTAGCCTCGACCTACTACACTGAAACTTC
36702475 GGAGATTCAG
Statistics
Matches: 131, Mismatches: 15, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
51 4 0.03
52 37 0.28
53 3 0.02
54 1 0.01
57 1 0.01
58 3 0.02
59 75 0.57
60 7 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (58 bp):
ATTCAGGTAGAAGGATTTGTAGCCTCGACCTACTACACTGAAACTTCAAGGATTTAGA
Found at i:36702552 original size:43 final size:43
Alignment explanation
Indices: 36702504--36702664 Score: 179
Period size: 43 Copynumber: 3.7 Consensus size: 43
36702494 CTTGGATTTC
*
36702504 CAGCTTGTTACCCTACTACTTAGGGGGTTAAGATCTGTAAATT
1 CAGCTTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
** *
36702547 CAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGT--CTT
1 CAGCTTGTTACCCTACTGCTTAGGGGGTTAA-GATC-T-GTAAATT
*
36702591 CAATCTAT-TT-CCCTACTGCTT-GGGGGTTAAGATCTGTAAATT
1 C-AGCT-TGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
* *
36702633 CAGTTTGTTACCCTGCTGCTTAGGGGGTTAAG
1 CAGCTTGTTACCCTACTGCTTAGGGGGTTAAG
36702665 GCCCTTCGCC
Statistics
Matches: 97, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
40 3 0.03
41 5 0.05
42 15 0.15
43 49 0.51
44 16 0.16
45 6 0.06
46 3 0.03
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (43 bp):
CAGCTTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATT
Found at i:36702627 original size:86 final size:86
Alignment explanation
Indices: 36702514--36702707 Score: 316
Period size: 86 Copynumber: 2.2 Consensus size: 86
36702504 CAGCTTGTTA
*
36702514 CCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAG
1 CCCTACTGCTT-GGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAG
*
36702579 GCCCTTCGTCTTCAATCTATTT
65 GCCCTTCGCCTTCAATCTATTT
* *
36702601 CCCTACTGCTTGGGGGTTAAGATCTGTAAATTCAGTTTGTTACCCTGCTGCTTAGGGGGTTAAGG
1 CCCTACTGCTTGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAGG
* *
36702666 CCCTTCGCCTTCGATCTGTTT
66 CCCTTCGCCTTCAATCTATTT
*
36702687 CCCTACTGCTTAGGGGTTAAG
1 CCCTACTGCTTGGGGGTTAAG
36702708 GCCCTTCGCC
Statistics
Matches: 100, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
86 90 0.90
87 10 0.10
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (86 bp):
CCCTACTGCTTGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAGG
CCCTTCGCCTTCAATCTATTT
Found at i:36702703 original size:43 final size:43
Alignment explanation
Indices: 36702552--36702745 Score: 214
Period size: 43 Copynumber: 4.5 Consensus size: 43
36702542 AAATTCAGCT
* * *
36702552 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCAATC
1 TGTTTCCCTACTGCTTA-GGGGTTAAGGCCCTTCGCCTTCGATC
* * ** *** *
36702596 TATTTCCCTACTGCTTGGGGGTTAA-GATCTGT-AAATTC-AGTT
1 TGTTTCCCTACTGCTTAGGGGTTAAGGCCCT-TCGCCTTCGA-TC
* *
36702638 TGTTACCCTGCTGCTTAGGGGGTTAAGGCCCTTCGCCTTCGATC
1 TGTTTCCCTACTGCTTA-GGGGTTAAGGCCCTTCGCCTTCGATC
36702682 TGTTTCCCTACTGCTTAGGGGTTAAGGCCCTTCGCCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGTTAAGGCCCTTCGCCTTCGATC
36702725 TGTTTCCCTACTGCTTAGGGG
1 TGTTTCCCTACTGCTTAGGGG
36702746 GATAAGATCT
Statistics
Matches: 123, Mismatches: 21, Indels: 13
0.78 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 20 0.16
43 65 0.53
44 36 0.29
45 1 0.01
ACGTcount: A:0.14, C:0.26, G:0.24, T:0.36
Consensus pattern (43 bp):
TGTTTCCCTACTGCTTAGGGGTTAAGGCCCTTCGCCTTCGATC
Found at i:36702738 original size:129 final size:130
Alignment explanation
Indices: 36702552--36702816 Score: 363
Period size: 129 Copynumber: 2.0 Consensus size: 130
36702542 AAATTCAGCT
*
36702552 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCAATCTATTTCCCTACTGCTT-GGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGCCTTCAATCTATTTCCCTACTGCTTAGGGG
* *** * * *
36702616 GTTAAGATCTGTAAATTCAGTTTGTTACCCTGCTGCTTAGGGGGTTAAGGCCCTTCGCCTTCGAT
66 GATAAGATCTG-AAATTCAACCTGTTACCCTACTGCTTAGGGAGTTAAGGCCCTTAGCCTTCGAT
36702681 C
130 C
* * *
36702682 TGTTTCCCTACTGCTTA-GGGGTTAAGGCCCTTCGCCTTCGATCTGTTTCCCTACTGCTTAGGGG
1 TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGCCTTCAATCTATTTCCCTACTGCTTAGGGG
* * ** *
36702746 GATAAGATCTGCAATTCAACCTGTTACCCTACTGCTTAGGGATTTAAGGTTCTTAGTCTTCGATC
66 GATAAGATCTGAAATTCAACCTGTTACCCTACTGCTTAGGGAGTTAAGGCCCTTAGCCTTCGATC
36702811 TGTTAC
1 TGTTAC
36702817 ACCATTCTTT
Statistics
Matches: 117, Mismatches: 17, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
129 87 0.74
130 30 0.26
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.36
Consensus pattern (130 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGCCTTCAATCTATTTCCCTACTGCTTAGGGG
GATAAGATCTGAAATTCAACCTGTTACCCTACTGCTTAGGGAGTTAAGGCCCTTAGCCTTCGATC
Found at i:36710894 original size:19 final size:20
Alignment explanation
Indices: 36710866--36710907 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
36710856 GTCTTTTCAC
* *
36710866 GAAATTTAATGCACATG-AT
1 GAAATGTAATGCAAATGAAT
36710885 GAAATGTAATGCAAATGAAT
1 GAAATGTAATGCAAATGAAT
36710905 GAA
1 GAA
36710908 TGCAAAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (20 bp):
GAAATGTAATGCAAATGAAT
Found at i:36715817 original size:17 final size:16
Alignment explanation
Indices: 36715787--36715826 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
36715777 AAAAATCAAC
* *
36715787 ATAAATATATAAACGA
1 ATAAATATACAAACAA
36715803 ATAACATATACAAACAA
1 ATAA-ATATACAAACAA
36715820 ATAAATA
1 ATAAATA
36715827 AATGAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.23
Consensus pattern (16 bp):
ATAAATATACAAACAA
Found at i:36716886 original size:3 final size:3
Alignment explanation
Indices: 36716878--36716912 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
36716868 CAATATATAT
36716878 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
36716913 GACTATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:36718979 original size:53 final size:53
Alignment explanation
Indices: 36718920--36719030 Score: 222
Period size: 53 Copynumber: 2.1 Consensus size: 53
36718910 ATTTTTTAAA
36718920 ATTTATTCCGAAACAAATTTTATATATTCATAATTTTACATGTGTATTATTAT
1 ATTTATTCCGAAACAAATTTTATATATTCATAATTTTACATGTGTATTATTAT
36718973 ATTTATTCCGAAACAAATTTTATATATTCATAATTTTACATGTGTATTATTAT
1 ATTTATTCCGAAACAAATTTTATATATTCATAATTTTACATGTGTATTATTAT
36719026 ATTTA
1 ATTTA
36719031 CAAAATATAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 58 1.00
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (53 bp):
ATTTATTCCGAAACAAATTTTATATATTCATAATTTTACATGTGTATTATTAT
Found at i:36722490 original size:2 final size:2
Alignment explanation
Indices: 36722483--36722522 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
36722473 CCGATTTTAT
* *
36722483 TA TA TA TA TA AA TA CA T- TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36722523 GACAACAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:36723450 original size:26 final size:24
Alignment explanation
Indices: 36723419--36723467 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
36723409 AAATAAAAAT
*
36723419 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
36723445 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
36723468 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:36725255 original size:7 final size:7
Alignment explanation
Indices: 36725243--36725294 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
36725233 TTTTCAAAGT
36725243 TTTCTCC
1 TTTCTCC
36725250 TTTCTCC
1 TTTCTCC
36725257 TTTCTCC
1 TTTCTCC
36725264 TTTCTCC
1 TTTCTCC
**
36725271 TTTCAAC
1 TTTCTCC
*
36725278 TTTCACC
1 TTTCTCC
*
36725285 TTTTTCC
1 TTTCTCC
36725292 TTT
1 TTT
36725295 TTCTTTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.06, C:0.37, G:0.00, T:0.58
Consensus pattern (7 bp):
TTTCTCC
Found at i:36728168 original size:27 final size:27
Alignment explanation
Indices: 36728138--36728192 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
36728128 TTAAAAGATT
* * *
36728138 AAAATAAAAGGTCCATTAACAAACAAG
1 AAAAAAAAAAGTCAATTAACAAACAAG
* *
36728165 AAAAAAAAAAGTGAATTATCAAACAAG
1 AAAAAAAAAAGTCAATTAACAAACAAG
36728192 A
1 A
36728193 TAAGAAGTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.64, C:0.11, G:0.11, T:0.15
Consensus pattern (27 bp):
AAAAAAAAAAGTCAATTAACAAACAAG
Found at i:36729778 original size:26 final size:26
Alignment explanation
Indices: 36729748--36729897 Score: 100
Period size: 26 Copynumber: 6.0 Consensus size: 26
36729738 GGAGCTCCCA
36729748 ATTAAAGGCTCTTTGTGAGCTTCCTG
1 ATTAAAGGCTCTTTGTGAGCTTCCTG
* * *
36729774 ATTAAAAGTTCTTTGTGAACTTCCTG
1 ATTAAAGGCTCTTTGTGAGCTTCCTG
* **
36729800 ATT-ATGGCTC-TTACGAGCTTCCTG
1 ATTAAAGGCTCTTTGTGAGCTTCCTG
* * ** * *
36729824 TAATATA-GC-C-CAGATAAACTTCCTG
1 -ATTAAAGGCTCTTTG-TGAGCTTCCTG
*
36729849 A-T--AGGCTCTTTGTGGGCTTCCTG
1 ATTAAAGGCTCTTTGTGAGCTTCCTG
*
36729872 ATTAATGGCTCTTTGTGAGCTTCCTG
1 ATTAAAGGCTCTTTGTGAGCTTCCTG
36729898 TTATATGGCT
Statistics
Matches: 90, Mismatches: 25, Indels: 18
0.68 0.19 0.14
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 11 0.12
24 15 0.17
25 16 0.18
26 45 0.50
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTAAAGGCTCTTTGTGAGCTTCCTG
Found at i:36729871 original size:23 final size:26
Alignment explanation
Indices: 36729852--36729907 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
36729842 CTTCCTGATA
*
36729852 GGCTCTTTGTGGGCTTCCTGATTAAT
1 GGCTCTTTGTGAGCTTCCTGATTAAT
36729878 GGCTCTTTGTGAGCTTCCTG-TTATAT
1 GGCTCTTTGTGAGCTTCCTGATTA-AT
36729904 GGCT
1 GGCT
36729908 TGAGAGAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 3 0.11
26 25 0.89
ACGTcount: A:0.11, C:0.20, G:0.27, T:0.43
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCTGATTAAT
Found at i:36732990 original size:30 final size:30
Alignment explanation
Indices: 36732954--36733113 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
36732944 GACAAGATTG
* * * * *
36732954 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
36732984 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
36733012 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
36733041 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
36733071 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
36733100 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
36733114 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:36733081 original size:59 final size:57
Alignment explanation
Indices: 36732954--36733113 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
36732944 GACAAGATTG
* * * * * *
36732954 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
36733012 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
36733071 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
36733114 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:36737935 original size:27 final size:26
Alignment explanation
Indices: 36737904--36737998 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 26
36737894 TTAGTTTACC
* *
36737904 AAATTACTGAAATACCTTCGACTTGTA
1 AAATTACTCAAATACC-TCGATTTGTA
* *
36737931 AAATTA-TCAAAGTACCCCCGATTTATA
1 AAATTACTCAAA-TA-CCTCGATTTGTA
*
36737958 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATA-CCTCGATTTGTA
* *
36737985 AAATCACTGAAATA
1 AAATTACTCAAATA
36737999 AGATAGAATT
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
26 4 0.07
27 44 0.81
28 6 0.11
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (26 bp):
AAATTACTCAAATACCTCGATTTGTA
Found at i:36738043 original size:27 final size:27
Alignment explanation
Indices: 36738003--36738198 Score: 275
Period size: 27 Copynumber: 7.3 Consensus size: 27
36737993 GAAATAAGAT
*
36738003 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
36738030 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
**
36738057 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* *
36738084 AGAATTACCGTTTTACCCTTGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
* * *
36738111 AGAATTATCATTTTACCCTCGATTTAT
1 AGAATTACCGTTTTACCCTCGATTTAC
36738138 AGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
* * *
36738165 AGAATTACTGTTTTATCCTCAATTTAC
1 AGAATTACCGTTTTACCCTCGATTTAC
*
36738192 AAAATTA
1 AGAATTA
36738199 TTGAAATACC
Statistics
Matches: 150, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
AGAATTACCGTTTTACCCTCGATTTAC
Found at i:36738210 original size:54 final size:54
Alignment explanation
Indices: 36738001--36738198 Score: 308
Period size: 54 Copynumber: 3.7 Consensus size: 54
36737991 CTGAAATAAG
*
36738001 ATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
*
36738055 ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTT
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
*
36738109 ATAGAATTA-TCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT
1 ATAGAATTACT-ATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
* * * * *
36738163 ACAGAATTACTGTTTTATCCTCAATTTACAAAATTA
1 ATAGAATTACTATTTTACCCTCGATTTACAGAATTA
36738199 TTGAAATACC
Statistics
Matches: 132, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
53 1 0.01
54 130 0.98
55 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.41
Consensus pattern (54 bp):
ATAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTT
Found at i:36738225 original size:81 final size:81
Alignment explanation
Indices: 36738003--36738225 Score: 198
Period size: 81 Copynumber: 2.8 Consensus size: 81
36737993 GAAATAAGAT
* * * * * ** * * * **
36738003 AGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTAT
1 AGAATTACCGTTTTACCCTCAATTTACAAAATTATCATAATACCCTAGATTTACAAAATTACCGT
36738068 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
** * * ** * * *
36738084 AGAATTACCGTTTTACCCTTGATTTATAGAATTATCATTTTACCCTCGATTTATAGAATTACCGT
1 AGAATTACCGTTTTACCCTCAATTTACAAAATTATCATAATACCCTAGATTTACAAAATTACCGT
36738149 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * *
36738165 AGAATTACTGTTTTATCCTCAATTTACAAAATTATTGA-AATACCCTTAG-TTTACAAAATTA
1 AGAATTACCGTTTTACCCTCAATTTACAAAATTA-TCATAATACCC-TAGATTTACAAAATTA
36738226 GCAAAATACC
Statistics
Matches: 121, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
81 117 0.97
82 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (81 bp):
AGAATTACCGTTTTACCCTCAATTTACAAAATTATCATAATACCCTAGATTTACAAAATTACCGT
TTTACCCTCGATTTAC
Found at i:36738260 original size:54 final size:54
Alignment explanation
Indices: 36738202--36738369 Score: 148
Period size: 54 Copynumber: 3.1 Consensus size: 54
36738192 AAAATTATTG
*
36738202 AAATACCCTTAGTTTACAAAATTAGC-AAAATA-CCCTCGA-TCAGTAAAATTACCA
1 AAATACCCCTAGTTTACAAAATTA-CTAAAATACCCCT-GATTCA-TAAAATTACCA
* ** * *
36738256 AAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGATTTATAAAATTACTA
1 AAATACCCCTAGTTTACAAAATTACTAAAATACCCCTGATTCATAAAATTACCA
* * ** * *
36738310 AAATACCCCTGACTTGT--AAAATTACCAAAATACCCCTGATTTGTGAAATTATCA
1 AAATACCCCT-AGTT-TACAAAATTACTAAAATACCCCTGATTCATAAAATTACCA
36738364 AAATAC
1 AAATAC
36738370 TCTCGATTTG
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
53 1 0.01
54 86 0.90
55 8 0.08
56 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (54 bp):
AAATACCCCTAGTTTACAAAATTACTAAAATACCCCTGATTCATAAAATTACCA
Found at i:36738274 original size:27 final size:27
Alignment explanation
Indices: 36738219--36738399 Score: 197
Period size: 27 Copynumber: 6.7 Consensus size: 27
36738209 CTTAGTTTAC
* **
36738219 AAAATTAGCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GATTTGT
*
36738246 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
36738273 AAAATTACTAAAATACCCCTGATTTAT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
36738300 AAAATTACTAAAATACCCCTGACTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
36738327 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
36738354 GAAATTATCAAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* * *
36738381 ATAA-TATCGAAATACCCCT
1 AAAATTACCAAAATACCCCT
36738400 ATAGGGTAGA
Statistics
Matches: 133, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 12 0.09
27 117 0.88
28 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:36738277 original size:81 final size:81
Alignment explanation
Indices: 36738192--36738369 Score: 220
Period size: 81 Copynumber: 2.2 Consensus size: 81
36738182 CTCAATTTAC
* *
36738192 AAAATTATTGAAATA-CCCTTAGTTTACAAAATTAGC-AAAATA-CCCTCGA-TCAGTAAAATTA
1 AAAATTATTAAAATACCCCTGA-TTTACAAAATTA-CTAAAATACCCCT-GACT-AGTAAAATTA
*
36738253 CCAAAATACCCCTGGTTTGT
62 CCAAAATACCCCTGATTTGT
* * *
36738273 AAAATTACTAAAATACCCCTGATTTATAAAATTACTAAAATACCCCTGACTTGTAAAATTACCAA
1 AAAATTATTAAAATACCCCTGATTTACAAAATTACTAAAATACCCCTGACTAGTAAAATTACCAA
36738338 AATACCCCTGATTTGT
66 AATACCCCTGATTTGT
* *
36738354 GAAATTATCAAAATAC
1 AAAATTATTAAAATAC
36738370 TCTCGATTTG
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
80 1 0.01
81 73 0.87
82 10 0.12
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTATTAAAATACCCCTGATTTACAAAATTACTAAAATACCCCTGACTAGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:36738423 original size:27 final size:27
Alignment explanation
Indices: 36738388--36738665 Score: 432
Period size: 27 Copynumber: 10.3 Consensus size: 27
36738378 TGTATAATAT
* *
36738388 CGAAATACCCCTATAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
36738415 CGGAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
36738442 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
36738469 CGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
36738496 CGAAATACCCCTATAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
36738523 TGCAATA-CCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
36738549 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
36738576 CGAAATACCCTTGTAGGGTAGAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
36738603 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
36738630 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
36738657 CGAGATACC
1 CGAAATACC
36738666 TTGTGAGGTA
Statistics
Matches: 229, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 22 0.10
27 207 0.90
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:36738591 original size:134 final size:135
Alignment explanation
Indices: 36738391--36738655 Score: 444
Period size: 134 Copynumber: 2.0 Consensus size: 135
36738381 ATAATATCGA
* * *
36738391 AATACCCCTATAGGGTAGAATTATCGGAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGT
1 AATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGT
*
36738456 AGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA-TCGAAATACCCCTATAGGGTAGAAT
66 AGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACT-GAAATACCCCTATAGGGTAGAAT
36738520 TATTGC
130 TATTGC
* *
36738526 AATA-CCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGT
1 AATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGT
*
36738590 AGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATT
66 AGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATT
36738655 A
131 A
36738656 CCGAGATACC
Statistics
Matches: 122, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
134 117 0.96
135 5 0.04
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (135 bp):
AATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGT
AGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATT
ATTGC
Found at i:36739116 original size:6 final size:6
Alignment explanation
Indices: 36739085--36739178 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
36739075 TTGCATTCAC
* *
36739085 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
36739134 -TCACCTA ATTCTG ATTTTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
36739179 AATGTTTCTT
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 4 0.06
6 58 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:36739123 original size:31 final size:31
Alignment explanation
Indices: 36739085--36739164 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
36739075 TTGCATTCAC
* * *
36739085 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
*
36739116 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
*
36739147 ATTTTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
36739165 ATTCTAGTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:36741172 original size:27 final size:26
Alignment explanation
Indices: 36741141--36741235 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 26
36741131 TTAGTTTACC
* *
36741141 AAATTACTGAAATACCTTCGACTTGTA
1 AAATTACTCAAATACC-TCGATTTGTA
* *
36741168 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTCAAA-TA-CCTCGATTTGTA
*
36741195 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATA-CCTCGATTTGTA
* *
36741222 AAATCACTGAAATA
1 AAATTACTCAAATA
36741236 AGATAGAATT
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
26 3 0.05
27 46 0.84
28 6 0.11
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (26 bp):
AAATTACTCAAATACCTCGATTTGTA
Found at i:36741278 original size:27 final size:27
Alignment explanation
Indices: 36741240--36741435 Score: 284
Period size: 27 Copynumber: 7.3 Consensus size: 27
36741230 GAAATAAGAT
36741240 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
36741267 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
36741294 AGAATTACTATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* *
36741321 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
36741348 AAAATTATCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAC
*
36741375 AGAATTACCGTTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
* * *
36741402 AGAATTACTATTTTATCCTTGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAC
*
36741429 AAAATTA
1 AGAATTA
36741436 TTGAAACACC
Statistics
Matches: 151, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAC
Done.