Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_pilon, whole genome shotgun sequence
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: 3688897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 16
Found at i:3271 original size:18 final size:18
Alignment explanation
Indices: 3248--3283 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3238 TCAACGGTCA
3248 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
*
3266 CGGGTCAACTGGTCGGGT
1 CGGGTCAACGGGTCGGGT
3284 AAAGGGTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.22, G:0.47, T:0.19
Consensus pattern (18 bp):
CGGGTCAACGGGTCGGGT
Found at i:4284 original size:21 final size:21
Alignment explanation
Indices: 4260--4302 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4250 GAGATGGGGT
* *
4260 TGTATGATGGTGATGTTGGGC
1 TGTATGATGGAGAAGTTGGGC
4281 TGTATGATGGAGAAGTTGGGC
1 TGTATGATGGAGAAGTTGGGC
4302 T
1 T
4303 ATATTCGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.42, T:0.35
Consensus pattern (21 bp):
TGTATGATGGAGAAGTTGGGC
Found at i:4750 original size:16 final size:17
Alignment explanation
Indices: 4725--4757 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4715 AACTCTAATT
*
4725 ATTGTTACAA-AAATAA
1 ATTGTCACAACAAATAA
4741 ATTGTCACAACAAATAA
1 ATTGTCACAACAAATAA
4758 TGAGATTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (17 bp):
ATTGTCACAACAAATAA
Found at i:5621 original size:409 final size:406
Alignment explanation
Indices: 4809--5638 Score: 1033
Period size: 409 Copynumber: 2.0 Consensus size: 406
4799 ATGTTTTAAT
* * * *
4809 TATAGTGACAAAAATGTATTGTCACAAAGATTTCCCTCTATAATTTTTTGCGCAAAAAAATCATA
1 TATAGTAAC-AAAATATATTGTCACAAAGATTTCACTCCATAATTTTTTGCGCAAAAAAATCATA
4874 TAGTGAAAAAATTTATAAATATAAGTGTTAATAATTATTACAAAAAACATTGTCACAAAATAATG
65 TAGTGAAAAAATTTATAAATATAAGTGTTAATAATTATTACAAAAAACATTGTCACAAAATAATG
* *
4939 ATATTCACATTTTTTGTGACAACTTATTTGTATTTATAAATTTTAACTATAGTGATAACATATTA
130 ATATTCACATTTTTTGTGACAACTTACTTGTAGTTATAAATTTTAACTATAGTGATAACA-ATTA
* * *
5004 ATTGTTATAACTATTTTTCTCCACTTTTTTGTTTCAAAAGTTATATTGACAATTTTATAATTATA
194 ATTGTGATAAATATTTTTCTCCACTTTTTTGTTTCAAAAGTTATATTCACAATTTTATAATTATA
* * * * * *
5069 ATTTATAGTTATTGTTATAGAAAAATTATCACATCAAATAATAAAATTCAGGTTTTTTTAATCAA
259 AATTATAGTTATTGTTATAAAAAAAATATCACATCAAACAATAAAATTCAAGTTTTTGTAATCAA
* *
5134 TTATTTTTACTATATATTTTAATCATTATGAAAATTATACTATCATAACCATTTATCCTTATTTT
324 TTATTTTTACTATATATTTTAATCATTATGAAAATTATACTATCATAACCATTTATACGTATTTT
5199 TTAGTGTCAAAAATATTA
389 TTAGTGTCAAAAATATTA
* * * *
5217 TATAGTAACAAAATATATTGTCATAAAGATTTTACTCCAT-ATTTTATTGTGC-CAAAAATCATA
1 TATAGTAACAAAATATATTGTCACAAAGATTTCACTCCATAATTTT-TTGCGCAAAAAAATCATA
** * * *
5280 TAGT-AACAATTTTTGTAACTATAAGTGTT-ATAATTATTAC-AAAAATATTGTCACAAAAAATA
65 TAGTGAA-AAAATTTATAAATATAAGTGTTAATAATTATTACAAAAAACATTGTCAC--AAAATA
*
5342 ATTG-TATTCACA-TTTTTGTGACAAACTATACTTGTAGTTATAAATTTTAATTATAGTGATAAC
127 A-TGATATTCACATTTTTTGTGAC-AACT-TACTTGTAGTTATAAATTTTAACTATAGTGATAAC
* * *
5405 -A-T-ATTGTGATAAATATTTTTCTCCACTTTTTTTTTTGTTTCAAAAATTTATATTCATACGTT
189 AATTAATTGTGATAAATATTTTTCTCCAC----TTTTTTGTTTC-AAAAGTTATATTCACA-ATT
* * *
5467 TTGTAATTATAAATTATAGTTATTTTTATAAAAAAAATATCACATCATACAATAAAATTCAAG-T
248 TTATAATTATAAATTATAGTTATTGTTATAAAAAAAATATCACATCAAACAATAAAATTCAAGTT
* * *
5531 TTTGTAATCAAATT-TTTTTAGTTATATATTTTAATCATTATGTAAAATTATATTATTATAGA-C
313 TTTGTAATC-AATTATTTTTA-CTATATATTTTAATCATTATG-AAAATTATACTATCATA-ACC
* * *
5594 ATTTCTACGTATTTTTTGGTG-CAAAAATGTTA
374 ATTTATACGTATTTTTTAGTGTCAAAAATATTA
5626 TATAGTAA-AAAAT
1 TATAGTAACAAAAT
5639 TTATAGTTAT
Statistics
Matches: 366, Mismatches: 39, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
403 22 0.06
404 14 0.04
405 24 0.07
406 56 0.15
407 76 0.21
408 41 0.11
409 99 0.27
410 33 0.09
411 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (406 bp):
TATAGTAACAAAATATATTGTCACAAAGATTTCACTCCATAATTTTTTGCGCAAAAAAATCATAT
AGTGAAAAAATTTATAAATATAAGTGTTAATAATTATTACAAAAAACATTGTCACAAAATAATGA
TATTCACATTTTTTGTGACAACTTACTTGTAGTTATAAATTTTAACTATAGTGATAACAATTAAT
TGTGATAAATATTTTTCTCCACTTTTTTGTTTCAAAAGTTATATTCACAATTTTATAATTATAAA
TTATAGTTATTGTTATAAAAAAAATATCACATCAAACAATAAAATTCAAGTTTTTGTAATCAATT
ATTTTTACTATATATTTTAATCATTATGAAAATTATACTATCATAACCATTTATACGTATTTTTT
AGTGTCAAAAATATTA
Found at i:6496 original size:2 final size:2
Alignment explanation
Indices: 6489--6524 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6479 AGTCATTGCA
6489 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6525 TAGGTAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6838 original size:23 final size:20
Alignment explanation
Indices: 6803--6861 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 20
6793 TCATTTGCAA
*
6803 TATTATTTTATTATTACTTT
1 TATTATTTAATTATTACTTT
6823 TGATATATTTAAATTATTACTTT
1 T-AT-TATTT-AATTATTACTTT
*
6846 TATTATTTTATTATTA
1 TATTATTTAATTATTA
6862 TCTTAGTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 8 0.24
21 7 0.21
22 7 0.21
23 12 0.35
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTATTTAATTATTACTTT
Found at i:7137 original size:131 final size:133
Alignment explanation
Indices: 6935--7177 Score: 393
Period size: 131 Copynumber: 1.8 Consensus size: 133
6925 AATTTATTTC
* *
6935 ATTATTATTTTAAGAAAATATTTTAGTTATTTATTTATTTTTTAAATCGAAGAAATGAGTTGTCT
1 ATTATTATTTTAAGAAAATATTTTAG---TTTATTTATTTTTTAAATCAAAGAAAAGAGTTGTCT
*
7000 TAAAGCAACTAGAAGCCCTTTTCTGATA-TT-TAAATAAATAAATATTACTATATTAAAATAATT
63 TAAAGCAACTAGAAGCCATTTTCTGATATTTCTAAATAAATAAATATTACTATATTAAAATAATT
7063 TTTTAT
128 TTTTAT
*
7069 ATTATTATTTTAAGAAAATGTTTTAG-TTATTTATTTTTTAATATCAAAGAAAAGAGTTGTCTTA
1 ATTATTATTTTAAGAAAATATTTTAGTTTATTTATTTTTTAA-ATCAAAGAAAAGAGTTGTCTTA
7133 AAGCAACTAGAAGCCATTTTCTGATATTTCTAAATAAATAAATAT
65 AAGCAACTAGAAGCCATTTTCTGATATTTCTAAATAAATAAATAT
7178 CTTATTTATA
Statistics
Matches: 102, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
130 15 0.15
131 45 0.44
132 2 0.02
133 15 0.15
134 25 0.25
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (133 bp):
ATTATTATTTTAAGAAAATATTTTAGTTTATTTATTTTTTAAATCAAAGAAAAGAGTTGTCTTAA
AGCAACTAGAAGCCATTTTCTGATATTTCTAAATAAATAAATATTACTATATTAAAATAATTTTT
TAT
Found at i:10219 original size:15 final size:14
Alignment explanation
Indices: 10177--10218 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
10167 AAATAATTTA
10177 CATTTACATTTTTG
1 CATTTACATTTTTG
10191 CATTTATGCA-TTTTG
1 CATTTA--CATTTTTG
10206 CATTTACATTTTT
1 CATTTACATTTTT
10219 TATTTGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.08
14 10 0.40
15 11 0.44
16 2 0.08
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (14 bp):
CATTTACATTTTTG
Found at i:17612 original size:76 final size:74
Alignment explanation
Indices: 17356--17912 Score: 920
Period size: 76 Copynumber: 7.5 Consensus size: 74
17346 CTATTTCCCA
*
17356 CATCTGTAAGACCTATAGTGCATGATGTTTTC-AAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
*
17420 CTTCAGGGT
66 CCTCAGGGT
17429 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTGATATTTAAAG
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
17493 CCTCAGGGT
66 CCTCAGGGT
* *
17502 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGA--TATTTAA
17567 AGCCTCAGGGT
64 AGCCTCAGGGT
17578 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
17643 CCTCAGGGT
66 CCTCAGGGT
* *
17652 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGA--TATTTAA
17717 AGCCTCAGGGT
64 AGCCTCAGGGT
* * *
17728 CATCTGTAAGACCTATAGTGCATGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGA--TATTTAA
*
17793 AGCCTTAGGGT
64 AGCCTCAGGGT
*
17804 CATCTGTATGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
17869 CCTCAGGGT
66 CCTCAGGGT
* **
17878 CATTTGTAAGACCTTTAGTGCATGATGTTTTCAAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAA
17913 CCTTTGGTTC
Statistics
Matches: 457, Mismatches: 21, Indels: 11
0.93 0.04 0.02
Matches are distributed among these distances:
73 102 0.22
74 141 0.31
76 214 0.47
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (74 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
CCTCAGGGT
Found at i:17695 original size:150 final size:148
Alignment explanation
Indices: 17356--17912 Score: 920
Period size: 150 Copynumber: 3.7 Consensus size: 148
17346 CTATTTCCCA
*
17356 CATCTGTAAGACCTATAGTGCATGATGTTTTC-AAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
*
17420 CTTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTGA
66 CCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGA
17484 TATTTAAAGCCTCAGGGT
131 TATTTAAAGCCTCAGGGT
* *
17502 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGA--TATTTAA
17567 AGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
64 AGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
17632 GATATTTAAAGCCTCAGGGT
129 GATATTTAAAGCCTCAGGGT
* *
17652 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGA--TATTTAA
* *
17717 AGCCTCAGGGTCATCTGTAAGACCTATAGTGCATGATGTTTTCAAAAAGCCTTCAGGAGCTTTTT
64 AGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTT
* *
17782 GATGTTTTTAAAGCCTTAGGGT
129 GA--TATTTAAAGCCTCAGGGT
*
17804 CATCTGTATGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
* **
17869 CCTCAGGGTCATTTGTAAGACCTTTAGTGCATGATGTTTTCAAA
66 CCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAA
17913 CCTTTGGTTC
Statistics
Matches: 392, Mismatches: 13, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
146 31 0.08
147 22 0.06
149 65 0.17
150 204 0.52
152 70 0.18
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (148 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
CCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGA
TATTTAAAGCCTCAGGGT
Found at i:17807 original size:226 final size:223
Alignment explanation
Indices: 17356--17912 Score: 972
Period size: 226 Copynumber: 2.5 Consensus size: 223
17346 CTATTTCCCA
*
17356 CATCTGTAAGACCTATAGTGCATGATGTTTTC-AAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
*
17420 CTTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTGAT
66 CCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTGAT
**
17485 ATTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTTGGGAG
131 ATTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCAGGAG
17550 CTTTTTGATGTTTTTAAAGCCTCAGGGT
196 CTTTTTGATGTTTTTAAAGCCTCAGGGT
17578 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
*
17643 CCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTGA
66 CCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGC-TTTTGA
* *
17708 TGTTTTTAAAGCCTCAGGGTCATCTGTAAGACCTATAGTGCATGATGTTTTCAAAAAGCCTTCAG
130 --TATTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCAG
*
17773 GAGCTTTTTGATGTTTTTAAAGCCTTAGGGT
193 GAGCTTTTTGATGTTTTTAAAGCCTCAGGGT
*
17804 CATCTGTATGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
* **
17869 CCTCAGGGTCATTTGTAAGACCTTTAGTGCATGATGTTTTCAAA
66 CCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAA
17913 CCTTTGGTTC
Statistics
Matches: 319, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
222 31 0.10
223 88 0.28
224 6 0.02
226 194 0.61
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (223 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAG
CCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTGAT
ATTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCAGGAG
CTTTTTGATGTTTTTAAAGCCTCAGGGT
Found at i:17945 original size:44 final size:45
Alignment explanation
Indices: 17874--17993 Score: 161
Period size: 45 Copynumber: 2.7 Consensus size: 45
17864 TAAAGCCTCA
* * *
17874 GGGTCATTTGTAAGACCTTTAGTGCATGATGTTTTC-AAACCTTT
1 GGGTCATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTC
* *
17918 GGTTCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTC
1 GGGTCATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTC
* * *
17963 GGGTCATCTGTAAAACCTACAGTGCAAGATG
1 GGGTCATCTGTAAGACCTTCAGTGCATGATG
17994 ATAAGACCTC
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 32 0.49
45 33 0.51
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (45 bp):
GGGTCATCTGTAAGACCTTCAGTGCATGATGTTTTCAAAACCTTC
Found at i:18467 original size:24 final size:24
Alignment explanation
Indices: 18435--18499 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
18425 TTTTTACCCG
18435 AGCAGCCCCTCCACGTCCCACACC
1 AGCAGCCCCTCCACGTCCCACACC
* *
18459 AGTAGCCCCTCCACGTCCCTCACC
1 AGCAGCCCCTCCACGTCCCACACC
*
18483 AGCAGCCCCTACACGTC
1 AGCAGCCCCTCCACGTC
18500 GCAGCTGCAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.20, C:0.54, G:0.14, T:0.12
Consensus pattern (24 bp):
AGCAGCCCCTCCACGTCCCACACC
Found at i:19299 original size:2 final size:2
Alignment explanation
Indices: 19292--19343 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
19282 AGTCATTGCA
19292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19334 AT AT AT AT AT
1 AT AT AT AT AT
19344 TATTTTAGGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19647 original size:12 final size:11
Alignment explanation
Indices: 19612--19688 Score: 52
Period size: 12 Copynumber: 6.7 Consensus size: 11
19602 GATTTTGATC
19612 ATTATTCATTTGT
1 ATTATT-ATTT-T
*
19625 AATATTATTTT
1 ATTATTATTTT
19636 ATTATTACTTTT
1 ATTATTA-TTTT
*
19648 GA-TATATATTTAA
1 -ATTAT-TATTT-T
*
19661 ATTATTA-CTT
1 ATTATTATTTT
19671 -TTATTATTTT
1 ATTATTATTTT
19681 ATTATTAT
1 ATTATTAT
19689 CTTAGTCATA
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
9 6 0.12
10 2 0.04
11 15 0.29
12 17 0.33
13 11 0.22
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (11 bp):
ATTATTATTTT
Found at i:19654 original size:25 final size:24
Alignment explanation
Indices: 19626--19688 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
19616 TTCATTTGTA
19626 ATATTATTTTATTATTACTTTTGAT
1 ATATTATTTTATTATTACTTTT-AT
*
19651 ATA-TATTTAAATTATTACTTTTAT
1 ATATTATTT-TATTATTACTTTTAT
19675 -TATT-TTATTATTAT
1 ATATTATT-TTATTAT
19689 CTTAGTCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
23 9 0.27
24 9 0.27
25 15 0.45
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (24 bp):
ATATTATTTTATTATTACTTTTAT
Found at i:19924 original size:139 final size:141
Alignment explanation
Indices: 19721--20045 Score: 460
Period size: 140 Copynumber: 2.3 Consensus size: 141
19711 TTTGTTTAAA
* * *
19721 TAAATAAATAAATATCCTTATAAATTATATATATTTTAAATTTATTTTATTCTTATTTTAAGAAA
1 TAAATAAATAAATAT-CTTATATATTA-AAATATTTT--ATTTA-TTTATTATTATTTTAAGAAA
*
19786 ATATTTTAGTTATTTATTTATTTTTTAA-ATCGAAGAAAAGAGTTGTCTTAAAACAACTAGAATC
61 ATATTTTAGTTATTTATTTATTTTTTAATATCGAAGAAAAGAGTTGTCTTAAAACAACTAGAAGC
*
19850 CCTTTTCTGATATTTT
126 CCTTTTCTGATATTTC
*
19866 TAAATAAATAAATATCTTACTATATTAAAATATTTT-TTTA-TTATTATTATTTTAAGAAAATGT
1 TAAATAAATAAATATCTTA-TATATTAAAATATTTTATTTATTTATTATTATTTTAAGAAAATAT
* * *
19929 TTTAGTTATTTATTTATTTTTTAATATCGAATAAAAGAGTTGTCTTAAAGCAACTAGAAGCCTTT
65 TTTAGTTATTTATTTATTTTTTAATATCGAAGAAAAGAGTTGTCTTAAAACAACTAGAAGCCCTT
19994 TTCTGATATTTC
130 TTCTGATATTTC
* * *
20006 TAAATAAATAAATATCTTATTTATAAAAATA-TATATTTAT
1 TAAATAAATAAATATCTTATATATTAAAATATTTTATTTAT
20046 AAAAATTAAT
Statistics
Matches: 164, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
138 2 0.01
139 59 0.36
140 66 0.40
141 4 0.02
144 12 0.07
145 21 0.13
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (141 bp):
TAAATAAATAAATATCTTATATATTAAAATATTTTATTTATTTATTATTATTTTAAGAAAATATT
TTAGTTATTTATTTATTTTTTAATATCGAAGAAAAGAGTTGTCTTAAAACAACTAGAAGCCCTTT
TCTGATATTTC
Found at i:20044 original size:16 final size:18
Alignment explanation
Indices: 20023--20061 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
20013 ATAAATATCT
20023 TATTTATAAAAA-T-ATA
1 TATTTATAAAAATTAATA
20039 TATTTATAAAAATTAATA
1 TATTTATAAAAATTAATA
20057 TATTT
1 TATTT
20062 TCTTGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.57
17 1 0.05
18 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTTATAAAAATTAATA
Found at i:20633 original size:2 final size:2
Alignment explanation
Indices: 20626--20672 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
20616 AATTTCTGTG
20626 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20668 AT AT A
1 AT AT A
20673 ATTCAATGGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27837 original size:21 final size:21
Alignment explanation
Indices: 27811--27850 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27801 AGACCCAAAC
*
27811 ACTGAACGAAAAGTGAAAAAT
1 ACTGAAAGAAAAGTGAAAAAT
*
27832 ACTGAAAGTAAAGTGAAAA
1 ACTGAAAGAAAAGTGAAAA
27851 TGCAGTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.20, T:0.15
Consensus pattern (21 bp):
ACTGAAAGAAAAGTGAAAAAT
Found at i:28361 original size:16 final size:16
Alignment explanation
Indices: 28340--28382 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
28330 AGAAACTGCC
28340 GCGAGAGGTAGATAGA
1 GCGAGAGGTAGATAGA
28356 GCGAGAGGTAGATAGA
1 GCGAGAGGTAGATAGA
*
28372 GCAAGAGGTAG
1 GCGAGAGGTAG
28383 GGATTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.37, C:0.07, G:0.44, T:0.12
Consensus pattern (16 bp):
GCGAGAGGTAGATAGA
Found at i:31403 original size:33 final size:33
Alignment explanation
Indices: 31309--31444 Score: 109
Period size: 33 Copynumber: 4.2 Consensus size: 33
31299 TTCGTCCCAA
* *
31309 TATTTTATCAAAATGAAAAATTGTGACAAAT-T
1 TATTTAATCAAAATAAAAAATTGTGACAAATAT
* * * *
31341 TATTTAATTAAAATAACAAATTATAACAAATAT
1 TATTTAATCAAAATAAAAAATTGTGACAAATAT
** *
31374 TAATTT-ATCATTATAAAAAATTGTGACAAATAA
1 T-ATTTAATCAAAATAAAAAATTGTGACAAATAT
* * * *
31407 TA-TTATTTCACAATAATAAATTGTAACAAA-AT
1 TATTTA-ATCAAAATAAAAAATTGTGACAAATAT
31439 TATTTA
1 TATTTA
31445 GTCAGAGTAA
Statistics
Matches: 80, Mismatches: 19, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
31 2 0.03
32 29 0.36
33 45 0.56
34 4 0.05
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (33 bp):
TATTTAATCAAAATAAAAAATTGTGACAAATAT
Found at i:31456 original size:65 final size:65
Alignment explanation
Indices: 31324--31457 Score: 150
Period size: 65 Copynumber: 2.1 Consensus size: 65
31314 TATCAAAATG
* *
31324 AAAAATTGTGACAAATTTATTTAATTAAAATAACAAATTATAACAAATATTAATTTATCATTATA
1 AAAAATTGTGACAAATATATTTAATTAAAATAACAAATTATAACAAATATTAATTTATCATGATA
* * * *
31389 AAAAATTGTGACAAATA-ATATTATTTCACAATAATAAATTGTAACAAA-ATT-ATTTAGTCA-G
1 AAAAATTGTGACAAATATAT-TTAATT-AAAATAACAAATTATAACAAATATTAATTTA-TCATG
31450 AGTA
63 A-TA
31454 AAAA
1 AAAA
31458 GTTATAAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
64 8 0.14
65 33 0.56
66 18 0.31
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (65 bp):
AAAAATTGTGACAAATATATTTAATTAAAATAACAAATTATAACAAATATTAATTTATCATGATA
Found at i:33243 original size:43 final size:43
Alignment explanation
Indices: 33180--33474 Score: 195
Period size: 43 Copynumber: 6.8 Consensus size: 43
33170 CGGCGTTTGT
* * *
33180 AACGCCGCAAAAGGTATTGATATTTAGCGGCGTTTTGCAGAAA
1 AACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGCAGACA
* * *
33223 AACGCCGCAATAGGTGTTGATATTTAACGGCATTTGGCAGACA
1 AACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGCAGACA
** * ** *
33266 AACGCCGCAATAGACGTTGATGTTTAGCGGCGTTTT-CTTCATA
1 AACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGC-AGACA
* * * * * * * **
33309 AACGCCGCAGTAGATATTTATTTTTACCGGCGTTTTTCCTACA
1 AACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGCAGACA
* **
33352 AACGCCGCAGA-AGATGTTGATATTTAGCGGCGTTTT-CCTACA
1 AACGCCGCA-ATAGGTGTTGATATTTAGCGGCGTTTTGCAGACA
* * * * *
33394 AACGCCGCAGAATATGTCTTGAGATTTAGCGGCAATTTCGTC-GA-A
1 AACGCCGC--AATAGGTGTTGATATTTAGCGGC-GTTTTG-CAGACA
* * * * *
33439 AACGCCGCAATATGTCTTGAGATTTCGCGGCATTTT
1 AACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTT
33475 TATCACAAAC
Statistics
Matches: 205, Mismatches: 38, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
42 19 0.09
43 154 0.75
44 18 0.09
45 12 0.06
46 1 0.00
47 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
AACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTGCAGACA
Found at i:33286 original size:86 final size:86
Alignment explanation
Indices: 33196--33402 Score: 215
Period size: 86 Copynumber: 2.4 Consensus size: 86
33186 GCAAAAGGTA
* * *
33196 TTGATATTTAGCGGCGTTTTGC-AGAAAAACGCCGCAATAGGTGTTGATATTTAACGGCATTTGG
1 TTGATATTTAGCGGCGTTTT-CTACAAAAACGCCGCAATAGATATTGATATTTAACGGCATTTGG
33260 CAGACAAACGCCGCA-ATAGACG
65 CAGACAAACGCCGCAGA-AGACG
* * * * * * * * **
33282 TTGATGTTTAGCGGCGTTTTCTTCATAAACGCCGCAGTAGATATTTATTTTTACCGGCGTTTTTC
1 TTGATATTTAGCGGCGTTTTCTACAAAAACGCCGCAATAGATATTGATATTTAACGGCATTTGGC
** *
33347 CTACAAACGCCGCAGAAGATG
66 AGACAAACGCCGCAGAAGACG
33368 TTGATATTTAGCGGCGTTTTCCTAC--AAACGCCGCA
1 TTGATATTTAGCGGCGTTTT-CTACAAAAACGCCGCA
33403 GAATATGTCT
Statistics
Matches: 100, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
85 11 0.11
86 85 0.85
87 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (86 bp):
TTGATATTTAGCGGCGTTTTCTACAAAAACGCCGCAATAGATATTGATATTTAACGGCATTTGGC
AGACAAACGCCGCAGAAGACG
Found at i:33485 original size:43 final size:45
Alignment explanation
Indices: 33349--33494 Score: 135
Period size: 43 Copynumber: 3.3 Consensus size: 45
33339 CGTTTTTCCT
* * ** *
33349 ACAAACGCCGCAGAAGATG--TTGATATTTAGCGGCGTTTTC--CT
1 ACAAACGCCGCA-AATATGTCTTGAGATTTAGCGGCAATTTCATCG
*
33391 ACAAACGCCGCAGAATATGTCTTGAGATTTAGCGGCAATTTCGTCG
1 ACAAACGCCGCA-AATATGTCTTGAGATTTAGCGGCAATTTCATCG
* * *
33437 A-AAACGCCGC-AATATGTCTTGAGATTTCGCGGCATTTTTATC-
1 ACAAACGCCGCAAATATGTCTTGAGATTTAGCGGCAATTTCATCG
33479 ACAAACGCCGCTAAAT
1 ACAAACGCCGC-AAAT
33495 GTATGGTATA
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
42 19 0.22
43 37 0.42
44 18 0.20
45 12 0.14
46 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (45 bp):
ACAAACGCCGCAAATATGTCTTGAGATTTAGCGGCAATTTCATCG
Found at i:33876 original size:23 final size:21
Alignment explanation
Indices: 33830--33883 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
33820 ATATATTACT
* *
33830 TCTCTCTGTTCTGCCGCTGCC
1 TCTCTCTGTGCTGCCACTGCC
*
33851 TCTCTCTGTGCTGCCACTGCT
1 TCTCTCTGTGCTGCCACTGCC
*
33872 TCTCTCTCTGCT
1 TCTCTCTGTGCT
33884 TTCACTGCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.02, C:0.41, G:0.17, T:0.41
Consensus pattern (21 bp):
TCTCTCTGTGCTGCCACTGCC
Found at i:33889 original size:21 final size:21
Alignment explanation
Indices: 33852--33928 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
33842 GCCGCTGCCT
* * *
33852 CTCTCTGTGCTGCCACTGCTT
1 CTCTCTCTGCTTCCACTGCTG
*
33873 CTCTCTCTGCTTTCACTGCTG
1 CTCTCTCTGCTTCCACTGCTG
** * *
33894 CTCTAGCTACTTCCGCTGCTG
1 CTCTCTCTGCTTCCACTGCTG
33915 CTCTCTCTGCTTCC
1 CTCTCTCTGCTTCC
33929 CTTGCTTCAT
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.05, C:0.40, G:0.16, T:0.39
Consensus pattern (21 bp):
CTCTCTCTGCTTCCACTGCTG
Found at i:43066 original size:81 final size:81
Alignment explanation
Indices: 42974--43245 Score: 365
Period size: 81 Copynumber: 3.4 Consensus size: 81
42964 GTTAAAATTA
* * * *
42974 ATTGCAGCGTTTACAGAAAAACGCAACTAATGTACGACCCATTTGCGGCGTTTCTTGTAAAACGC
1 ATTGCAGCGTTTATATAAAAACGCCACTAATGTACAACCCATTTGCGGCGTTTCTTGTAAAACGC
43039 CACTATAAACAACTCT
66 CACTATAAACAACTCT
*
43055 ATTGCGGCGTTTATATAAAAACGCCACTAATGTACAACCCATTTGCGGCGTTTCTTGTAAAACGC
1 ATTGCAGCGTTTATATAAAAACGCCACTAATGTACAACCCATTTGCGGCGTTTCTTGTAAAACGC
43120 CACTATAAACAACTC-
66 CACTATAAACAACTCT
* * * * *
43135 -TTGCAGCGTTTATATAAAAACGCCGCTAAAT-TACTACTC-TATTGCGGTGTTT-TTTTAGAAA
1 ATTGCAGCGTTTATATAAAAACGCCACT-AATGTACAACCCAT-TTGCGGCGTTTCTTGT--AAA
43196 ACGCCACTATAAACAACTCT
62 ACGCCACTATAAACAACTCT
* *
43216 ATTGCGGCGTTTATATAAAAACGCCGCTAA
1 ATTGCAGCGTTTATATAAAAACGCCACTAA
43246 ATTACCACCC
Statistics
Matches: 173, Mismatches: 12, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
78 4 0.02
79 41 0.24
80 25 0.14
81 77 0.45
82 26 0.15
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (81 bp):
ATTGCAGCGTTTATATAAAAACGCCACTAATGTACAACCCATTTGCGGCGTTTCTTGTAAAACGC
CACTATAAACAACTCT
Found at i:43198 original size:42 final size:41
Alignment explanation
Indices: 43016--43288 Score: 201
Period size: 41 Copynumber: 6.7 Consensus size: 41
43006 TACGACCCAT
* *
43016 TTGCGGCGTTTCTTGT-AAAACGCCACTATAA--ACAACTCTA
1 TTGCGGCGTTTATT-TAAAAACGCCGCTA-AATTACAACTCTA
* * *
43056 TTGCGGCGTTTATATAAAAACGCCACT-AATGTACAAC-CCA
1 TTGCGGCGTTTATTTAAAAACGCCGCTAAAT-TACAACTCTA
* *
43096 TTTGCGGCGTTTCTTGT-AAAACGCCACTATAA--ACAACTC--
1 -TTGCGGCGTTTATT-TAAAAACGCCGCTA-AATTACAACTCTA
* * *
43135 TTGCAGCGTTTATATAAAAACGCCGCTAAATTACTACTCTA
1 TTGCGGCGTTTATTTAAAAACGCCGCTAAATTACAACTCTA
* * *
43176 TTGCGGTGTTTTTTTAGAAAACGCCACTATAA--ACAACTCTA
1 TTGCGGCGTTTATTTA-AAAACGCCGCTA-AATTACAACTCTA
* * *
43217 TTGCGGCGTTTATATAAAAACGCCGCTAAATTACCACCCTA
1 TTGCGGCGTTTATTTAAAAACGCCGCTAAATTACAACTCTA
* * * *
43258 TTACGGCATTTGTTGAAAAAACGCCGCTAAA
1 TTGCGGCGTTTATT-TAAAAACGCCGCTAAA
43289 GTTTCATTTT
Statistics
Matches: 187, Mismatches: 27, Indels: 36
0.75 0.11 0.14
Matches are distributed among these distances:
37 3 0.02
38 24 0.13
39 9 0.05
40 41 0.22
41 79 0.42
42 27 0.14
43 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (41 bp):
TTGCGGCGTTTATTTAAAAACGCCGCTAAATTACAACTCTA
Found at i:43218 original size:41 final size:40
Alignment explanation
Indices: 43032--43240 Score: 230
Period size: 41 Copynumber: 5.2 Consensus size: 40
43022 CGTTTCTTGT
43032 AAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATA
1 AAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATA
** * * *
43072 AAAACGCCACTAATGTACAAC-CCATTTGCGGCGTTTCT-TGT
1 AAAACGCCACT-ATAAACAACTCTA-TTGCGGCGTTTATAT-A
*
43113 AAAACGCCACTATAAACAACTC--TTGCAGCGTTTATATA
1 AAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATA
* * * * *
43151 AAAACGCCGCTA-AATTACTACTCTATTGCGGTGTTTTTTTA
1 AAAACGCCACTATAA--ACAACTCTATTGCGGCGTTTATATA
43192 GAAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATA
1 -AAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATA
43233 AAAACGCC
1 AAAACGCC
43241 GCTAAATTAC
Statistics
Matches: 137, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
37 2 0.01
38 22 0.16
39 7 0.05
40 29 0.21
41 64 0.47
42 11 0.08
43 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (40 bp):
AAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATA
Found at i:43248 original size:82 final size:80
Alignment explanation
Indices: 43016--43282 Score: 344
Period size: 82 Copynumber: 3.3 Consensus size: 80
43006 TACGACCCAT
*
43016 TTGCGGCGTTTCTTGTAAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATAAAAACGCCA
1 TTGCGGCGTTTCTTGTAAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATAAAAACGCCG
*
43081 CT-AATGTACAACCCA
66 CTAAAT-TACAACCTA
*
43096 TTTGCGGCGTTTCTTGTAAAACGCCACTATAAACAACTC--TTGCAGCGTTTATATAAAAACGCC
1 -TTGCGGCGTTTCTTGTAAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATAAAAACGCC
*
43159 GCTAAATTACTACTCTA
65 GCTAAATTACAAC-CTA
* *
43176 TTGCGGTGTTT-TTTTAGAAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATAAAAACGC
1 TTGCGGCGTTTCTTGT--AAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATAAAAACGC
*
43240 CGCTAAATTACCACCCTA
64 CGCTAAATTA-CAACCTA
* * * *
43258 TTACGGCATTTGTTGAAAAAACGCC
1 TTGCGGCGTTTCTTG-TAAAACGCC
43283 GCTAAAGTTT
Statistics
Matches: 163, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
78 3 0.02
79 40 0.25
80 27 0.17
81 38 0.23
82 51 0.31
83 4 0.02
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (80 bp):
TTGCGGCGTTTCTTGTAAAACGCCACTATAAACAACTCTATTGCGGCGTTTATATAAAAACGCCG
CTAAATTACAACCTA
Found at i:43259 original size:41 final size:41
Alignment explanation
Indices: 42974--43264 Score: 196
Period size: 41 Copynumber: 7.2 Consensus size: 41
42964 GTTAAAATTA
* * * * *
42974 ATTGCAGCGTTTACAGAAAAACGCAACT-AATGTACGACCC-
1 ATTGCGGCGTTTATATAAAAACGCCACTAAAT-TACAACCCT
* * *
43014 ATTTGCGGCGTTTCT-TGTAAAACGCCACTATAA--ACAACTCT
1 A-TTGCGGCGTTTATAT-AAAAACGCCACTA-AATTACAACCCT
43055 ATTGCGGCGTTTATATAAAAACGCCACT-AATGTACAACCC-
1 ATTGCGGCGTTTATATAAAAACGCCACTAAAT-TACAACCCT
* *
43095 ATTTGCGGCGTTTCT-TGTAAAACGCCACTATAA--ACAA--CT
1 A-TTGCGGCGTTTATAT-AAAAACGCCACTA-AATTACAACCCT
* * * * *
43134 CTTGCAGCGTTTATATAAAAACGCCGCTAAATTACTACTCT
1 ATTGCGGCGTTTATATAAAAACGCCACTAAATTACAACCCT
* * * *
43175 ATTGCGGTGTTTTTTTAGAAAACGCCACTATAA--ACAACTCT
1 ATTGCGGCGTTTATATA-AAAACGCCACTA-AATTACAACCCT
* *
43216 ATTGCGGCGTTTATATAAAAACGCCGCTAAATTACCACCCT
1 ATTGCGGCGTTTATATAAAAACGCCACTAAATTACAACCCT
*
43257 ATTACGGC
1 ATTGCGGC
43265 ATTTGTTGAA
Statistics
Matches: 195, Mismatches: 33, Indels: 45
0.71 0.12 0.16
Matches are distributed among these distances:
37 2 0.01
38 25 0.13
39 6 0.03
40 46 0.24
41 99 0.51
42 11 0.06
43 6 0.03
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (41 bp):
ATTGCGGCGTTTATATAAAAACGCCACTAAATTACAACCCT
Found at i:61160 original size:45 final size:45
Alignment explanation
Indices: 61130--61348 Score: 287
Period size: 45 Copynumber: 4.9 Consensus size: 45
61120 ACTTTAACAT
61130 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* * * * *
61175 CTTTTATGTAGATAATGTACCCATATACATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* * * * *
61220 CGTTTT-TGTTGATAATGTACCCATATACATTTTAACTCTAGCATA
1 C-TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* *
61265 CCTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
* * *
61310 TTTTTCTATTGATAATGCACCAATATGCATTTCAACTAT
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTAT
61349 GGAATCCTTT
Statistics
Matches: 152, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
44 3 0.02
45 145 0.95
46 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATA
Found at i:61370 original size:90 final size:90
Alignment explanation
Indices: 61131--61385 Score: 284
Period size: 90 Copynumber: 2.8 Consensus size: 90
61121 CTTTAACATC
* * * *
61131 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTAGATAATGTACC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGAATCCTTTCATGTA-ATAATGCACC
*
61196 CATATACATTTCAACCATAGTATACG
65 CATATGCATTTCAACCATAGTATACG
* * * * * *
61222 TTTT-TGTTGATAATGTACCCATATACATTTTAACTCTAGCATACCTTTC-TGTTGATAATGCAC
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGAAT-CCTTTCATG-TAATAATGCAC
*
61285 CCATATGCATTTCAACTC-TAGTATA-T
64 CCATATGCATTTCAAC-CATAGTATACG
* * * * *
61311 TTTTCTATTGATAATGCACCAATATGCATTTCAACTATGGAATCCTTTCATGCCAATAATGCACT
1 TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGAATCCTTTCATG-TAATAATGCACC
61376 CATATGCATT
65 CATATGCATT
61386 ATTCTTTTAT
Statistics
Matches: 136, Mismatches: 23, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
89 10 0.07
90 116 0.85
91 10 0.07
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (90 bp):
TTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGAATCCTTTCATGTAATAATGCACCC
ATATGCATTTCAACCATAGTATACG
Found at i:61370 original size:135 final size:135
Alignment explanation
Indices: 61132--61385 Score: 321
Period size: 135 Copynumber: 1.9 Consensus size: 135
61122 TTTAACATCT
* * *
61132 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTAGATAATGTACCC
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATATAGATAATGCACCA
* * * *** *
61197 ATATACATTTCAACCATAGTATACGTTTTTGTTGATAATGTACCCATATACATTTTAACTCTAGC
66 ATATACATTTCAACCATAGAATACCTTTATGCCAATAATGCACCCATATACATTTTAACTCTAGC
61262 ATACC
131 ATACC
* * * *
61267 TTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATATTTTTCTATTGATAATGCACCA
1 TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATATAGATAATGCACCA
* * * * *
61332 ATATGCATTTCAACTATGGAAT-CCTTTCATGCCAATAATGCACTCATATGCATT
66 ATATACATTTCAACCATAGAATACCTTT-ATGCCAATAATGCACCCATATACATT
61386 ATTCTTTTAT
Statistics
Matches: 99, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
134 4 0.04
135 95 0.96
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (135 bp):
TTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATATAGATAATGCACCA
ATATACATTTCAACCATAGAATACCTTTATGCCAATAATGCACCCATATACATTTTAACTCTAGC
ATACC
Found at i:61450 original size:79 final size:79
Alignment explanation
Indices: 61352--61553 Score: 305
Period size: 79 Copynumber: 2.6 Consensus size: 79
61342 CAACTATGGA
* **
61352 ATCCTTTCATGCCAATAATGCACTCATATGCATTATTCTTTTATGTTGATAATGTACCCATATAC
1 ATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGTACCCATATAC
*
61417 ACATCAGCTAAGTC
66 ACATCAGCTAAGGC
* * * *
61431 ATCCTTTCATGCCACTAATGCACCCATATACATTATTCTGTTATGCCGATAATGTACCCATATAT
1 ATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGTACCCATATAC
*
61496 ATATCAGCTAAGGC
66 ACATCAGCTAAGGC
* *
61510 ATCCTTTCATGCCATTAATGCACCCAAATGCATTATTCTTTTAT
1 ATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTAT
61554 TCATTAGTTT
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 110 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (79 bp):
ATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCCGATAATGTACCCATATAC
ACATCAGCTAAGGC
Found at i:70055 original size:46 final size:45
Alignment explanation
Indices: 69987--70111 Score: 135
Period size: 46 Copynumber: 2.7 Consensus size: 45
69977 TAAACAGAAA
* *
69987 CAACCCAAATTAACTCTAAAATCTTAAGGTTGAT-ATGAACCAAAAC
1 CAACCCAAATTGAC-CTAAAATCTAAAGGTTGATCAT-AACCAAAAC
* * *
70033 CAACCCGAATTGACCTAAAAATCTAAAGGTTCATCCTAACCAAAAC
1 CAACCCAAATTGACCT-AAAATCTAAAGGTTGATCATAACCAAAAC
* * *
70079 CAACCTAAATTGACCCGAAAATCTAAAGCTTGA
1 CAACCCAAATTGA-CCTAAAATCTAAAGGTTGA
70112 CCCAAAATGA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
45 2 0.03
46 61 0.92
47 3 0.05
ACGTcount: A:0.44, C:0.25, G:0.10, T:0.22
Consensus pattern (45 bp):
CAACCCAAATTGACCTAAAATCTAAAGGTTGATCATAACCAAAAC
Found at i:70158 original size:31 final size:31
Alignment explanation
Indices: 70120--70223 Score: 118
Period size: 32 Copynumber: 3.3 Consensus size: 31
70110 GACCCAAAAT
* * *
70120 GAAACCAACCGATCCGATATTGATCCGACTC
1 GAAACCAACCGATCTGATATTGACCCGACCC
* * *
70151 GAAACCAACTGATCTGAGATTAACCCGACCC
1 GAAACCAACCGATCTGATATTGACCCGACCC
* *
70182 GAACACCAACCGATCTGATTTTGACCCGACCT
1 GAA-ACCAACCGATCTGATATTGACCCGACCC
70214 GAAAACCAAC
1 G-AAACCAAC
70224 TGACTCGATT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
31 28 0.47
32 30 0.50
33 2 0.03
ACGTcount: A:0.35, C:0.33, G:0.15, T:0.17
Consensus pattern (31 bp):
GAAACCAACCGATCTGATATTGACCCGACCC
Found at i:72101 original size:85 final size:82
Alignment explanation
Indices: 71922--72108 Score: 225
Period size: 82 Copynumber: 2.2 Consensus size: 82
71912 TGAAGAACGA
* * *
71922 TGAAGCAAATCAACTTCGATCTAATTTCCTTGAAAAGAATTAAAGTAGATCATTTTCAAGATTTG
1 TGAAACAAATCAACTTCGATCTAATTTCCCTGAAAAGAAGTAAAGTAGATCATTTTCAAGATTTG
*
71987 ATCTTCCTAAATAGTAG
66 ATCTTCCTAAAGAGTAG
* * **
72004 TGAAGA-AAATCAACTTTGATCTAATTTCCCT-AAAGAGCAGTAAAGTAGATCATTTTTTTTTAG
1 TGAA-ACAAATCAACTTCGATCTAATTTCCCTGAAA-AGAAGTAAAGTAGATCA---TTTTCAAG
*
72067 ATTTGATCTTTCTAAAGAGTAG
61 ATTTGATCTTCCTAAAGAGTAG
*
72089 TGAAACAAATCAACCTCGAT
1 TGAAACAAATCAACTTCGAT
72109 TCAATCTTCT
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
81 3 0.03
82 42 0.48
84 1 0.01
85 42 0.48
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.34
Consensus pattern (82 bp):
TGAAACAAATCAACTTCGATCTAATTTCCCTGAAAAGAAGTAAAGTAGATCATTTTCAAGATTTG
ATCTTCCTAAAGAGTAG
Found at i:73462 original size:31 final size:31
Alignment explanation
Indices: 73426--73484 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
73416 AACTTAAAAG
* *
73426 AGTTTTGCAATACTTAGATTTAAATAATTTT
1 AGTTTTACAATACTTAAATTTAAATAATTTT
73457 AGTTTTACAATACTTAAATTTAAATAAT
1 AGTTTTACAATACTTAAATTTAAATAAT
73485 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (31 bp):
AGTTTTACAATACTTAAATTTAAATAATTTT
Found at i:73560 original size:22 final size:22
Alignment explanation
Indices: 73511--73559 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
73501 ATAAATTATT
* **
73511 TAAAATAAATCAATCCTTATTT
1 TAAAATAAATCAATCCATATAA
73533 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
73556 TAAA
1 TAAA
73560 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:73563 original size:54 final size:54
Alignment explanation
Indices: 73499--73966 Score: 278
Period size: 54 Copynumber: 8.5 Consensus size: 54
73489 ACAACTACAA
73499 TAATAAATTATTTAAAATAAATCAATCCTTATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCTTATTTTAAAATAAATCAATCCATAC
*
73553 TAATAAATTATTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATC-A---ATCCT--T--A-T-TTTAAAATAAATCAATCCATAC
* *
73617 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCTTATTTTAAAATAAATCAATCCATAC
*
73665 AAATAAATTATTTAAAATAAATCAACTCATACTAATAAATTATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAA-TC---CT--T--A-T-TTTAAAATAAATCAATCCATAC
** * ** * ** ** * *
73728 TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAATTCAATCCATATTT
1 TAATAAATTATTTAAAATAAAT-C-AAT-CCTTATTTTAAAATAAATCAATCCATA--C
* * * * *
73785 TAAAATAAATCAATTCATACT-AAT-AA--ATTA-TTTAAAATAAATCAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCTTATTTTAAAATAAATCAATCCATAC
* *
73837 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCTTATTTTAAAATAAATCAATCCATAC
* * *
73885 TAATAAATTATATAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATAC
1 TAATAAATTATTTAAAATAAATCAATCCTTATTTTAAAATAAATCAATCCATAC
73939 TAATAAATTATTTAAAATAAATCAATCC
1 TAATAAATTATTTAAAATAAATCAATCC
73967 ATACTAATAA
Statistics
Matches: 325, Mismatches: 38, Indels: 102
0.70 0.08 0.22
Matches are distributed among these distances:
43 2 0.01
44 3 0.01
45 2 0.01
47 3 0.01
48 50 0.15
49 7 0.02
50 6 0.02
52 3 0.01
54 145 0.45
55 3 0.01
57 5 0.02
58 13 0.04
59 5 0.02
60 6 0.02
61 3 0.01
62 8 0.02
63 13 0.04
64 48 0.15
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCTTATTTTAAAATAAATCAATCCATAC
Found at i:73569 original size:32 final size:32
Alignment explanation
Indices: 73531--73992 Score: 361
Period size: 32 Copynumber: 16.4 Consensus size: 32
73521 CAATCCTTAT
73531 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
**
73563 TTTAAAATAAATCAATTTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
73595 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
73625 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
73643 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
73675 TTTAAAATAAATCAA-CTCATACTAATAAATTA
1 TTTAAAATAAATCAATC-CATACTAATAAATTA
73707 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
73729 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
73761 TTTAAAATAATTCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
73783 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
73815 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
73845 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
73863 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
73895 TATAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
73917 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
73949 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
73981 TTTAAAATAAAT
1 TTTAAAATAAAT
73993 TATTTTAAAA
Statistics
Matches: 352, Mismatches: 14, Indels: 128
0.71 0.03 0.26
Matches are distributed among these distances:
20 2 0.01
22 74 0.21
23 8 0.02
24 7 0.02
25 1 0.00
26 39 0.11
28 11 0.03
30 5 0.01
31 11 0.03
32 194 0.55
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:73573 original size:14 final size:14
Alignment explanation
Indices: 73554--73606 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 14
73544 AATCCATACT
73554 AATAAATTATTTAA
1 AATAAATTATTTAA
*
73568 AATAAATCAATTTATA
1 AATAAAT-TATTTA-A
73584 CTAATAAATTATTTAA
1 --AATAAATTATTTAA
73600 AATAAAT
1 AATAAAT
73607 CAATCCATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 14 0.42
15 5 0.15
16 2 0.06
17 5 0.15
18 7 0.21
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:73579 original size:18 final size:18
Alignment explanation
Indices: 73558--73610 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 18
73548 CATACTAATA
73558 AATTATTTAAAATAAATC
1 AATTATTTAAAATAAATC
* * *
73576 -A--ATTTATACT-AATA
1 AATTATTTAAAATAAATC
73590 AATTATTTAAAATAAATC
1 AATTATTTAAAATAAATC
73608 AAT
1 AAT
73611 CCATACAACT
Statistics
Matches: 25, Mismatches: 6, Indels: 8
0.64 0.15 0.21
Matches are distributed among these distances:
14 3 0.12
15 8 0.32
17 8 0.32
18 6 0.24
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTATTTAAAATAAATC
Found at i:73644 original size:112 final size:112
Alignment explanation
Indices: 73514--73915 Score: 557
Period size: 112 Copynumber: 3.6 Consensus size: 112
73504 AATTATTTAA
*
73514 AATAAATCAATCCTTATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
73579 TTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
66 TCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
* *
73626 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAC
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* **
73691 TCATACTAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-
66 TCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
** * ** * * * **
73734 AATAAATCAATCCATACTAATAAATTATTTAAAAT-AATTC-AATCCA-TATTTTAAAATAAATC
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAAAATAAATC
73796 AATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
63 AATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
*
73846 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
73911 CCATA
66 TCATA
73916 TTTTAAAATA
Statistics
Matches: 247, Mismatches: 33, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
107 2 0.01
108 71 0.29
109 15 0.06
110 6 0.02
111 15 0.06
112 136 0.55
113 2 0.01
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (112 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
TCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
Found at i:73672 original size:22 final size:22
Alignment explanation
Indices: 73599--73672 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
73589 AAATTATTTA
*
73599 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
73624 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
73646 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
73669 AAAT
1 AAAT
73673 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:73733 original size:22 final size:22
Alignment explanation
Indices: 73707--73749 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
73697 TAATAAATTA
73707 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
73729 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
73750 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:73758 original size:22 final size:22
Alignment explanation
Indices: 73709--73757 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
73699 ATAAATTATT
**
73709 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
73731 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
73754 TAAA
1 TAAA
73758 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:73787 original size:22 final size:22
Alignment explanation
Indices: 73761--73803 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
73751 TAATAAATTA
*
73761 TTTAAAATAATTCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
73783 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
73804 CTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:73892 original size:22 final size:23
Alignment explanation
Indices: 73817--73891 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
73807 ATAAATTATT
73817 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
73839 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
73865 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
73888 TAAA
1 TAAA
73892 TTATATAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:73892 original size:220 final size:218
Alignment explanation
Indices: 73563--73990 Score: 675
Period size: 220 Copynumber: 1.9 Consensus size: 218
73553 TAATAAATTA
*
73563 TTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
73628 TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAA-CT
66 TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATATAAAATAAATCAATC-
* * *
73692 CATA-CT-AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAA
130 CATATCTAAATAAATCAATTCAAAAT-AATAAAT---TA-TTTAAAATAAATCAATCCATACTAA
73754 TAAATTATTTAAAATAATTCAATCCATAT
190 TAAATTATTTAAAATAATTCAATCCATAT
73783 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
*
73848 TAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATATAAAATAAATCAATCC
66 TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATATAAAATAAATCAATCC
* * *
73913 ATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAA
131 ATA-TCT-AAATAAATCAATTCAAAATAATAAATTATTTAAAATAAATCAATCCATACTAATAAA
73978 TTATTTAAAATAA
194 TTATTTAAAATAA
73991 ATTATTTTAA
Statistics
Matches: 193, Mismatches: 9, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
220 170 0.88
221 3 0.02
222 1 0.01
224 13 0.07
225 6 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (218 bp):
TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATATAAAATAAATCAATCC
ATATCTAAATAAATCAATTCAAAATAATAAATTATTTAAAATAAATCAATCCATACTAATAAATT
ATTTAAAATAATTCAATCCATAT
Found at i:73946 original size:22 final size:22
Alignment explanation
Indices: 73896--73945 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
73886 AATAAATTAT
*
73896 ATAAAATAAATCAATCCATATT
1 ATAAAATAAATCAATCCATATA
* *
73918 TTAAAATAAATCAATTCATACTA
1 ATAAAATAAATCAATCCATA-TA
73941 ATAAA
1 ATAAA
73946 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (22 bp):
ATAAAATAAATCAATCCATATA
Found at i:73967 original size:54 final size:54
Alignment explanation
Indices: 73846--74027 Score: 245
Period size: 54 Copynumber: 3.5 Consensus size: 54
73836 CAACTACAAT
* *
73846 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATATAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
73900 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
* * *
73954 AATAAATCAATCCATA--CT--AATAAAT-TATT--TA-AAATAAATTATTTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTA-TTTAA
*
74001 AATAAATCAATCCATATTTTATAATAA
1 AATAAATCAATCCATATTTTAAAATAA
74028 TTTATTTTAA
Statistics
Matches: 117, Mismatches: 6, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
46 9 0.08
47 23 0.20
49 4 0.03
50 7 0.06
51 5 0.04
52 1 0.01
54 68 0.58
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
Found at i:74001 original size:15 final size:15
Alignment explanation
Indices: 73972--74103 Score: 142
Period size: 15 Copynumber: 8.5 Consensus size: 15
73962 AATCCATACT
73972 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
73986 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
74001 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
74023 AATAATTTATTTTAA
1 AATAAATTATTTTAA
* *
74038 AGTAAATTATTTTAT
1 AATAAATTATTTTAA
*
74053 AATAAATTATTTTAT
1 AATAAATTATTTTAA
74068 AAT-AATTATTTTAA
1 AATAAATTATTTTAA
74082 AATAAATTATTTTAA
1 AATAAATTATTTTAA
74097 AATAAAT
1 AATAAAT
74104 AACCTTATTA
Statistics
Matches: 101, Mismatches: 8, Indels: 17
0.80 0.06 0.13
Matches are distributed among these distances:
14 22 0.22
15 62 0.61
17 1 0.01
18 2 0.02
19 3 0.03
20 1 0.01
22 10 0.10
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:74007 original size:47 final size:46
Alignment explanation
Indices: 73940--74126 Score: 183
Period size: 44 Copynumber: 4.1 Consensus size: 46
73930 AATTCATACT
73940 AATAAATTA-TTTAAAATAAATCAATCCATACTAATAAATTA-TTTAA
1 AATAAATTATTTTAAAATAAAT-AATCCATA-TAATAAATTATTTTAA
*
73986 AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAA
1 AATAAATTATTTTAAAATAAAT-AATCC--A---TATAATAAATTATTTTAA
* * * **
74038 AGTAAATTATTTTATAATAAATTAT-TTTATAAT-AATTATTTTAA
1 AATAAATTATTTTAAAATAAATAATCCATATAATAAATTATTTTAA
*
74082 AATAAATTATTTTAAAATAAATAA-CC-T-TATTAAATTA-TTTAA
1 AATAAATTATTTTAAAATAAATAATCCATATAATAAATTATTTTAA
74124 AAT
1 AAT
74127 TATTTTAATA
Statistics
Matches: 120, Mismatches: 12, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
42 11 0.09
43 6 0.05
44 31 0.26
45 6 0.05
46 9 0.08
47 18 0.15
49 1 0.01
51 11 0.09
52 27 0.22
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (46 bp):
AATAAATTATTTTAAAATAAATAATCCATATAATAAATTATTTTAA
Found at i:74100 original size:29 final size:29
Alignment explanation
Indices: 74015--74101 Score: 129
Period size: 29 Copynumber: 3.0 Consensus size: 29
74005 AATCAATCCA
* *
74015 TATTTTATAATAATTTATTTTAAAGTAAAT
1 TATTTTATAATAAATTATTTTAAAAT-AAT
*
74045 TATTTTATAATAAATTATTTTATAATAAT
1 TATTTTATAATAAATTATTTTAAAATAAT
*
74074 TATTTTAAAATAAATTATTTTAAAATAA
1 TATTTTATAATAAATTATTTTAAAATAA
74102 ATAACCTTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
29 29 0.56
30 23 0.44
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (29 bp):
TATTTTATAATAAATTATTTTAAAATAAT
Found at i:74990 original size:16 final size:15
Alignment explanation
Indices: 74949--75001 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
74939 TTTTCATTTC
*
74949 ATAAAATTATAAAAT
1 ATAAAAATATAAAAT
* * *
74964 AATTAATATATTAAAT
1 -ATAAAAATATAAAAT
74980 ATTAAAAATATAAAAT
1 A-TAAAAATATAAAAT
74996 ATAAAA
1 ATAAAA
75002 TAATTTTAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
15 6 0.21
16 23 0.79
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAAAAATATAAAAT
Found at i:77903 original size:25 final size:25
Alignment explanation
Indices: 77875--77922 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
77865 GTACATGCTG
77875 AAGGGAGAGACTTTGCTAGAAGCTA
1 AAGGGAGAGACTTTGCTAGAAGCTA
*
77900 AAGGGAGAGACTTTTCTAGAAGC
1 AAGGGAGAGACTTTGCTAGAAGC
77923 AGAAGCCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.21
Consensus pattern (25 bp):
AAGGGAGAGACTTTGCTAGAAGCTA
Found at i:79478 original size:18 final size:18
Alignment explanation
Indices: 79455--79494 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
79445 AAGAAAAGAA
*
79455 GAACTTGGTTTGTAGGTT
1 GAACTTGGTTTGCAGGTT
79473 GAACTTGGTTTGCAGGTT
1 GAACTTGGTTTGCAGGTT
79491 GAAC
1 GAAC
79495 AAATCTCTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.10, G:0.33, T:0.38
Consensus pattern (18 bp):
GAACTTGGTTTGCAGGTT
Found at i:87496 original size:15 final size:15
Alignment explanation
Indices: 87473--87504 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
87463 TTGCACTTAA
87473 TGGAACATGCAATGT
1 TGGAACATGCAATGT
*
87488 TGGAGCATGCAATGT
1 TGGAACATGCAATGT
87503 TG
1 TG
87505 ATGGAGCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.28
Consensus pattern (15 bp):
TGGAACATGCAATGT
Found at i:87511 original size:18 final size:16
Alignment explanation
Indices: 87472--87515 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
87462 GTTGCACTTA
*
87472 ATGGAACATGCAATGT
1 ATGGAGCATGCAATGT
87488 -TGGAGCATGCAATGTT
1 ATGGAGCATGCAATG-T
87504 GATGGAGCATGC
1 -ATGGAGCATGC
87516 GTTTTCAGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 13 0.54
16 1 0.04
18 10 0.42
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.25
Consensus pattern (16 bp):
ATGGAGCATGCAATGT
Found at i:89037 original size:13 final size:13
Alignment explanation
Indices: 89016--89049 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
89006 TGTCAAAAAG
*
89016 GATGGGGATGTAC
1 GATGAGGATGTAC
89029 GATGAGGATGTAC
1 GATGAGGATGTAC
*
89042 CATGAGGA
1 GATGAGGA
89050 CCATAAGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.09, G:0.41, T:0.21
Consensus pattern (13 bp):
GATGAGGATGTAC
Found at i:91555 original size:23 final size:23
Alignment explanation
Indices: 91529--91574 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
91519 TGTTTGGTTC
91529 TTGCTTTGTGCAATGGTTGGCTA
1 TTGCTTTGTGCAATGGTTGGCTA
91552 TTGCTTTGTGCAATGGTTGGCTA
1 TTGCTTTGTGCAATGGTTGGCTA
91575 CATCTTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.30, T:0.43
Consensus pattern (23 bp):
TTGCTTTGTGCAATGGTTGGCTA
Found at i:91581 original size:23 final size:23
Alignment explanation
Indices: 91530--91582 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
91520 GTTTGGTTCT
*
91530 TGCTTTGTGCAATGGTTGGCTAT
1 TGCTTTGTGCAATGGTTGGCTAA
91553 TGCTTTGTGCAATGGTTGGCTACA
1 TGCTTTGTGCAATGGTTGGCTA-A
91577 T-CTTTG
1 TGCTTTG
91583 ACATCGTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.13, C:0.15, G:0.28, T:0.43
Consensus pattern (23 bp):
TGCTTTGTGCAATGGTTGGCTAA
Found at i:93009 original size:17 final size:18
Alignment explanation
Indices: 92987--93034 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
92977 AATTATTTAT
92987 TTTTTAATAAATAT-ATA
1 TTTTTAATAAATATAATA
93004 TTTTTAATATTAAT-TAATA
1 TTTTTAATA--AATATAATA
93023 TTTTTAA-AAATA
1 TTTTTAATAAATA
93035 ATTGGCAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.11
17 9 0.33
18 2 0.07
19 13 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTTAATAAATATAATA
Found at i:99033 original size:23 final size:23
Alignment explanation
Indices: 99003--99113 Score: 106
Period size: 23 Copynumber: 4.9 Consensus size: 23
98993 GTCGAGGGTT
99003 CTATGTGGTCCTTCAGGACAAAA-
1 CTATGTGGTCCTTC-GGACAAAAC
* *
99026 CTATGTGGTCCTT-TGAAAAAAC
1 CTATGTGGTCCTTCGGACAAAAC
* * *
99048 CTATGCGGTCCTTCTGAAAAAAC
1 CTATGTGGTCCTTCGGACAAAAC
99071 CTATGTGGTCCTTCAGGAC-AAA-
1 CTATGTGGTCCTTC-GGACAAAAC
*
99093 -TATGTGGTACTTCGGTACAAA
1 CTATGTGGTCCTTCGG-ACAAA
99114 TTATGTGAGC
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
20 2 0.03
21 20 0.26
22 14 0.18
23 38 0.50
24 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGACAAAAC
Found at i:99057 original size:22 final size:23
Alignment explanation
Indices: 99003--99084 Score: 114
Period size: 23 Copynumber: 3.6 Consensus size: 23
98993 GTCGAGGGTT
* *
99003 CTATGTGGTCCTTCAGGACAAAA-
1 CTATGTGGTCCTTC-TGAAAAAAC
99026 CTATGTGGTCCTT-TGAAAAAAC
1 CTATGTGGTCCTTCTGAAAAAAC
*
99048 CTATGCGGTCCTTCTGAAAAAAC
1 CTATGTGGTCCTTCTGAAAAAAC
99071 CTATGTGGTCCTTC
1 CTATGTGGTCCTTC
99085 AGGACAAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
21 6 0.11
22 12 0.23
23 35 0.66
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (23 bp):
CTATGTGGTCCTTCTGAAAAAAC
Found at i:99409 original size:9 final size:9
Alignment explanation
Indices: 99385--99427 Score: 68
Period size: 9 Copynumber: 4.6 Consensus size: 9
99375 TTCCAGACTT
99385 TTCTCTTCTTC
1 TTCTCTTC--C
99396 TTCTCTTCC
1 TTCTCTTCC
99405 TTCTCTTCC
1 TTCTCTTCC
99414 TTCTCTTCC
1 TTCTCTTCC
99423 TTCTC
1 TTCTC
99428 CAACCGTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 24 0.75
11 8 0.25
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (9 bp):
TTCTCTTCC
Found at i:100757 original size:149 final size:150
Alignment explanation
Indices: 100568--100875 Score: 537
Period size: 150 Copynumber: 2.1 Consensus size: 150
100558 GGGTAGAGGG
* *
100568 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
* *
100632 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
* *
100697 ATATGGCACTACGATGCAAT
131 ATACGACACTACGATGCAAT
*
100717 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
100782 TACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
*
100847 ATACGACACTACGGTGCAAT
131 ATACGACACTACGATGCAAT
100867 TCTACGCGG
1 TCTACGCGG
100876 CACTTCAGTG
Statistics
Matches: 150, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
149 51 0.34
150 99 0.66
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
ATACGACACTACGATGCAAT
Found at i:107807 original size:151 final size:150
Alignment explanation
Indices: 107603--107912 Score: 541
Period size: 152 Copynumber: 2.1 Consensus size: 150
107593 GGGTAGAGGG
* *
107603 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
* *
107667 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
*
107732 ATATGGCACTACGGTGCAAT
131 ATACGGCACTACGGTGCAAT
*
107752 TCTACGCGGTCCTTCGGGATATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACA
1 TCTACGCGGTCCTTCGGG--ACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACA
107817 CATACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCA
64 CATACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCA
107882 TTATACGGCACTACGGTGCAAT
129 TTATACGGCACTACGGTGCAAT
107904 TCTACGCGG
1 TCTACGCGG
107913 CACTTTGGTG
Statistics
Matches: 152, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
149 18 0.12
151 33 0.22
152 101 0.66
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATCCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
ATACGGCACTACGGTGCAAT
Found at i:107932 original size:23 final size:23
Alignment explanation
Indices: 107887--107932 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
107877 CATCATTATA
*
107887 CGGCACTACGGTGCAATTCTACG
1 CGGCACTACGGTGCAATTATACG
** *
107910 CGGCACTTTGGTGCATTTATACG
1 CGGCACTACGGTGCAATTATACG
107933 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (23 bp):
CGGCACTACGGTGCAATTATACG
Found at i:112961 original size:117 final size:115
Alignment explanation
Indices: 112759--112992 Score: 285
Period size: 117 Copynumber: 2.0 Consensus size: 115
112749 AATATATATT
* * * *
112759 AATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAAAAAAGGACTTCTAGGT
1 AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAAAAAAGGACATCCAGGT
* * *
112824 GCCTTAAGACAGTTCTTTTCTTTGATATT-AAAA-AAATAAATAATTAAAAC
66 GCCTTAAGACAGTCCATTTC-TTAATATTAAAAATAAATAAAT-ATTAAAAC
*
112874 AATTAATATATAATTTATAAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGGACATCCA
1 AATTAATATAT-ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCA-AAAAAGGACATCCA
* ** *
112939 GTTGTTTTAAGACTG-CCATTTCTTAATATTGAAAAATAAATAAATATTAAAAC
63 GGTGCCTTAAGACAGTCCATTTCTTAATATT-AAAAATAAATAAATATTAAAAC
112992 A
1 A
112993 TGATAAAAAC
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
115 10 0.10
116 13 0.13
117 35 0.35
118 35 0.35
119 8 0.08
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (115 bp):
AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAAAAAAGGACATCCAGGT
GCCTTAAGACAGTCCATTTCTTAATATTAAAAATAAATAAATATTAAAAC
Found at i:114366 original size:3 final size:3
Alignment explanation
Indices: 114358--114418 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
114348 AAATATTTAT
* *
114358 TAA TAA TAA -AA TAA TAA TAA TAA TAA TTA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
114405 TAA T-A TAAA TAA TA
1 TAA TAA T-AA TAA TA
114419 TTCAAATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
2 4 0.08
3 45 0.88
4 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:115108 original size:113 final size:113
Alignment explanation
Indices: 114741--116427 Score: 1986
Period size: 113 Copynumber: 14.6 Consensus size: 113
114731 AGAGTTATGC
** * * *
114741 AAAAGGTTGAACAAACTCTTCTTATTATGAACTTCTTCTT-TTTCTTCAGATAAGTTCTTCTCAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* ** * * * *
114805 TATGAACTTTTTCTGGAAAAGTTGATTCATCGAGTGATGAATTCAAGC-
65 TATGAACTCTACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
* *
114853 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * ** * * *
114917 TATGAACT-TCCTCTGGAAAAGTTGATGTTGATCTATCTCCTTCTATAAT-AGAGTCATGC-
65 TATGAACTCTAC-CT-G----G-TAATGTTGATCCA--T-C--GAATGATGA-ATTCAAGCG
* * *
114976 AAAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTTCATTCTTCAGATTAGTTCTTCTCAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * *
115041 TATGAACT-TTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAACA
65 TATGAACTCTAC-CTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
* * * *
115090 AAAAGTTAAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTATTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** * * * *
115155 ATGAACT-TTCTCTGAAAATGCTGATCCATCCAGTGATGGATTCAAGCG
66 ATGAACTCTAC-CTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
* *
115203 AAAAGTTGAACAGGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * **
115268 ATGAACT-TTCTCTGGAAATGTTGATCCATCCAGTGATGGATTTGAGC-
66 ATGAACTCTAC-CTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
* * * *
115315 AAAAGGTTGGATACGTTCTTCTCATTATGAACTTCTTCTTACTTCTTCAGATGAGTTCTTCTCAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
115380 TATGAACT-TTCTCTGGAAAAT-CTGATCCATTGAATCATAAATTCAAGCATAAATTCAAGCG
65 TATGAACTCTAC-CTGG-TAATGTTGATCC-----ATC--GAA-T---G-ATGAATTCAAGCG
*
115441 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * *
115506 ATGAACTCGACTTGGTAATGTTGATCCATCGAATGATGGATTCAAGCG
66 ATGAACTCTACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
* * *
115554 AAAGGTTGAATAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
115619 ATGAACTCTACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCTACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
*
115667 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
115732 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCTACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
* * *
115780 AAACGTTGAATAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
115845 ATGAACTCTACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCTACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
* *
115893 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTATTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
115958 ATGAACTCGACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCTACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
* * * *
116006 AAAGGTTGAATAAGTTCTTCTCATTATGAACTTCGTATTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
116071 ATGAACTCTACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCTACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
*
116119 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
116184 ATGAACTCTACCTGGTAATGCTGATCCATCGAATGATGAATTCAAGCG
66 ATGAACTCTACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
116232 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
116296 ATGAACTCGAACTGGAAATGCTGATGATGATATATCTCCTTCTG--TGATAGAGTT-ATGC-
66 ATGAACTCTACCTGGTAA---TG-T--TG----A--TCCATC-GAATGAT-GAATTCAAGCG
* * *
116354 AAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAATTCTTCTCAT
1 AAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
116419 TATGAACTC
65 TATGAACTC
116428 GACTTCTTCA
Statistics
Matches: 1392, Mismatches: 133, Indels: 88
0.86 0.08 0.05
Matches are distributed among these distances:
111 1 0.00
112 112 0.08
113 972 0.70
114 10 0.01
115 3 0.00
116 1 0.00
117 2 0.00
118 24 0.02
119 1 0.00
120 5 0.00
121 2 0.00
122 6 0.00
123 89 0.06
124 78 0.06
125 81 0.06
126 5 0.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCTACCTGGTAATGTTGATCCATCGAATGATGAATTCAAGCG
Found at i:115432 original size:12 final size:12
Alignment explanation
Indices: 115415--115439 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
115405 TCCATTGAAT
115415 CATAAATTCAAG
1 CATAAATTCAAG
115427 CATAAATTCAAG
1 CATAAATTCAAG
115439 C
1 C
115440 GAAAAGTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (12 bp):
CATAAATTCAAG
Found at i:116452 original size:159 final size:159
Alignment explanation
Indices: 116243--116624 Score: 491
Period size: 159 Copynumber: 2.4 Consensus size: 159
116233 AAAGTTGAAC
**
116243 AAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 AAGTTCTTCTCATTATGAA---CTTCGACTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAAC
* * *
116308 TGGAAATGCTGATGATGATATATCTCCTTCTGTGATAGAGTTATGCAAAAGGTTGAACAAGCTCT
63 TGGAAAAGCTGATGATGATATATCTCCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAACTCT
*
116373 TCTCATTATGAACTTCTTC-TTCATTCTTCAGAT
128 TCTCATTATGAACTTCTTCTTTC--TCTTCAAAT
****
116406 GAA-TTCTTCTCATTATGAAC-TCGACTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 -AAGTTCTTCTCATTATGAACTTCGACTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
* * *
116469 GAAAAGCTGATGTTGATCTATCTCCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAATTCTTC
65 GAAAAGCTGATGATGATATATCTCCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAACTCTTC
*
116534 TCATTATGAATTTCTTCTTTCTCTTCAAAT
130 TCATTATGAACTTCTTCTTTCTCTTCAAAT
* ** *
116564 AAGTTCTTCTCATTCTGAACTTTTTCTTCTTTCTTCAGATGAGTTCTTCTCATTTTGAACT
1 AAGTTCTTCTCATTATGAAC---TTCGAC-TTCTTCAGATGAGTTCTTCTCATTATGAACT
116625 TTTTTCTGGA
Statistics
Matches: 193, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
157 2 0.01
158 24 0.12
159 112 0.58
160 4 0.02
162 3 0.02
163 46 0.24
164 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.42
Consensus pattern (159 bp):
AAGTTCTTCTCATTATGAACTTCGACTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
AAAAGCTGATGATGATATATCTCCTTCTGTGATAGAATTATGCAAAAGGTTGAACAAACTCTTCT
CATTATGAACTTCTTCTTTCTCTTCAAAT
Found at i:116571 original size:39 final size:40
Alignment explanation
Indices: 116528--116628 Score: 134
Period size: 40 Copynumber: 2.5 Consensus size: 40
116518 GTTGAACAAA
116528 TTCTTCTCATTATGAA-TTTCTTCTT-TCTCTTCAAATAAG
1 TTCTTCTCATTATGAACTTT-TTCTTCTCTCTTCAAATAAG
* * * *
116567 TTCTTCTCATTCTGAACTTTTTCTTCTTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTTTTCTTCTCTCTTCAAATAAG
*
116607 TTCTTCTCATTTTGAACTTTTT
1 TTCTTCTCATTATGAACTTTTT
116629 TCTGGAAAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 20 0.36
40 35 0.64
ACGTcount: A:0.18, C:0.21, G:0.07, T:0.54
Consensus pattern (40 bp):
TTCTTCTCATTATGAACTTTTTCTTCTCTCTTCAAATAAG
Found at i:116804 original size:113 final size:113
Alignment explanation
Indices: 116564--117106 Score: 684
Period size: 113 Copynumber: 4.8 Consensus size: 113
116554 CTCTTCAAAT
* * *
116564 AAGTTCTTCTCATTCTGAACTTT-TTCTTCTTTCTTCAGATGAGTTCTTCTCATTTTGAACTTTT
1 AAGTTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTT
* * ** * *
116628 TTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAA-C-ATAAAGTTGAAC
64 TTCTGGAAATGTTGATCCATTGAATGAT-GAATTCAAGCGA-AAAGTTGAAC
* * *
116678 AAATCCTTCTCATTACGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTT
1 AAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTT
* * * *
116743 CTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCGAAAAGTTGAAC
66 CTGGAAATGTTGATCCATTGAATGATGAATTCAAGCGAAAAGTTGAAC
* * * **
116791 AAGTTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC
1 AAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTT
* * *
116856 CTGGTAATGTTGATCCATTGAATGATGAATTCAAGCGAAAGGTTGAAT
66 CTGGAAATGTTGATCCATTGAATGATGAATTCAAGCGAAAAGTTGAAC
* * * **
116904 AAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTAAGAACTCTAC
1 AAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTT
* * *
116969 CTGGTAATGTTGATCCATTGAATCATGAATTCAAGCAAAAAGTTGAAC
66 CTGGAAATGTTGATCCATTGAATGATGAATTCAAGCGAAAAGTTGAAC
* *
117017 AAGTTCTTATCATTATGAACTTT-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCT
1 AAGTTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTT
*
117079 TCTAGAAATGTTGATCCATTGAATGATG
65 TCTGGAAATGTTGATCCATTGAATGATG
117107 GATTTGAACT
Statistics
Matches: 382, Mismatches: 43, Indels: 11
0.88 0.10 0.03
Matches are distributed among these distances:
111 24 0.06
112 35 0.09
113 270 0.71
114 53 0.14
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (113 bp):
AAGTTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTT
CTGGAAATGTTGATCCATTGAATGATGAATTCAAGCGAAAAGTTGAAC
Found at i:118975 original size:76 final size:76
Alignment explanation
Indices: 118850--119020 Score: 227
Period size: 76 Copynumber: 2.3 Consensus size: 76
118840 GATGTGGGCC
* * * *
118850 TTCAGCATGCCCCAACA-ATTGTTGATACGAACGTTCAAAATACATCAACATTCTTCATTCTGAA
1 TTCAGCATGCCCCAACATTTTGTTGATACAAACATTCAAAATACATCAACATTCCTCATTCTGAA
*
118914 TGAAAAAGGCT
66 TGAAAAACGCT
* * ** * *
118925 TTCAGCATGCCCCAGCATTTTGTTGATATAAACATTCAGGATACATCAACATTCCTGATTCTGAT
1 TTCAGCATGCCCCAACATTTTGTTGATACAAACATTCAAAATACATCAACATTCCTCATTCTGAA
*
118990 TGAAAAACGTT
66 TGAAAAACGCT
119001 TTCAGCATGCCCCAACATTT
1 TTCAGCATGCCCCAACATTT
119021 GCTTCTTGTT
Statistics
Matches: 82, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
75 16 0.20
76 66 0.80
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (76 bp):
TTCAGCATGCCCCAACATTTTGTTGATACAAACATTCAAAATACATCAACATTCCTCATTCTGAA
TGAAAAACGCT
Found at i:120334 original size:115 final size:115
Alignment explanation
Indices: 120156--120615 Score: 814
Period size: 115 Copynumber: 4.0 Consensus size: 115
120146 GATCATGCAG
* * * * * *
120156 TTCATCTTTCAATTCTAATGATTGG-TTCTGGGGTTCCTATCGAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
*
120220 AACACTTCCAGAAGATGCTATTGGGTATTCTTATTTCTACTATGAGCACA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
*
120270 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTTATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
120335 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
* *
120385 TTCATCTTTTAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCATATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
120450 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
*
120500 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAT
1 TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
120565 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
66 AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
120615 T
1 T
120616 GGAACTTGCT
Statistics
Matches: 331, Mismatches: 14, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
114 23 0.07
115 308 0.93
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (115 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCACA
Found at i:124775 original size:7 final size:7
Alignment explanation
Indices: 124741--124782 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
124731 ATAAGAGTAT
124741 AAATGCA
1 AAATGCA
* *
124748 CAATGAA
1 AAATGCA
124755 AAATGCA
1 AAATGCA
124762 AAGATGCA
1 AA-ATGCA
124770 AAATGC-
1 AAATGCA
124776 AAATGCA
1 AAATGCA
124783 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:127014 original size:113 final size:111
Alignment explanation
Indices: 126803--127022 Score: 275
Period size: 113 Copynumber: 2.0 Consensus size: 111
126793 AATATATATT
* * * * * *
126803 AATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGTT
1 AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAAAAAAGGACATCCAATT
* *
126868 GCCTTAAGACAGCTCTTTTCTTTGATATTAAAAAAATAATTAAAAC
66 GCCTTAAGACAGCTCATTTCTTTAATATTAAAAAAATAATTAAAAC
126914 AATTAATATATAATTTATAAAATAAAATATTTATTTATTTAAAAATATCAAAAAATGGACATCCA
1 AATTAATATAT-ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAAAAAA-GGACATCCA
** * * *
126979 ATTGTTTTAAGACTGC-CATTTC-TTAATATT-GAAAAATAAATAAA
63 ATTGCCTTAAGACAGCTCATTTCTTTAATATTAAAAAAATAATTAAA
127023 TATTAAAACA
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
111 22 0.24
112 13 0.14
113 39 0.42
114 19 0.20
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.39
Consensus pattern (111 bp):
AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAAAAAAGGACATCCAATT
GCCTTAAGACAGCTCATTTCTTTAATATTAAAAAAATAATTAAAAC
Found at i:128359 original size:3 final size:3
Alignment explanation
Indices: 128351--128410 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
128341 AAATATTTAT
* *
128351 TAA TAA TAA -AA TAA TAA TAA TAA TTA TAA TTA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
128397 TAA T-A TAAA TAA TA
1 TAA TAA T-AA TAA TA
128411 TTCAAATGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
2 6 0.12
3 42 0.84
4 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:128411 original size:26 final size:26
Alignment explanation
Indices: 128342--128411 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
128332 GGCCTGTAAA
* *
128342 AATATTTATTAATAATAAAATAATAAT
1 AATAATTA-TAATAATATAATAATAAT
*
128369 AATAATTATAATTATATAATAATAAT
1 AATAATTATAATAATATAATAATAAT
128395 AATAA-TATAAATAATAT
1 AATAATTAT-AATAATAT
128412 TCAAATGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 3 0.08
26 28 0.74
27 7 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATAATTATAATAATATAATAATAAT
Found at i:130893 original size:23 final size:23
Alignment explanation
Indices: 130844--130911 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 23
130834 GTCGAGAGTT
* * *
130844 CTATGTGGTCCTTCGGTATAAAA
1 CTATGTGGTCATTCGGGACAAAA
*
130867 CTATGTGGTCATTCGGGACAAAC
1 CTATGTGGTCATTCGGGACAAAA
* * * *
130890 CTATATAGTCTTTTGGGACAAA
1 CTATGTGGTCATTCGGGACAAA
130912 TATGTTGCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (23 bp):
CTATGTGGTCATTCGGGACAAAA
Found at i:131918 original size:2 final size:2
Alignment explanation
Indices: 131911--131942 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
131901 AGAAACTTTA
131911 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
131943 GAATCAGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:138822 original size:24 final size:24
Alignment explanation
Indices: 138803--138858 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
138793 CAAAATTTAT
138803 ATTGAAATTCAAACTCAAATTGAA
1 ATTGAAATTCAAACTCAAATTGAA
* * *
138827 ATTTAAATTCAAACTCCAATTAAA
1 ATTGAAATTCAAACTCAAATTGAA
*
138851 AATGAAAT
1 ATTGAAAT
138859 GAACATGAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.30
Consensus pattern (24 bp):
ATTGAAATTCAAACTCAAATTGAA
Found at i:138826 original size:18 final size:18
Alignment explanation
Indices: 138803--138839 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
138793 CAAAATTTAT
138803 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
138821 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
138839 A
1 A
138840 CTCCAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:141764 original size:22 final size:21
Alignment explanation
Indices: 141736--141779 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 21
141726 AAACACGCGT
141736 AATTTAAAAAACGTATCGATAC
1 AATTTAAAAAA-GTATCGATAC
141758 AATTTAAAAAAGTATCGATAC
1 AATTTAAAAAAGTATCGATAC
141779 A
1 A
141780 TTATGTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.27
Consensus pattern (21 bp):
AATTTAAAAAAGTATCGATAC
Found at i:142285 original size:200 final size:200
Alignment explanation
Indices: 141742--142557 Score: 1319
Period size: 200 Copynumber: 4.1 Consensus size: 200
141732 GCGTAATTTA
*
141742 AAAAACGTATCGATACAATTTAAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAAC
1 AAAAA-GTATCGATACAATTTCAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAAC
** ** * *
141807 ATGTATATTTTTACCCGTTACATTGTAAATTTACCTATTAATTTATAATAACCAGTTTCGATGTT
65 CGGTATATTTTTACTGGTTACATTGTAAATTTACCTATTAATTTATAATAATCGGTTTCGATGTT
*
141872 TTGAGGATCGATACTTATAATAAATGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATT
130 TTGAGGATCGATACTTATAATAAATGTATCGACACTTTATGTGTGCATCTCGTCTGGCATTCATT
141937 CTGGAC
195 CTGGAC
* * * * * * *
141943 AAAATGTATCGATATAATTT-AAAAAATAGCGATACATTATGTTTACTTATTTTCTCCTTAAACC
1 AAAAAGTATCGATACAATTTCAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
* *
142007 GGTATATTTTTACTGATTACATTATAAATTTACCTATTAATTTATAATAATCGGTTTCGATGTTT
66 GGTATATTTTTACTGGTTACATTGTAAATTTACCTATTAATTTATAATAATCGGTTTCGATGTTT
**
142072 TGAGGATCGATACTTATAATAAATGTATCGACACTTTATGTGTGCATCTCGTCTGGCATTCATAA
131 TGAGGATCGATACTTATAATAAATGTATCGACACTTTATGTGTGCATCTCGTCTGGCATTCATTC
142137 TGGAC
196 TGGAC
*
142142 AAAAAGTATCGATACAATTTCCAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
1 AAAAAGTATCGATACAATTTCAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
* * * *
142207 GGTATATTTTTACTGGTTACATTGTAAATATACCTATTACTTTATAATTATCGGTTTTGATGTTT
66 GGTATATTTTTACTGGTTACATTGTAAATTTACCTATTAATTTATAATAATCGGTTTCGATGTTT
*
142272 TGAGGATCGATACTTATAATAAATGTATCGACACTTTATGTGTACATCTCGTCTGGCATTCATTC
131 TGAGGATCGATACTTATAATAAATGTATCGACACTTTATGTGTGCATCTCGTCTGGCATTCATTC
*
142337 TGAAC
196 TGGAC
* *
142342 AAAAAGTATCGATACAATTTCCAAAAGTATCGATACATTATGTTTACCTATTCTCTCTTTAAACC
1 AAAAAGTATCGATACAATTTCAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
* * *
142407 GGTATATTTTTACTGGTTACATTGTAAATTTACCTATTACTCTATAATTATCGGTTTCGATGTTT
66 GGTATATTTTTACTGGTTACATTGTAAATTTACCTATTAATTTATAATAATCGGTTTCGATGTTT
*
142472 TGAGGATCGATACTTATAATAAATGTATCGACACTTTATGTGTGCATCTCGTTTGGCATTCATTC
131 TGAGGATCGATACTTATAATAAATGTATCGACACTTTATGTGTGCATCTCGTCTGGCATTCATTC
*
142537 TAGAC
196 TGGAC
142542 AAAAAGTATCGATACA
1 AAAAAGTATCGATACA
142558 TTATATTTAC
Statistics
Matches: 570, Mismatches: 44, Indels: 3
0.92 0.07 0.00
Matches are distributed among these distances:
199 181 0.32
200 385 0.68
201 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (200 bp):
AAAAAGTATCGATACAATTTCAAAAAGTATCGATACATTATGTTTACCTATTCTCTCATTAAACC
GGTATATTTTTACTGGTTACATTGTAAATTTACCTATTAATTTATAATAATCGGTTTCGATGTTT
TGAGGATCGATACTTATAATAAATGTATCGACACTTTATGTGTGCATCTCGTCTGGCATTCATTC
TGGAC
Found at i:146061 original size:22 final size:18
Alignment explanation
Indices: 146019--146087 Score: 75
Period size: 18 Copynumber: 3.6 Consensus size: 18
146009 TCAGTATTCA
* *
146019 TCCCGTAGGACTACTATG
1 TCCCGAAGGACCACTATG
146037 TCCCGAAGGACCACTGTATATG
1 TCCCGAAGGACCAC----TATG
*
146059 TCCCGTAGGACCACTATG
1 TCCCGAAGGACCACTATG
146077 TCCCGAAGGAC
1 TCCCGAAGGAC
146088 TACTCCTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 26 0.60
22 17 0.40
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Found at i:147704 original size:64 final size:62
Alignment explanation
Indices: 147599--147755 Score: 165
Period size: 64 Copynumber: 2.5 Consensus size: 62
147589 TAATGAAGGT
* * * **
147599 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATG-TTGTATTATTATAGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATT-TTA-AAAG
* *
147663 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATTTTAAAAG
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATGTTTCTATTTTAAAAG
*
147726 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
147756 ACACCTTCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
63 4 0.05
64 68 0.85
65 8 0.10
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (62 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATTTTAAAAG
Found at i:149393 original size:66 final size:65
Alignment explanation
Indices: 149254--149379 Score: 180
Period size: 66 Copynumber: 1.9 Consensus size: 65
149244 ACTCCTTTCA
* * *
149254 CCCTGTAAGTTCACCCCTCAATTCCACATCTTCCTTCACCACTCCATCAATTTTTCCACCCATCA
1 CCCT-TAACTTCACCCCTCAACTCCACAACTTCCTTCACCACTCCATCAATTTTTCCACCCATCA
149319 C
65 C
* * *
149320 CATCTTAACTTCACCCCTCAACTCCACAACTTCTTTCACCACTCCATCTATTTTTCCACC
1 C-CCTTAACTTCACCCCTCAACTCCACAACTTCCTTCACCACTCCATCAATTTTTCCACC
149380 AACTTCCCCC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 51 0.96
67 2 0.04
ACGTcount: A:0.23, C:0.44, G:0.02, T:0.32
Consensus pattern (65 bp):
CCCTTAACTTCACCCCTCAACTCCACAACTTCCTTCACCACTCCATCAATTTTTCCACCCATCAC
Found at i:151963 original size:21 final size:21
Alignment explanation
Indices: 151939--152008 Score: 131
Period size: 21 Copynumber: 3.3 Consensus size: 21
151929 TTCCAAAAGT
*
151939 ATCGATACTTATTTGAATGGT
1 ATCGATACTTATTTGAATGGA
151960 ATCGATACTTATTTGAATGGA
1 ATCGATACTTATTTGAATGGA
151981 ATCGATACTTATTTGAATGGA
1 ATCGATACTTATTTGAATGGA
152002 ATCGATA
1 ATCGATA
152009 TCTCTTTACC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.39
Consensus pattern (21 bp):
ATCGATACTTATTTGAATGGA
Found at i:152343 original size:183 final size:182
Alignment explanation
Indices: 151958--152468 Score: 645
Period size: 183 Copynumber: 2.8 Consensus size: 182
151948 TATTTGAATG
* ** * * *
151958 GTATCGATACTTATTTGAATGGAATCGATACTTATTTGA-ATGGAAT-CGATATCTCTTTACCGA
1 GTATCAATACTTATTTGAATGGAATCGATAC-T-TTCAACAT---ATCCGGTATCGCTTTACCGG
* * *
152021 TTTTGTCATAATGAAACCGGTTTTGTCATATTTTT-GTCTATTATATTATTATGTATCGATACAT
61 TTTTGTCATAATGAAACCGGTTTTGTCATATTTTTACT-TGTTATATTGTTATGTATCGATACAT
* * *
152085 TTTATAAAGTATTGATACTTTATAGGCGCTATTATTGCTTTTCTTTTAAATTTAAAAA
125 TTTATAAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCAAAAA
*
152143 GTATCGATACTTATTTGAATGGAATCGATACTTTCAACATATCCGGTATCGCTTTACCGGTTTTG
1 GTATCAATACTTATTTGAATGGAATCGATACTTTCAACATATCCGGTATCGCTTTACCGGTTTTG
*
152208 TCATAATGAAACCGGTTTTGTCATATTTTTACTTGTTATATTGTTACGTATCGATACATGTTTAT
66 TCATAATGAAACCGGTTTTGTCATATTTTTACTTGTTATATTGTTATGTATCGATACAT-TTTAT
152273 AAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAA
130 AAAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATT-CAAAAA
* ** * * * *
152327 -TGTCAATACTTATTTGAATAAAATCGATACCTTCAACATATCTGGTAGCGCTTTACCGGTTTTT
1 GTATCAATACTTATTTGAATGGAATCGATACTTTCAACATATCCGGTATCGCTTTACCGGTTTTG
* * * * * *
152391 TCATATTGAACCCGATTTTGTCATATTTTTACTTGATATAGTGTTATGTATCGATAAATATTT-T
66 TCATAATGAAACCGGTTTTGTCATATTTTTACTTGTTATATTGTTATGTATCGATACAT-TTTAT
*
152455 AATGATATCGATAC
130 AAAG-TATCGATAC
152469 GTACCGGCAA
Statistics
Matches: 291, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
181 2 0.01
182 76 0.26
183 174 0.60
184 8 0.03
185 31 0.11
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (182 bp):
GTATCAATACTTATTTGAATGGAATCGATACTTTCAACATATCCGGTATCGCTTTACCGGTTTTG
TCATAATGAAACCGGTTTTGTCATATTTTTACTTGTTATATTGTTATGTATCGATACATTTTATA
AAGTATCGATACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCAAAAA
Found at i:156407 original size:30 final size:30
Alignment explanation
Indices: 156342--156399 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
156332 ATTTGAGTAT
* * *
156342 AAATTTAACTAAAATTTCATTTTGGTCCCC
1 AAATTTAACTAAAATTTCAATTTAGTCACC
*
156372 AAATTTAATTAAAATTTCAATTTAGTCA
1 AAATTTAACTAAAATTTCAATTTAGTCA
156400 TCGAATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (30 bp):
AAATTTAACTAAAATTTCAATTTAGTCACC
Found at i:158332 original size:2 final size:2
Alignment explanation
Indices: 158325--158349 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
158315 CATACAATAA
158325 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
158350 GATAAAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:159357 original size:21 final size:21
Alignment explanation
Indices: 159331--159382 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
159321 GTGAACAGTC
*
159331 GGTCAACGATCAACGGCCAAA
1 GGTCAACGATCAACGACCAAA
159352 GGTCAACGATCAACGACCAAA
1 GGTCAACGATCAACGACCAAA
159373 GGTCAACGAT
1 GGTCAACGAT
159383 TGGTCAATGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.38, C:0.27, G:0.23, T:0.12
Consensus pattern (21 bp):
GGTCAACGATCAACGACCAAA
Found at i:165174 original size:17 final size:17
Alignment explanation
Indices: 165154--165187 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
165144 CAGACATCAT
165154 TTTAATTATT-TAATAAA
1 TTTAA-TATTCTAATAAA
165171 TTTAATATTCTAATAAA
1 TTTAATATTCTAATAAA
165188 ATGATTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAATATTCTAATAAA
Found at i:165878 original size:25 final size:25
Alignment explanation
Indices: 165829--165876 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
165819 ATGGTATATG
165829 TTATAATATTATTAGAGGATTAAAT
1 TTATAATATTATTAGAGGATTAAAT
* *
165854 TTATTATATTATTA-AGTATTAAA
1 TTATAATATTATTAGAGGATTAAA
165877 ATAAAGACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (25 bp):
TTATAATATTATTAGAGGATTAAAT
Found at i:166566 original size:3 final size:3
Alignment explanation
Indices: 166558--166582 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
166548 ATATCGGGGC
166558 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
166583 GAGTTGACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:169718 original size:21 final size:21
Alignment explanation
Indices: 169693--169747 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
169683 CACTACTTGT
169693 AGTATTGATACTCTAGGGTCA
1 AGTATTGATACTCTAGGGTCA
*
169714 AGTATCGATACTCTAGGGTCA
1 AGTATTGATACTCTAGGGTCA
*
169735 AGTATTAATACTC
1 AGTATTGATACTC
169748 CTATGAGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (21 bp):
AGTATTGATACTCTAGGGTCA
Found at i:171150 original size:160 final size:161
Alignment explanation
Indices: 170886--171205 Score: 570
Period size: 160 Copynumber: 2.0 Consensus size: 161
170876 AGCCCAACGA
* *
170886 CTTAAATTACCAAATTCATGGGGTCCACAAGTCTCTCGGATAAACTCAAAACTACTAGTCTGGAA
1 CTTAAATTACCAAATCCATGGGGTCCACAAGTCTCTCGGATAAACTCAAAACTACTAGCCTGGAA
*
170951 TTTGGGGTGTTACAAAAATAGTTTCTCGTACATGTTATGTGACAACCCAGAAATTTATGGCAAA-
66 TTTGGGGTGTTACAAAAATAGTTTCTCGTACATGTTATGTGACAACCCAAAAATTTATGGCAAAG
* *
171015 TTTTTTTAGTGCCATCATCTTTTATTTTGTG
131 GTTTTTTAGTGCCAACATCTTTTATTTTGTG
*
171046 CTTAAATTACCAAATCCATGGGGTCCATAAGTCTCTCGGATAAACTCAAAACTACTAGCCTGGAA
1 CTTAAATTACCAAATCCATGGGGTCCACAAGTCTCTCGGATAAACTCAAAACTACTAGCCTGGAA
*
171111 TTTGGGGTGTTACAAAAATTGTTTCTCGTACATGTTATGTGACAACCCAAAAATTTATGGCAAAG
66 TTTGGGGTGTTACAAAAATAGTTTCTCGTACATGTTATGTGACAACCCAAAAATTTATGGCAAAG
171176 GTTTTTTAGTGCCAACATCTTTTATTTTGT
131 GTTTTTTAGTGCCAACATCTTTTATTTTGT
171206 ATTCATGGTC
Statistics
Matches: 152, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
160 124 0.82
161 28 0.18
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (161 bp):
CTTAAATTACCAAATCCATGGGGTCCACAAGTCTCTCGGATAAACTCAAAACTACTAGCCTGGAA
TTTGGGGTGTTACAAAAATAGTTTCTCGTACATGTTATGTGACAACCCAAAAATTTATGGCAAAG
GTTTTTTAGTGCCAACATCTTTTATTTTGTG
Found at i:172564 original size:14 final size:14
Alignment explanation
Indices: 172545--172572 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
172535 ATATAAAAAA
172545 TAATTCAACAATGG
1 TAATTCAACAATGG
172559 TAATTCAACAATGG
1 TAATTCAACAATGG
172573 AGAATAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
TAATTCAACAATGG
Found at i:176930 original size:3 final size:3
Alignment explanation
Indices: 176922--176951 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
176912 CAATATAAAG
176922 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
176952 ATAAAAAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:182346 original size:3 final size:3
Alignment explanation
Indices: 182338--182386 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
182328 TATTTTTAAA
* *
182338 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
182386 A
1 A
182387 AATAAAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:182399 original size:24 final size:24
Alignment explanation
Indices: 182346--182403 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
182336 AAATTATTAT
* *
182346 TATTATTATTATTATTATTATAAA
1 TATTATTATTATTATTAATAAAAA
182370 TATTATTATTATTATTAAATAAAAA
1 TATTATTATTATTATT-AATAAAAA
182395 T-TTA-TATTA
1 TATTATTATTA
182404 CAAGCCCATC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 5 0.16
24 19 0.61
25 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTATTATTATTATTAATAAAAA
Found at i:191437 original size:75 final size:75
Alignment explanation
Indices: 190961--191429 Score: 611
Period size: 75 Copynumber: 6.3 Consensus size: 75
190951 AATAAGAAGT
* * * * * *
190961 AAATGCTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATAAGAATCTTGACGCATTTCGAATGT
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATAGGAATGTTGATGCATTTTGAACGT
*
191026 TTATATCAGC
66 TTGTATCAGC
**
191036 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAG-AATCAGGAATGTTGATGTGTTTTGAACG
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAAT-AGGAATGTTGATGCATTTTGAACG
* *
191100 TTTTTATCAAC
65 TTTGTATCAGC
* * * * *
191111 AAATGTTGGGGCATGGTGAAAGCTCATTTCAATCAAAAATAGGAATGTTGACGCATTTTGAACAT
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATAGGAATGTTGATGCATTTTGAACGT
*
191176 TTGTATCATC
66 TTGTATCAGC
* *
191186 AAATGTTGGGGCATGCTGAAAGCCTATTTCAATCAGAAATAGGAATGTTGATGCACTTTGAACGT
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATAGGAATGTTGATGCATTTTGAACGT
*
191251 TTGTATCAGT
66 TTGTATCAGC
* * * * **
191261 AAATATTGGGGTATGCTGAAAGCTCATTTCAATCAGAAATAAGAATGTTGATGTGTTTTTGAACG
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATAGGAATGTTGATG-CATTTTGAACG
*
191326 TCTGTATCAGC
65 TTTGTATCAGC
*
191337 AAATGTT-GGGCATGCTGAAAGCCCATTTCAATCAG-AATCAGGAATGTTGATGCATTTTGAATG
1 AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAAT-AGGAATGTTGATGCATTTTGAACG
* *
191400 TTCGTATCAAC
65 TTTGTATCAGC
*
191411 AATTGTTGGGGCATGCTGA
1 AAATGTTGGGGCATGCTGA
191430 GGGCCCATAT
Statistics
Matches: 340, Mismatches: 49, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
74 28 0.08
75 286 0.84
76 26 0.08
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (75 bp):
AAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATAGGAATGTTGATGCATTTTGAACGT
TTGTATCAGC
Found at i:191781 original size:54 final size:54
Alignment explanation
Indices: 191711--191853 Score: 223
Period size: 54 Copynumber: 2.6 Consensus size: 54
191701 GAAGCCATAG
*
191711 GAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGTACAGAAACCACAT
1 GAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGTACAGAAACCACAA
* *
191765 GAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGTACAGAAGCCACAA
1 GAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGTACAGAAACCACAA
* * * *
191819 GAAATGATGAATATGATGCCAAATGTTTTATGAAC
1 GAAATGATGAATGTGTTGTCAAATGTTTTACGAAC
191854 CAATGATTAT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (54 bp):
GAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGTACAGAAACCACAA
Found at i:193069 original size:99 final size:98
Alignment explanation
Indices: 192888--193073 Score: 291
Period size: 99 Copynumber: 1.9 Consensus size: 98
192878 CCCACATCTG
* * * *
192888 TAAGACCTACATTGCAGGATGTTTTCAAAAAGCCTTCGGGACCTTTTTGATATTTAAAGCCTCCG
1 TAAGACCTACAGTGCAGGACGTTTTCAAAAAGCCTTCAGGACCTTTTTGATATTTAAAGCCTCCA
192953 GGTCATCTGTAAGACCTACAGTAGGGCTATCCA
66 GGTCATCTGTAAGACCTACAGTAGGGCTATCCA
* * * *
192986 TAAGACCTAGAGTGCAGTACGTTTTCAAAAAGCCTTCAGGAGCTTTTTTGATATTTAAAGCCTTC
1 TAAGACCTACAGTGCAGGACGTTTTCAAAAAGCCTTCAGGA-CCTTTTTGATATTTAAAGCCTCC
193051 AGGTCATCTGTAAGACCTACAGT
65 AGGTCATCTGTAAGACCTACAGT
193074 GCAAGATGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
98 36 0.46
99 43 0.54
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (98 bp):
TAAGACCTACAGTGCAGGACGTTTTCAAAAAGCCTTCAGGACCTTTTTGATATTTAAAGCCTCCA
GGTCATCTGTAAGACCTACAGTAGGGCTATCCA
Found at i:193194 original size:116 final size:116
Alignment explanation
Indices: 192975--193487 Score: 837
Period size: 116 Copynumber: 4.4 Consensus size: 116
192965 GACCTACAGT
* * * *
192975 AGGGCTATCCATAAGACCTAGAGTGCAGTACGTTTTCAAAAAGCCTTCAGGAGCTTTTTTGATAT
1 AGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGC-TTTTTGATAT
* *
193040 TTAAAGCCTTCAGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTC
65 TTAAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTC
* *
193092 AGGGCCATCCATAAGACCTACAGTGTAGGATGTTTTCAAAAAGCCTTCAGGATCTTTTTGATATT
1 AGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATT
*
193157 TAAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTT
66 TAAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTC
* * **
193208 AGGGCCATCCATAAGACCTACAGTGTAGGATGTTTTCAAAAAGCCTTCAGAAGAATTTTGATATT
1 AGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATT
*
193273 TAAAGCCTCCGGGTCATCTGTAAGACCTACAATGCAAGATGATAAGACCTC
66 TAAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTC
*
193324 AGGGCCATCCATAAGACCTACAGTGCAGGAAGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATT
1 AGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATT
* * *
193389 TAAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAAAATGATAAGACCTC
66 TAAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTC
* *
193440 AAGGCCATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTC
1 AGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTC
193488 GGGTCATCTA
Statistics
Matches: 369, Mismatches: 27, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
116 321 0.87
117 48 0.13
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (116 bp):
AGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATT
TAAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTC
Found at i:193455 original size:42 final size:41
Alignment explanation
Indices: 193403--193560 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 41
193393 GCCTTCGGGT
* *
193403 CATCTATAAGACCTACAGTGCAAAATGATAAGACCTCAAGGC
1 CATCCATAAGACCTACAGTGCAAGATGATAAGACCTC-AGGC
* * * * *
193445 CATCCATAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGT
1 CATCCATAAGACCTACAGTGCAAGATG--AT--AAGA-CC-TCAGGC
* *
193492 CATCTATAAGACCTATAGTGCAAGATGATAAGACCTCAGAGC
1 CATCCATAAGACCTACAGTGCAAGATGATAAGACCTCAG-GC
* *
193534 CATCCATAAGACCTATAGTGCATGATG
1 CATCCATAAGACCTACAGTGCAAGATG
193561 TTTTTTAAAA
Statistics
Matches: 93, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
41 3 0.03
42 52 0.56
43 3 0.03
44 1 0.01
45 1 0.01
46 3 0.03
47 28 0.30
48 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (41 bp):
CATCCATAAGACCTACAGTGCAAGATGATAAGACCTCAGGC
Found at i:193502 original size:89 final size:89
Alignment explanation
Indices: 193390--193564 Score: 307
Period size: 89 Copynumber: 2.0 Consensus size: 89
193380 TTTGATATTT
193390 AAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAAAATGATAAGACCTCA-AGGCCATCCATAA
1 AAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAAAATGATAAGACCTCAGA-GCCATCCATAA
193454 GACCTACAGTGCATGATGTTTTCAA
65 GACCTACAGTGCATGATGTTTTCAA
* *
193479 AAAGCCTTCGGGTCATCTATAAGACCTATAGTGCAAGATGATAAGACCTCAGAGCCATCCATAAG
1 AAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAAAATGATAAGACCTCAGAGCCATCCATAAG
*
193544 ACCTATAGTGCATGATGTTTT
66 ACCTACAGTGCATGATGTTTT
193565 TTAAAAAAAG
Statistics
Matches: 82, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
89 81 0.99
90 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (89 bp):
AAAGCCTTCGGGTCATCTATAAGACCTACAGTGCAAAATGATAAGACCTCAGAGCCATCCATAAG
ACCTACAGTGCATGATGTTTTCAA
Found at i:193641 original size:208 final size:205
Alignment explanation
Indices: 193274--193926 Score: 691
Period size: 231 Copynumber: 3.0 Consensus size: 205
193264 TTTGATATTT
* * *
193274 AAAGCCTCCGGGTCATCTGTAAGACCTACAATGCAAGATGATAAGACCTCAGGGCCATCCATAAG
1 AAAGCCTTCGGGTCATCTATAAGACCTACAATGCAAGATGATAAGACCTCAGAGCCATCCATAAG
* *
193339 ACCTACAGTGCAGGAAGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTTAAAGCCTTCGGGTC
66 ACCTACAGTGCAGGAAGTTTTAAAAAAGCCTTCAGGAGCGTTTTGATATTTAAAGCCTTCGGGTC
*
193404 ATCTATAAGACCTACAGTGCAAAATGATAAGACCTCAAGGCCATCCATAAGACCTACAGTGCATG
131 ATCTATAAGACCTACAGTGCAAAATGATAAGACCTCAAGGCCATCCATAAGACCTACAGTGCAGG
193469 ATGTTTTCAA
196 ATGTTTTCAA
* *
193479 AAAGCCTTCGGGTCATCTATAAGACCTATAGTGCAAGATGATAAGACCTCAGAGCCATCCATAAG
1 AAAGCCTTCGGGTCATCTATAAGACCTACAATGCAAGATGATAAGACCTCAGAGCCATCCATAAG
* * * *
193544 ACCTATAGTGCATGATGTTTTTTAAAAAAAGCCTTCCGGAGCGTTTTGATATTTAAAGCCTTCGG
66 ACCTACAGTGCAGGAAG--TTTT-AAAAAAGCCTTCAGGAGCGTTTTGATATTTAAAGCCTTCGG
* * *
193609 GTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGC
128 GTCATCTATAAGACCTACAGTGCAAAATGATAAGACCTCAAGGCCATCCATAAGACCTACAGTGC
193674 AGGATGTTTTCAA
193 AGGATGTTTTCAA
* * * * *
193687 AAAGCCTTCAGGAGATTTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGGCCTACAG-TGCAAG
1 AAAGCCTTC-GG-G-----TCATCTAT-AAG--ACC---T-A-C---AATG-C-A-AGATG--A-
* * * * * * * ** * *
193751 TGATA-AGACCTTAGGGACATCCATAAGACCTATAATACAGGTTGTTTTCAAAAAGCCTTCGGGA
42 T-A-AGA-CC-TCAGAGCCATCCATAAGACCTACAGTGCAGGAAGTTTTAAAAAAGCCTTCAGGA
* *
193815 GCTTTTTGATATTTAAAGCC-TCTGGGTCATCTATAAGACCTACAGTGCAAGATGATAAGACCTC
103 GCGTTTTGATATTTAAAGCCTTC-GGGTCATCTATAAGACCTACAGTGCAAAATGATAAGACCTC
*
193879 AGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAA
167 AAGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAA
193918 AAAGCCTTC
1 AAAGCCTTC
193927 AGGAGCTTTT
Statistics
Matches: 382, Mismatches: 34, Indels: 38
0.84 0.07 0.08
Matches are distributed among these distances:
205 74 0.19
207 4 0.01
208 121 0.32
209 2 0.01
210 1 0.00
215 5 0.01
216 3 0.01
218 2 0.01
221 1 0.00
222 1 0.00
226 2 0.01
227 1 0.00
228 3 0.01
229 2 0.01
230 3 0.01
231 122 0.32
232 6 0.02
233 2 0.01
234 27 0.07
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (205 bp):
AAAGCCTTCGGGTCATCTATAAGACCTACAATGCAAGATGATAAGACCTCAGAGCCATCCATAAG
ACCTACAGTGCAGGAAGTTTTAAAAAAGCCTTCAGGAGCGTTTTGATATTTAAAGCCTTCGGGTC
ATCTATAAGACCTACAGTGCAAAATGATAAGACCTCAAGGCCATCCATAAGACCTACAGTGCAGG
ATGTTTTCAA
Found at i:193645 original size:22 final size:21
Alignment explanation
Indices: 193617--193675 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
193607 GGGTCATCTG
193617 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTGC-AGATGA
* * *
193639 TAAGACCT-CAGGGC-CATCCA
1 TAAGACCTACAGTGCAGAT-GA
193659 TAAGACCTACAGTGCAG
1 TAAGACCTACAGTGCAG
193676 GATGTTTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.07
20 9 0.31
21 10 0.34
22 8 0.28
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
TAAGACCTACAGTGCAGATGA
Found at i:193716 original size:440 final size:436
Alignment explanation
Indices: 193042--193929 Score: 1463
Period size: 440 Copynumber: 2.0 Consensus size: 436
193032 TTTGATATTT
* *
193042 AAAGCCTTCAGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAG
1 AAAGCCTTCAGGTCATCTATAAGACCTACAGTGCAAGATGATAAGACCTCAGAGCCATCCATAAG
* * * *
193107 ACCTACAGTGTAGGATGTTTTCAAAAAGCCTTCAGGATCTTTTTGATATTTAAAGCCTCCGGGTC
66 ACCTACAGTGCAGGATGTTTTAAAAAAGCCTTCAGGAGCGTTTTGATATTTAAAGCCTCCGGGTC
* *
193172 ATCTGTAAGACCTACAGTGCAAGATGATAAGACCTTAGGGCCATCCATAAGACCTACAGTGTAGG
131 ATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGG
193237 ATGTTTTCAAAAAGCCTTCAGAAGAATTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGACCTA
196 ATGTTTTCAAAAAGCCTTCAGAAGAATTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGACCTA
* * *
193302 CAATGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGAAGTTTTCAAAAAG
261 CAATGCAAG-TGATAAGACCTCAGGGACATCCATAAGACCTACAATACAGGAAGTTTTCAAAAAG
193367 CCTTCAGGAGCTTTTTGATATTTAAAGCCT-TCGGGTCATCTATAAGACCTACAGTGCAAAATGA
325 CCTTCAGGAGCTTTTTGATATTTAAAGCCTCT-GGGTCATCTATAAGACCTACAGTGCAAAATGA
*
193431 TAAGACCTCAAGGCCATCCATAAGACCTACAGTGCATGATGTTTTCAA
389 TAAGACCTCAAGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAA
* *
193479 AAAGCCTTCGGGTCATCTATAAGACCTATAGTGCAAGATGATAAGACCTCAGAGCCATCCATAAG
1 AAAGCCTTCAGGTCATCTATAAGACCTACAGTGCAAGATGATAAGACCTCAGAGCCATCCATAAG
* * * *
193544 ACCTATAGTGCATGATGTTTTTTAAAAAAAGCCTTCCGGAGCGTTTTGATATTTAAAGCCTTCGG
66 ACCTACAGTGCAGGATG--TTTT-AAAAAAGCCTTCAGGAGCGTTTTGATATTTAAAGCCTCCGG
193609 GTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGC
128 GTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGC
* * *
193674 AGGATGTTTTCAAAAAGCCTTCAGGAGATTTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGGC
193 AGGATGTTTTCAAAAAGCCTTCAGAAGAATTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGAC
* * * **
193739 CTACAGTGCAAGTGATAAGACCTTAGGGACATCCATAAGACCTATAATACAGGTTGTTTTCAAAA
258 CTACAATGCAAGTGATAAGACCTCAGGGACATCCATAAGACCTACAATACAGGAAGTTTTCAAAA
* *
193804 AGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCTGGGTCATCTATAAGACCTACAGTGCAAGATG
323 AGCCTTCAGGAGCTTTTTGATATTTAAAGCCTCTGGGTCATCTATAAGACCTACAGTGCAAAATG
*
193869 ATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAA
388 ATAAGACCTCAAGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAA
193918 AAAGCCTTCAGG
1 AAAGCCTTCAGG
193930 AGCTTTTTGA
Statistics
Matches: 417, Mismatches: 30, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
437 75 0.18
439 169 0.41
440 173 0.41
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (436 bp):
AAAGCCTTCAGGTCATCTATAAGACCTACAGTGCAAGATGATAAGACCTCAGAGCCATCCATAAG
ACCTACAGTGCAGGATGTTTTAAAAAAGCCTTCAGGAGCGTTTTGATATTTAAAGCCTCCGGGTC
ATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAGG
ATGTTTTCAAAAAGCCTTCAGAAGAATTTTGATATTTAAAGCCTCCGGGTCATCTGTAAGACCTA
CAATGCAAGTGATAAGACCTCAGGGACATCCATAAGACCTACAATACAGGAAGTTTTCAAAAAGC
CTTCAGGAGCTTTTTGATATTTAAAGCCTCTGGGTCATCTATAAGACCTACAGTGCAAAATGATA
AGACCTCAAGGCCATCCATAAGACCTACAGTGCAGGATGTTTTCAA
Found at i:193747 original size:116 final size:116
Alignment explanation
Indices: 193479--194109 Score: 976
Period size: 116 Copynumber: 5.4 Consensus size: 116
193469 ATGTTTTCAA
* * * *
193479 AAAGCCTTCGGGTCATCTATAAGACCTATAGTGCAAGATGATAAGACCTCAGAGCCATCCATAAG
1 AAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAG
* * * *
193544 ACCTATAGTGCATGATGTTTTTTAAAAAAAGCCTTCCGGAGCGTTTTGATATTT
66 ACCTATAGTGCAGGATG--TTTT-CAAAAAGCCTTCAGGAGCTTTTTGATATTT
*
193598 AAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAG
1 AAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAG
* *
193663 ACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGATTTTTGATATTT
66 ACCTATAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTT
* * *
193714 AAAGCCTCCGGGTCATCTGTAAGGCCTACAGTGCAAG-TGATAAGACCTTAGGGACATCCATAAG
1 AAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAG
* * * *
193778 ACCTATAATACAGGTTGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTT
66 ACCTATAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTT
* *
193829 AAAGCCTCTGGGTCATCTATAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAG
1 AAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAG
*
193894 ACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTT
66 ACCTATAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTT
* *
193945 AAAGCCTCCGGGTCATCTGTAAGACCTACAGTTCAGGATGATAAGACCTCAGGGCCATCCATAAG
1 AAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAG
* * *
194010 ACCTATAGTGCAGGATGTTTTCAAAAAGCATTCGGGAGCTATTTGATATTT
66 ACCTATAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTT
* *
194061 AAAGCCTTCGGGTCATCTGTAAGACCTATAGTGCAAGATGATAAGACCT
1 AAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCT
194110 ACAGTGCATG
Statistics
Matches: 470, Mismatches: 41, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
115 104 0.22
116 285 0.61
117 4 0.01
119 77 0.16
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (116 bp):
AAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAG
ACCTATAGTGCAGGATGTTTTCAAAAAGCCTTCAGGAGCTTTTTGATATTT
Found at i:193875 original size:22 final size:21
Alignment explanation
Indices: 193847--193906 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
193837 TGGGTCATCT
193847 ATAAGACCTACAGTGCAAGATG
1 ATAAGACCTACAGTGC-AGATG
* * *
193869 ATAAGACCT-CAGGGC-CATCC
1 ATAAGACCTACAGTGCAGAT-G
193889 ATAAGACCTACAGTGCAG
1 ATAAGACCTACAGTGCAG
193907 GATGTTTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.07
20 9 0.30
21 10 0.33
22 9 0.30
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
ATAAGACCTACAGTGCAGATG
Done.