Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 58 of 168
Found at i:16557971 original size:23 final size:23
Alignment explanation
Indices: 16557941--16557996 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
16557931 CAGCCAGCCT
*
16557941 CTACACTCCAACTCTGTCCAACC
1 CTACACTCCAACTCCGTCCAACC
16557964 CTACACTCCAACTCCGTCCAACC
1 CTACACTCCAACTCCGTCCAACC
16557987 CTACACTCCA
1 CTACACTCCA
16557997 TGTGGGGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.27, C:0.50, G:0.04, T:0.20
Consensus pattern (23 bp):
CTACACTCCAACTCCGTCCAACC
Found at i:16563715 original size:173 final size:172
Alignment explanation
Indices: 16563426--16563770 Score: 654
Period size: 173 Copynumber: 2.0 Consensus size: 172
16563416 TATAAACTCA
16563426 TCAGTATTAGCAAGATGAATTGTCTTAATTGCATGATCTGAAATTAATTATTTAAACAAATAATC
1 TCAGTATTAGCAAGATGAATTGTCTTAATTGCATGATCTGAAATTAATTATTTAAACAAATAATC
**
16563491 CTGCAAATGACAGGTTGCAAGTTGGTAACACATATGTGATTATTTTGTAGATGTATCTACCAAAA
66 CTGCAAACAACAGGTTGCAAGTTGGTAACACATATGTGATTATTTTGTAGATGTATCTACCAAAA
16563556 TCATATAATATCAAAATCATCCACATTTTGGATGAATGAGCCC
131 TCATATAATATC-AAATCATCCACATTTTGGATGAATGAGCCC
16563599 TCAGTATTAGCAAGATGAATTGTCTTAATTGCATGATCTGAAATTAATTATTTAAACAAATAATC
1 TCAGTATTAGCAAGATGAATTGTCTTAATTGCATGATCTGAAATTAATTATTTAAACAAATAATC
*
16563664 TTGCAAACAACAGGTTGCAAGTTGGTAACACATATGTGATTATTTTGTAGATGTATCTACCAAAA
66 CTGCAAACAACAGGTTGCAAGTTGGTAACACATATGTGATTATTTTGTAGATGTATCTACCAAAA
16563729 TCATATAATATCAAATCATCCACATTTTGGATGAATGAGCCC
131 TCATATAATATCAAATCATCCACATTTTGGATGAATGAGCCC
16563771 ATATTCATTT
Statistics
Matches: 169, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
172 30 0.18
173 139 0.82
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (172 bp):
TCAGTATTAGCAAGATGAATTGTCTTAATTGCATGATCTGAAATTAATTATTTAAACAAATAATC
CTGCAAACAACAGGTTGCAAGTTGGTAACACATATGTGATTATTTTGTAGATGTATCTACCAAAA
TCATATAATATCAAATCATCCACATTTTGGATGAATGAGCCC
Found at i:16565243 original size:15 final size:16
Alignment explanation
Indices: 16565213--16565246 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
16565203 AGCATATTTA
16565213 ATAAAAATAATTTAATC
1 ATAAAAAT-ATTTAATC
16565230 ATAAAAAT-TTTAATC
1 ATAAAAATATTTAATC
16565245 AT
1 AT
16565247 CCAAATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAAAAATATTTAATC
Found at i:16567054 original size:2 final size:2
Alignment explanation
Indices: 16567049--16567086 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
16567039 TTTGTATACG
16567049 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16567087 GCCCTTTTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16572276 original size:31 final size:31
Alignment explanation
Indices: 16572237--16572317 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
16572227 GTATATGTTT
* *
16572237 TATACATTGTCGAATTTGATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
16572268 TATGCATTGCCGAATTTGATTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
16572299 TATACATTGCCGAATTTGA
1 TATACATTGCCGAATTTGA
16572318 ATTGCCGAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.44
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATAGA
Found at i:16572323 original size:14 final size:14
Alignment explanation
Indices: 16572304--16572335 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
16572294 ATAGATATAC
16572304 ATTGCCGAATTTGA
1 ATTGCCGAATTTGA
16572318 ATTGCCGAATTTGA
1 ATTGCCGAATTTGA
16572332 ATTG
1 ATTG
16572336 TTTATAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (14 bp):
ATTGCCGAATTTGA
Found at i:16572337 original size:45 final size:45
Alignment explanation
Indices: 16572273--16572366 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
16572263 ATAGATATGC
*
16572273 ATTGCCGAATTTGATTTGTTTATAGATATACATTGCCGAATTTGA
1 ATTGCCGAATTTGAATTGTTTATAGATATACATTGCCGAATTTGA
16572318 ATTGCCGAATTTGAATTGTTTATAGATATACATTGCCGAATTTGA
1 ATTGCCGAATTTGAATTGTTTATAGATATACATTGCCGAATTTGA
16572363 ATTG
1 ATTG
16572367 TTTATAGATA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (45 bp):
ATTGCCGAATTTGAATTGTTTATAGATATACATTGCCGAATTTGA
Found at i:16572353 original size:31 final size:31
Alignment explanation
Indices: 16572318--16572705 Score: 496
Period size: 31 Copynumber: 12.6 Consensus size: 31
16572308 CCGAATTTGA
* *
16572318 ATTGCCGAATTTGAATTGTTTATAGATATAC
1 ATTGCCGAATTTGATTTGTATATAGATATAC
* *
16572349 ATTGCCGAATTTGAATTGTTTATAGATATAC
1 ATTGCCGAATTTGATTTGTATATAGATATAC
16572380 ATTGCCGAA-TTGATTTGTATATAGATATAC
1 ATTGCCGAATTTGATTTGTATATAGATATAC
* * * *
16572410 ACTGTCGAATTTGATTTGTATATGGTTATAC
1 ATTGCCGAATTTGATTTGTATATAGATATAC
* * *
16572441 ATTACCGAATTTGATTTGCATATGGATATAC
1 ATTGCCGAATTTGATTTGTATATAGATATAC
16572472 ATTGCCGAA-TTGATTTGTATATAGATATAC
1 ATTGCCGAATTTGATTTGTATATAGATATAC
16572502 ATTGCCGAATTTGATTTGTATATAGATATAC
1 ATTGCCGAATTTGATTTGTATATAGATATAC
* *
16572533 ATTGCCAAATTTGATTTGTATATAGATAAAC
1 ATTGCCGAATTTGATTTGTATATAGATATAC
* * *
16572564 ATTGCCGAATTTTATTTGTATATGGTTATAC
1 ATTGCCGAATTTGATTTGTATATAGATATAC
* * * * *
16572595 ATTGCCAAATTTGTTTTTTATATGGATATTC
1 ATTGCCGAATTTGATTTGTATATAGATATAC
* *
16572626 ATTGCCG-AGTTGATTTTTATATAGATATAC
1 ATTGCCGAATTTGATTTGTATATAGATATAC
* * *
16572656 ATTGTCGAATTTGATTTGTATATGGATATATAT
1 ATTGCCGAATTTGATTTGTATAT--AGATATAC
16572689 ATTGCCGAA-TTGATTTG
1 ATTGCCGAATTTGATTTG
16572706 AGCATTGGAT
Statistics
Matches: 314, Mismatches: 38, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
30 79 0.25
31 213 0.68
32 8 0.03
33 14 0.04
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (31 bp):
ATTGCCGAATTTGATTTGTATATAGATATAC
Found at i:16572373 original size:76 final size:76
Alignment explanation
Indices: 16572242--16572390 Score: 262
Period size: 76 Copynumber: 2.0 Consensus size: 76
16572232 TGTTTTATAC
* * * *
16572242 ATTGTCGAATTTGATTTGTTTATAGATATGCATTGCCGAATTTGATTTGTTTATAGATATACATT
1 ATTGCCGAATTTGAATTGTTTATAGATATACATTGCCGAATTTGAATTGTTTATAGATATACATT
16572307 GCCGAATTTGA
66 GCCGAATTTGA
16572318 ATTGCCGAATTTGAATTGTTTATAGATATACATTGCCGAATTTGAATTGTTTATAGATATACATT
1 ATTGCCGAATTTGAATTGTTTATAGATATACATTGCCGAATTTGAATTGTTTATAGATATACATT
16572383 GCCGAATT
66 GCCGAATT
16572391 GATTTGTATA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (76 bp):
ATTGCCGAATTTGAATTGTTTATAGATATACATTGCCGAATTTGAATTGTTTATAGATATACATT
GCCGAATTTGA
Found at i:16572480 original size:92 final size:93
Alignment explanation
Indices: 16572318--16572705 Score: 496
Period size: 92 Copynumber: 4.2 Consensus size: 93
16572308 CCGAATTTGA
* * * *
16572318 ATTGCCGAATTTGAATTGTTTATAGATATACATTGCCGAATTTGAATTGTTTATAGATATACATT
1 ATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGATATACATT
16572383 GCCGAA-TTGATTTGTATATAGATATAC
66 GCCGAATTTGATTTGTATATAGATATAC
* * * * * * *
16572410 ACTGTCGAATTTGATTTGTATATGGTTATACATTACCGAATTTGATTTGCATATGGATATACATT
1 ATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGATATACATT
16572475 GCCGAA-TTGATTTGTATATAGATATAC
66 GCCGAATTTGATTTGTATATAGATATAC
* *
16572502 ATTGCCGAATTTGATTTGTATATAGATATACATTGCCAAATTTGATTTGTATATAGATAAACATT
1 ATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGATATACATT
* * *
16572567 GCCGAATTTTATTTGTATATGGTTATAC
66 GCCGAATTTGATTTGTATATAGATATAC
* * * * * * *
16572595 ATTGCCAAATTTGTTTTTTATATGGATATTCATTGCCG-AGTTGATTTTTATATAGATATACATT
1 ATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGATATACATT
* * *
16572659 GTCGAATTTGATTTGTATATGGATATATAT
66 GCCGAATTTGATTTGTATAT--AGATATAC
16572689 ATTGCCGAA-TTGATTTG
1 ATTGCCGAATTTGATTTG
16572706 AGCATTGGAT
Statistics
Matches: 252, Mismatches: 41, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
92 184 0.73
93 56 0.22
94 12 0.05
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (93 bp):
ATTGCCGAATTTGATTTGTATATAGATATACATTGCCGAATTTGATTTGTATATAGATATACATT
GCCGAATTTGATTTGTATATAGATATAC
Found at i:16572544 original size:123 final size:123
Alignment explanation
Indices: 16572318--16572705 Score: 528
Period size: 123 Copynumber: 3.1 Consensus size: 123
16572308 CCGAATTTGA
* * * * *
16572318 ATTGCCGAATTTGAATTGTTTATAGATATACATTGCCGAATTTGAATTGTTTATAGATATACATT
1 ATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTTGATTTGTATATAGATATACATT
*
16572383 GCCGAATTGATTTGTATATAGATATACACTGTCGAATTTGATTTGTATATGGTTATAC
66 GCCGAATTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATGGTTATAC
* *
16572441 ATTACCGAATTTGATTTGCATATGGATATACATTGCCGAA-TTGATTTGTATATAGATATACATT
1 ATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTTGATTTGTATATAGATATACATT
* * * * *
16572505 GCCGAATTTGATTTGTATATAGATATACATTGCCAAATTTGATTTGTATATAGATAAAC
66 GCCGAA-TTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATGGTTATAC
* * * * * * *
16572564 ATTGCCGAATTTTATTTGTATATGGTTATACATTGCCAAATTTGTTTTTTATATGGATATTCATT
1 ATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTTGATTTGTATATAGATATACATT
* * *
16572629 GCCGAGTTGATTTTTATATAGATATACATTGTCGAATTTGATTTGTATATGGATATATAT
66 GCCGAATTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATGG-T-TATAC
16572689 ATTGCCGAA-TTGATTTG
1 ATTGCCGAATTTGATTTG
16572706 AGCATTGGAT
Statistics
Matches: 230, Mismatches: 31, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
122 28 0.12
123 158 0.69
124 32 0.14
125 12 0.05
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (123 bp):
ATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTTGATTTGTATATAGATATACATT
GCCGAATTGATTTGTATATAGATATACATTGTCGAATTTGATTTGTATATGGTTATAC
Found at i:16577945 original size:13 final size:12
Alignment explanation
Indices: 16577925--16577971 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
16577915 TAAAACATCT
16577925 TTTCTTTTTCTC
1 TTTCTTTTTCTC
*
16577937 TTTCATTTT-TC
1 TTTCTTTTTCTC
** *
16577948 TTTCACTTTCTT
1 TTTCTTTTTCTC
16577960 TTTCTTTTTCTC
1 TTTCTTTTTCTC
16577972 CGCTCTTGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTCTTTTTCTC
Found at i:16577956 original size:17 final size:16
Alignment explanation
Indices: 16577931--16577966 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16577921 ATCTTTTCTT
*
16577931 TTTCTCTTTCATTTTTC
1 TTTCACTTTC-TTTTTC
16577948 TTTCACTTTCTTTTTC
1 TTTCACTTTCTTTTTC
16577964 TTT
1 TTT
16577967 TTCTCCGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTCACTTTCTTTTTC
Found at i:16582041 original size:27 final size:27
Alignment explanation
Indices: 16581981--16582099 Score: 170
Period size: 27 Copynumber: 4.4 Consensus size: 27
16581971 CTCCAAAATA
16581981 TTATAAAATGACTATTATGCCCTCATATG
1 TTATAAAATGACTATTATGCCC-C-TATG
* *
16582010 --GTAAAAGGACTATTATGCCCCTATG
1 TTATAAAATGACTATTATGCCCCTATG
**
16582035 TTATAAAATGACGGTTATGCCCCTATG
1 TTATAAAATGACTATTATGCCCCTATG
16582062 TTATAAAATGACTATTATGCCCCTATG
1 TTATAAAATGACTATTATGCCCCTATG
16582089 TTATAAAATGA
1 TTATAAAATGA
16582100 ATGTATACTT
Statistics
Matches: 80, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
25 4 0.05
26 1 0.01
27 75 0.94
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (27 bp):
TTATAAAATGACTATTATGCCCCTATG
Found at i:16582420 original size:34 final size:31
Alignment explanation
Indices: 16582382--16582456 Score: 96
Period size: 34 Copynumber: 2.3 Consensus size: 31
16582372 TATTACTGTC
*
16582382 ACTGTAATGGGCTAGGGCCCACACTAATACTGA
1 ACTGTAATGGGCTAAGGCCCA-ACTAA-ACTGA
*
16582415 TACTGTAATGGGCTAAGGCCCAACTGAACTGA
1 -ACTGTAATGGGCTAAGGCCCAACTAAACTGA
16582447 ACTGTTAATG
1 ACTG-TAATG
16582457 AATTGGGCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 4 0.11
32 10 0.26
33 4 0.11
34 20 0.53
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (31 bp):
ACTGTAATGGGCTAAGGCCCAACTAAACTGA
Found at i:16586275 original size:20 final size:20
Alignment explanation
Indices: 16586250--16586288 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16586240 CATTTAATTT
16586250 AATTTAATATTAAAATAATC
1 AATTTAATATTAAAATAATC
*
16586270 AATTTAATATTAAATTAAT
1 AATTTAATATTAAAATAAT
16586289 AAAATACTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTAATATTAAAATAATC
Found at i:16586326 original size:37 final size:36
Alignment explanation
Indices: 16586257--16586348 Score: 96
Period size: 37 Copynumber: 2.4 Consensus size: 36
16586247 TTTAATTTAA
*
16586257 TATTAAAATAATCAATTTAATATTAAATTAATA-AAATAC
1 TATTAAAATAAT--ATTAAAT-TTAAATTAATATAAA-AC
* * *
16586296 TATTAAGATAAGTATTAAATTTAATTTAATATTAAAC
1 TATTAAAATAA-TATTAAATTTAAATTAATATAAAAC
16586333 TATTAAAATAATATTA
1 TATTAAAATAATATTA
16586349 TTTTTGGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
36 5 0.11
37 22 0.48
38 8 0.17
39 10 0.22
40 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (36 bp):
TATTAAAATAATATTAAATTTAAATTAATATAAAAC
Found at i:16588677 original size:15 final size:15
Alignment explanation
Indices: 16588638--16588667 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16588628 TATACATGTA
*
16588638 AAATATAAAAGACAT
1 AAATACAAAAGACAT
16588653 AAATACAAAAGACAT
1 AAATACAAAAGACAT
16588668 GATAGCAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:16601168 original size:127 final size:125
Alignment explanation
Indices: 16600883--16601320 Score: 589
Period size: 124 Copynumber: 3.5 Consensus size: 125
16600873 GATAAAATCA
* * * * * * *
16600883 AAGCAGGATGATTTATCAGAAGGATTTTTTAAGTCGCACCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGT
*
16600948 AGGTCCT-GAAAAATAA-TTCTGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTC-GAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
16601007 AAGCAGGATGCTTTATGAGAAGAATTTTTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGT
* *
16601072 TGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
* * *
16601134 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGAGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAG
* * * * *
16601198 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAACAATAT-AAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
16601258 TAA-CAGGATGCTTTGTGAGAGGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACA
1 -AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACA
16601321 ATAGCATGTT
Statistics
Matches: 284, Mismatches: 23, Indels: 14
0.88 0.07 0.04
Matches are distributed among these distances:
123 2 0.01
124 124 0.44
125 8 0.03
126 69 0.24
127 79 0.28
128 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:16604459 original size:22 final size:22
Alignment explanation
Indices: 16604434--16604572 Score: 110
Period size: 22 Copynumber: 6.2 Consensus size: 22
16604424 AATGTTAATT
16604434 GTTAAGGGGTTAGGGTTTTTAA
1 GTTAAGGGGTTAGGGTTTTTAA
* *
16604456 GTTAAGGGTTAAGGTTATGGTTTTTAG
1 GTTAA-GG----GGTTAGGGTTTTTAA
*
16604483 GTTAAGGTGTTAGGG---TTAA
1 GTTAAGGGGTTAGGGTTTTTAA
*
16604502 GGGTT-A-GGGTTAGGGTTTTTAG
1 --GTTAAGGGGTTAGGGTTTTTAA
* *
16604524 GTTAAGGGTTTAGGGTTTTTAG
1 GTTAAGGGGTTAGGGTTTTTAA
16604546 GTTAAGGGGTTAGGGTTTGTTAA
1 GTTAAGGGGTTAGGGTTT-TTAA
16604569 -TTAA
1 GTTAA
16604573 ATTTTTAATA
Statistics
Matches: 94, Mismatches: 10, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
19 11 0.12
20 4 0.04
21 4 0.04
22 50 0.53
23 5 0.05
26 2 0.02
27 18 0.19
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.42
Consensus pattern (22 bp):
GTTAAGGGGTTAGGGTTTTTAA
Found at i:16604479 original size:27 final size:28
Alignment explanation
Indices: 16604441--16604506 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
16604431 ATTGTTAAGG
16604441 GGTTAGGGTTTTTAAGTTAAGG-GTTAA
1 GGTTAGGGTTTTTAAGTTAAGGTGTTAA
* * *
16604468 GGTTATGGTTTTTAGGTTAAGGTGTTAG
1 GGTTAGGGTTTTTAAGTTAAGGTGTTAA
16604496 GGTTAAGGGTT
1 GGTT-AGGGTT
16604507 AGGGTTAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 20 0.61
28 8 0.24
29 5 0.15
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.42
Consensus pattern (28 bp):
GGTTAGGGTTTTTAAGTTAAGGTGTTAA
Found at i:16604486 original size:41 final size:42
Alignment explanation
Indices: 16604441--16604534 Score: 120
Period size: 41 Copynumber: 2.3 Consensus size: 42
16604431 ATTGTTAAGG
*
16604441 GGTTAGGGTTTTTA-AGTTAAGGGTTAAGGTTATGGTTTTTA
1 GGTTAGGGTTTTTAGAGTTAAGGGTTAAGGTTAGGGTTTTTA
* * * *
16604482 GGTTAAGG-TGTTAGGGTTAAGGGTTAGGGTTAGGGTTTTTA
1 GGTTAGGGTTTTTAGAGTTAAGGGTTAAGGTTAGGGTTTTTA
16604523 GGTTAAGGGTTT
1 GGTT-AGGGTTT
16604535 AGGGTTTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 4 0.09
41 35 0.81
42 3 0.07
43 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (42 bp):
GGTTAGGGTTTTTAGAGTTAAGGGTTAAGGTTAGGGTTTTTA
Found at i:16604512 original size:27 final size:28
Alignment explanation
Indices: 16604478--16604540 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
16604468 GGTTATGGTT
16604478 TTTA-GGTTAAGG-TGTTAGGGTTAAGGG
1 TTTAGGGTTAAGGTTGTTA-GGTTAAGGG
* *
16604505 -TTAGGGTTAGGGTTTTTAGGTTAAGGG
1 TTTAGGGTTAAGGTTGTTAGGTTAAGGG
16604532 TTTAGGGTT
1 TTTAGGGTT
16604541 TTTAGGTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 3 0.10
27 16 0.52
28 12 0.39
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.41
Consensus pattern (28 bp):
TTTAGGGTTAAGGTTGTTAGGTTAAGGG
Found at i:16604537 original size:41 final size:41
Alignment explanation
Indices: 16604456--16604540 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
16604446 GGGTTTTTAA
*
16604456 GTTAAGGGTTAAGGTTATGGTTTTTAGGTTAAGGTGTTAGG
1 GTTAAGGGTTAAGGTTAGGGTTTTTAGGTTAAGGTGTTAGG
*
16604497 GTTAAGGGTTAGGGTTAGGGTTTTTAGGTTAAGG-GTTTAGG
1 GTTAAGGGTTAAGGTTAGGGTTTTTAGGTTAAGGTG-TTAGG
16604538 GTT
1 GTT
16604541 TTTAGGTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 1 0.02
41 40 0.98
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (41 bp):
GTTAAGGGTTAAGGTTAGGGTTTTTAGGTTAAGGTGTTAGG
Found at i:16604805 original size:21 final size:21
Alignment explanation
Indices: 16604766--16604806 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16604756 TTTGTCTAGC
*
16604766 TTCCGGCGGCGGTTGTGGTTA
1 TTCCGGCGGCGGTTCTGGTTA
16604787 TTCCGGCGG-GGATTCTGGTT
1 TTCCGGCGGCGG-TTCTGGTT
16604807 CTTTCGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.05, C:0.20, G:0.41, T:0.34
Consensus pattern (21 bp):
TTCCGGCGGCGGTTCTGGTTA
Found at i:16605812 original size:20 final size:20
Alignment explanation
Indices: 16605775--16605812 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16605765 TTTATTTTTA
*
16605775 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
16605795 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
16605813 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:16606744 original size:10 final size:10
Alignment explanation
Indices: 16606705--16606742 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
16606695 ATTTTTACGG
16606705 TTTAAAAAAA
1 TTTAAAAAAA
16606715 TTTAAAAAAA
1 TTTAAAAAAA
16606725 -TTAAAAAATA
1 TTTAAAAAA-A
16606735 TTTAAAAA
1 TTTAAAAA
16606743 TAGGGATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 8 0.31
10 11 0.42
11 7 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:16606813 original size:11 final size:12
Alignment explanation
Indices: 16606799--16606844 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
16606789 TTAAATATGG
16606799 ATTTGAGA-GAA
1 ATTTGAGAGGAA
16606810 ATTTG-GAAGGAA
1 ATTTGAG-AGGAA
*
16606822 TTTTGAGAGGAA
1 ATTTGAGAGGAA
16606834 ATTTGAGAGGA
1 ATTTGAGAGGA
16606845 TTAGTTTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 22 0.73
13 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.28
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:16606821 original size:51 final size:53
Alignment explanation
Indices: 16606740--16606841 Score: 129
Period size: 51 Copynumber: 2.0 Consensus size: 53
16606730 AAATATTTAA
16606740 AAATAGGGATTTAAGAGAAATTTAAGAGGAA-CTTGAGA-GAAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAAGAGGAATCTTGAGAGGAAAATTGAGATT
* * * * *
16606791 AAATATGGATTTGAGAGAAATTT-GGAAGGAATTTTGAGAGGAAATTTGAGA
1 AAATAGGGATTTAAGAGAAATTTAAG-AGGAATCTTGAGAGGAAAATTGAGA
16606842 GGATTAGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
50 1 0.02
51 26 0.60
52 6 0.14
53 10 0.23
ACGTcount: A:0.44, C:0.01, G:0.27, T:0.27
Consensus pattern (53 bp):
AAATAGGGATTTAAGAGAAATTTAAGAGGAATCTTGAGAGGAAAATTGAGATT
Found at i:16610348 original size:20 final size:22
Alignment explanation
Indices: 16610310--16610351 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
16610300 CCGGCCCGAT
16610310 TTTTAATAAATACAAAAAAATA
1 TTTTAATAAATACAAAAAAATA
16610332 TTTTAA-AAATA-AAAAAAATA
1 TTTTAATAAATACAAAAAAATA
16610352 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 5 0.25
22 6 0.30
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
TTTTAATAAATACAAAAAAATA
Found at i:16611786 original size:2 final size:2
Alignment explanation
Indices: 16611779--16611808 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
16611769 TCAAGAAATC
16611779 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16611809 AGGTCTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16628222 original size:39 final size:38
Alignment explanation
Indices: 16628155--16628233 Score: 104
Period size: 39 Copynumber: 2.1 Consensus size: 38
16628145 ATGAACTTAT
* * * *
16628155 GCAATGTTTTTTCTTCGTGCAATTTGAGAAAGAAGAAG
1 GCAATGTTTTTTCTTCATACAATGTGAGAAAGAAAAAG
*
16628193 GCAATGTTTTTTTCTTCATATAATGTGAGAAAGAAAAAG
1 GCAATG-TTTTTTCTTCATACAATGTGAGAAAGAAAAAG
16628232 GC
1 GC
16628234 TACTATCTGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
38 6 0.17
39 29 0.83
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (38 bp):
GCAATGTTTTTTCTTCATACAATGTGAGAAAGAAAAAG
Found at i:16632275 original size:23 final size:23
Alignment explanation
Indices: 16632249--16632337 Score: 99
Period size: 23 Copynumber: 3.8 Consensus size: 23
16632239 TACCATCTGG
16632249 ACACAACCAAATATACCCTCCAA
1 ACACAACCAAATATACCCTCCAA
* * *
16632272 ACACAACCATATATATAACCTTCGA
1 ACACAACCA-A-ATATACCCTCCAA
* *
16632297 ACAAAACCAAGTATACCCTCCAA
1 ACACAACCAAATATACCCTCCAA
*
16632320 ACACAACC-ACTATACCCT
1 ACACAACCAAATATACCCT
16632338 TCAACCAAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
22 9 0.17
23 25 0.46
24 2 0.04
25 18 0.33
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.17
Consensus pattern (23 bp):
ACACAACCAAATATACCCTCCAA
Found at i:16632574 original size:6 final size:6
Alignment explanation
Indices: 16632560--16632693 Score: 225
Period size: 6 Copynumber: 22.2 Consensus size: 6
16632550 ATAATAAAAT
*
16632560 AAAATA AAAACA AAAACA AAAACA AAAACAA AAAACA AAAACA AAAACA
1 AAAACA AAAACA AAAACA AAAACA AAAAC-A AAAACA AAAACA AAAACA
16632609 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA
*
16632657 AAAACA AAAACA AAAGCA AAATA-A AAAACA AAAACA A
1 AAAACA AAAACA AAAACA AAA-ACA AAAACA AAAACA A
16632694 TAATAAATGA
Statistics
Matches: 122, Mismatches: 3, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
5 1 0.01
6 115 0.94
7 6 0.05
ACGTcount: A:0.83, C:0.15, G:0.01, T:0.01
Consensus pattern (6 bp):
AAAACA
Found at i:16632575 original size:1 final size:1
Alignment explanation
Indices: 16632555--16632690 Score: 65
Period size: 1 Copynumber: 136.0 Consensus size: 1
16632545 AGTGCATAAT
* * * * * * * * * * *
16632555 AAAATAAAATAAAAACAAAAACAAAAACAAAAACAAAAAACAAAAACAAAAACAAAAACAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * * ** *
16632620 AAAAACAAAAACAAAAACAAAAACAAAAACAAAAACAAAAACAAAAACAAAAGCAAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
16632685 CAAAAA
1 AAAAAA
16632691 CAATAATAAA
Statistics
Matches: 90, Mismatches: 45, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
1 90 1.00
ACGTcount: A:0.83, C:0.14, G:0.01, T:0.02
Consensus pattern (1 bp):
A
Found at i:16644215 original size:51 final size:50
Alignment explanation
Indices: 16644039--16644372 Score: 329
Period size: 51 Copynumber: 6.6 Consensus size: 50
16644029 TCATTCGATA
* * *
16644039 CACGTAGTAGCCTTTACATAGTACTACACACGTGATCAAG-TTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAGCTTTT-CGGTT
* * *
16644089 CACGCAGTAGCCTTCACATAGTACTACTCATGTGATCAAG-TTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAGCTTTT-CGGTT
*
16644139 CACGTAATAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTTCGGTAT
1 CACGTAGTAGCCTTCACATAGTACTACACATGTGACC-AAGCTTTTCGGT-T
* * * * *
16644191 -ACATAGTAGCCTTCACTTAGTACTACACATGTAACC-ATCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAGC-TTT-TCGGTT
* * ** *
16644241 CACGTAGTAGCCTTCACACAATACTACACACATGACCAAAGCTTCTC-GTT
1 CACGTAGTAGCCTTCACATAGTACTACACATGTGACC-AAGCTTTTCGGTT
* * * * *
16644291 ACACATTGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATTTATCGATT
1 -CACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAGC-TTT-TCGGTT
*
16644343 CACGTAGTAGCCTTCACACAGTACTACACA
1 CACGTAGTAGCCTTCACATAGTACTACACA
16644373 CGTATTCATC
Statistics
Matches: 234, Mismatches: 38, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
49 4 0.02
50 87 0.37
51 132 0.56
52 9 0.04
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACATGTGACCAAGCTTTTCGGTT
Found at i:16644269 original size:102 final size:102
Alignment explanation
Indices: 16644033--16644375 Score: 433
Period size: 102 Copynumber: 3.4 Consensus size: 102
16644023 ACTTTATCAT
* * * * **
16644033 TCGATACACGTAGTAGCCTTTACATAGTACTACACACGTGATC-AAG-TTTTACGGT-TCACGCA
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGGTAT-ACATA
* * * ***
16644095 GTAGCCTTCACATAGTACTACTCATGTGATCAAGTTTTA
64 GTAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
16644134 -CGGTTCACGTAATAGCCTTCACATAGTACTACACATGTGACCAAAGCTTTTCGGTATACATAGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTATACATAGT
*
16644198 AGCCTTCACTTAGTACTACACATGTAACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * * *
16644235 TCGATTCACGTAGTAGCCTTCACACAATACTACACACATGACCAAAGCTTCTCGTTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTATACATAGT
16644300 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
16644337 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGT
16644376 ATTCATCGAT
Statistics
Matches: 210, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
100 36 0.17
101 42 0.20
102 132 0.63
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGGTATACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:16650636 original size:21 final size:18
Alignment explanation
Indices: 16650609--16650660 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 18
16650599 TACTGTTGAG
16650609 AAGGAAGTTGCTGCTGCATA
1 AAGGAAGTTGCTGCTG-A-A
*
16650629 AGAGGAAGTTGTTGCTGAA
1 A-AGGAAGTTGCTGCTGAA
*
16650648 AAAGAAGTTGCTG
1 AAGGAAGTTGCTG
16650661 AAGATGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 10 0.36
19 2 0.07
20 2 0.07
21 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.33, T:0.25
Consensus pattern (18 bp):
AAGGAAGTTGCTGCTGAA
Found at i:16654435 original size:42 final size:42
Alignment explanation
Indices: 16654378--16654463 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
16654368 ATTTACAAAC
16654378 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
16654420 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
16654462 AA
1 AA
16654464 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:16659116 original size:9 final size:9
Alignment explanation
Indices: 16659104--16659525 Score: 234
Period size: 9 Copynumber: 47.9 Consensus size: 9
16659094 ATTAAGTCAA
16659104 TTATGTAAG
1 TTATGTAAG
*
16659113 TTATGTACG
1 TTATGTAAG
16659122 TGTA--TAAG
1 T-TATGTAAG
16659130 TTATGTAAG
1 TTATGTAAG
16659139 TTATGT-A-
1 TTATGTAAG
*
16659146 TTAAGTAAG
1 TTATGTAAG
16659155 TTATGTAAG
1 TTATGTAAG
**
16659164 TTATCAAAG
1 TTATGTAAG
* *
16659173 TAATGTATG
1 TTATGTAAG
16659182 TTATGTAAG
1 TTATGTAAG
16659191 TT-T-TAAG
1 TTATGTAAG
*
16659198 TTAT-TATG
1 TTATGTAAG
16659206 TATTATGTAAG
1 --TTATGTAAG
16659217 TTATGTAAG
1 TTATGTAAG
*
16659226 CTATGTAAG
1 TTATGTAAG
16659235 TTGAATGT-A-
1 TT--ATGTAAG
16659244 TTATGTAAG
1 TTATGTAAG
*
16659253 TTAT-TATG
1 TTATGTAAG
16659261 TATTATGTAAG
1 --TTATGTAAG
16659272 -T-TGTAAG
1 TTATGTAAG
16659279 TTAAATGT-A-
1 TT--ATGTAAG
16659288 TTATGTAAG
1 TTATGTAAG
16659297 -T-TGTAAG
1 TTATGTAAG
*
16659304 TTAT-TATG
1 TTATGTAAG
16659312 TATTATGTAAG
1 --TTATGTAAG
*
16659323 TTATTTAAG
1 TTATGTAAG
**
16659332 TTACCTAAG
1 TTATGTAAG
16659341 TTAAATGT-A-
1 TT--ATGTAAG
16659350 TTATGTAAG
1 TTATGTAAG
*
16659359 TTATTTAAG
1 TTATGTAAG
**
16659368 TTACCTAAG
1 TTATGTAAG
16659377 TTAAATGT-A-
1 TT--ATGTAAG
16659386 TTATGTAAG
1 TTATGTAAG
*
16659395 TTGTATG-AAT
1 -T-TATGTAAG
16659405 TTATGT-A-
1 TTATGTAAG
16659412 TTATGTAAG
1 TTATGTAAG
16659421 TTATGTAAG
1 TTATGTAAG
16659430 TTAAATGT-A-
1 TT--ATGTAAG
*
16659439 TTATGTAGG
1 TTATGTAAG
16659448 TTATGTAAG
1 TTATGTAAG
*
16659457 TTGTGTAAG
1 TTATGTAAG
** *
16659466 AGATTTAAG
1 TTATGTAAG
*
16659475 TTATGTGAG
1 TTATGTAAG
*
16659484 TTTTGT-A-
1 TTATGTAAG
16659491 TTATGTAAG
1 TTATGTAAG
* *
16659500 TTATTTAGG
1 TTATGTAAG
16659509 TTATGTAAG
1 TTATGTAAG
*
16659518 TTTTGTAA
1 TTATGTAA
16659526 TGTACAAGTG
Statistics
Matches: 318, Mismatches: 49, Indels: 92
0.69 0.11 0.20
Matches are distributed among these distances:
7 56 0.18
8 33 0.10
9 179 0.56
10 22 0.07
11 28 0.09
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:16659154 original size:42 final size:42
Alignment explanation
Indices: 16659103--16659188 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
16659093 TATTAAGTCA
* * *
16659103 ATTATGTAAGTTATGTACGTGTAT-AAGTTATGTAAGTTATGT
1 ATTAAGTAAGTTATGTAAGT-TATAAAGTAATGTAAGTTATGT
*
16659145 ATTAAGTAAGTTATGTAAGTTATCAAAGTAATGTATGTTATGT
1 ATTAAGTAAGTTATGTAAGTTAT-AAAGTAATGTAAGTTATGT
16659188 A
1 A
16659189 AGTTTTAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 3 0.08
42 18 0.47
43 17 0.45
ACGTcount: A:0.35, C:0.02, G:0.20, T:0.43
Consensus pattern (42 bp):
ATTAAGTAAGTTATGTAAGTTATAAAGTAATGTAAGTTATGT
Found at i:16659210 original size:62 final size:62
Alignment explanation
Indices: 16659126--16659269 Score: 172
Period size: 62 Copynumber: 2.3 Consensus size: 62
16659116 TGTACGTGTA
*
16659126 TAAGTTATGTAAG--TTATGTATTAAGTAAGTTATGTAAGTTATCAAAG-T-AATGTATGTTATG
1 TAAGTTAT-TAAGTATTATGTATTAAGTAAGTTATGTAAGCTATCAAAGTTGAATGTA--TTATG
* **
16659187 TAAGTT-TTAAGTTATTATGTATTATGTAAGTTATGTAAGCTATGTAAGTTGAATGTATTATG
1 TAAGTTATTAAG-TATTATGTATTAAGTAAGTTATGTAAGCTATCAAAGTTGAATGTATTATG
*
16659249 TAAGTTATTATGTATTATGTA
1 TAAGTTATTAAGTATTATGTA
16659270 AGTTGTAAGT
Statistics
Matches: 72, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
59 4 0.06
60 1 0.01
61 6 0.08
62 50 0.69
63 5 0.07
64 6 0.08
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (62 bp):
TAAGTTATTAAGTATTATGTATTAAGTAAGTTATGTAAGCTATCAAAGTTGAATGTATTATG
Found at i:16659231 original size:44 final size:42
Alignment explanation
Indices: 16659183--16659298 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 42
16659173 TAATGTATGT
16659183 TATGTAAGTTTTAAGTTATTATGTATTATGTAAGTTATGTAAGC
1 TATGTAAGTTTTAAGTTATTATGTATTATGTAAGTTATGT-A-C
* * *
16659227 TATGTAAG-TTGAA-TGTATTATGTA--A-GTTA-TTATGTAT
1 TATGTAAGTTTTAAGT-TATTATGTATTATGTAAGTTATGTAC
* *
16659264 TATGTAAGTTGTAAGTTA-AATGTATTATGTAAGTT
1 TATGTAAGTTTTAAGTTATTATGTATTATGTAAGTT
16659299 GTAAGTTATT
Statistics
Matches: 58, Mismatches: 7, Indels: 17
0.71 0.09 0.21
Matches are distributed among these distances:
37 13 0.22
38 6 0.10
39 8 0.14
40 6 0.10
41 3 0.05
42 1 0.02
43 13 0.22
44 8 0.14
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (42 bp):
TATGTAAGTTTTAAGTTATTATGTATTATGTAAGTTATGTAC
Found at i:16659255 original size:55 final size:54
Alignment explanation
Indices: 16659088--16659363 Score: 216
Period size: 55 Copynumber: 5.0 Consensus size: 54
16659078 TGATATATAT
* * *
16659088 TTATGTATTAAGTCAA-TTATGTAAGTTATGTACGTGT-AT-AAGTTATGTAAGTTA
1 TTATGTATTATGT-AAGTTATGTAAGTTATGTAAGT-TAATGTA-TTATGTAAGTTA
** * *
16659142 TGTATTAAGTAAGTTATGTAAGTTATCAAAGTAATGTATGTT-ATGTAAGTT-T-TAAGTTA
1 T-TA-T--GT-A-TTATGTAAGTTATGTAAGTTATGTAAGTTAATGT-A-TTATGTAAGTTA
*
16659201 TTATGTATTATGTAAGTTATGTAAGCTATGTAAGTTGAATGTATTATGTAAGTTA
1 TTATGTATTATGTAAGTTATGTAAGTTATGTAAGTT-AATGTATTATGTAAGTTA
*
16659256 TTATGTATTATGTAAG-T-TGTAAGTTAAATGT-A-TT-ATGTAAGT-TGTAAGTTA
1 TTATGTATTATGTAAGTTATGTAAGTT--ATGTAAGTTAATGT-ATTATGTAAGTTA
* **
16659307 TTATGTATTATGTAAGTTATTTAAGTTACCTAAGTTAAATGTATTATGTAAGTTA
1 TTATGTATTATGTAAGTTATGTAAGTTATGTAAGTT-AATGTATTATGTAAGTTA
16659362 TT
1 TT
16659364 TAAGTTACCT
Statistics
Matches: 182, Mismatches: 17, Indels: 45
0.75 0.07 0.18
Matches are distributed among these distances:
51 31 0.17
52 4 0.02
53 44 0.24
54 8 0.04
55 50 0.27
56 1 0.01
57 1 0.01
58 4 0.02
59 14 0.08
60 21 0.12
61 4 0.02
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (54 bp):
TTATGTATTATGTAAGTTATGTAAGTTATGTAAGTTAATGTATTATGTAAGTTA
Found at i:16659309 original size:44 final size:46
Alignment explanation
Indices: 16659217--16659451 Score: 153
Period size: 44 Copynumber: 4.9 Consensus size: 46
16659207 ATTATGTAAG
* *
16659217 TTATGTAAGCTATGTAAGTTGAATGTATTATGTAAGTTATTATGTA
1 TTATGTAAGCTATGTAAGTTAAATGTATTATGTAAGTTATAATGTA
*
16659263 TTATGTAAG-T-TGTAAGTTAAATGTATTATGTAAGTTGTAA-GTTA
1 TTATGTAAGCTATGTAAGTTAAATGTATTATGTAAGTTATAATG-TA
* * **
16659307 TTATGT-A-TTATGTAAGTT--ATTTAAGTTACCTAAGTTA-AATGTA
1 TTATGTAAGCTATGTAAGTTAAATGT-A-TTATGTAAGTTATAATGTA
*
16659350 TTATGTAAGTTATTTAAGTTACCTAAGTTAAATGTATTATGTAAGTTGTATGAATTTATGTA
1 TTATGTAAGCTA--T--G-----TAAGTTAAATGTATTATGTAAG-T-TAT--A---ATGTA
* *
16659412 TTATGTAAGTTATGTAAGTTAAATGTATTATGTAGGTTAT
1 TTATGTAAGCTATGTAAGTTAAATGTATTATGTAAGTTAT
16659452 GTAAGTTGTG
Statistics
Matches: 151, Mismatches: 11, Indels: 49
0.72 0.05 0.23
Matches are distributed among these distances:
42 3 0.02
43 14 0.09
44 54 0.36
45 4 0.03
46 9 0.06
47 1 0.01
49 1 0.01
51 3 0.02
52 1 0.01
53 21 0.14
54 13 0.09
55 2 0.01
56 5 0.03
58 1 0.01
59 1 0.01
60 1 0.01
62 17 0.11
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (46 bp):
TTATGTAAGCTATGTAAGTTAAATGTATTATGTAAGTTATAATGTA
Found at i:16659452 original size:62 final size:61
Alignment explanation
Indices: 16659254--16659460 Score: 194
Period size: 62 Copynumber: 3.4 Consensus size: 61
16659244 TTATGTAAGT
* **
16659254 TATTATGTATTATGTAAGTTGTA-AGTTAAATGTATTATGTAAG-T-TGTAAGTTATTATG
1 TATTATGTATTATGTAAGTTGTATAATTAAATGTATTATGTAAGTTATGTAAGTTACAATG
* *** *
16659312 TATTATGTAAGTTATTTAAGTTACCTAAGTTAAATGTATTATGTAAGTTATTTAAGTTACCTAA-
1 TATTATGT-A-TTATGTAAGTTGTATAA-TTAAATGTATTATGTAAGTTATGTAAGTTA-C-AAT
16659376 G
61 G
* *
16659377 T-TAAATGTATTATGTAAGTTGTATGAATT-TATGTATTATGTAAGTTATGTAAGTTA-AATG
1 TAT-TATGTATTATGTAAGTTGTAT-AATTAAATGTATTATGTAAGTTATGTAAGTTACAATG
16659437 TATTATGTAGGTTATGTAAGTTGT
1 TATTATGTA--TTATGTAAGTTGT
16659461 GTAAGAGATT
Statistics
Matches: 119, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
58 8 0.07
59 3 0.03
60 17 0.14
61 2 0.02
62 56 0.47
63 14 0.12
64 12 0.10
65 6 0.05
66 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (61 bp):
TATTATGTATTATGTAAGTTGTATAATTAAATGTATTATGTAAGTTATGTAAGTTACAATG
Found at i:16660837 original size:31 final size:32
Alignment explanation
Indices: 16660770--16660854 Score: 120
Period size: 31 Copynumber: 2.7 Consensus size: 32
16660760 GAGCTATTTC
* *
16660770 CCAT-TTAGCAGCAGAAATCAATAGAAGCAGTA
1 CCATCTTAGCAGCAAAAACCAATAGAAG-AGTA
16660802 CCATCTTAGCAGCAAAAACCAATAGAAG-GTA
1 CCATCTTAGCAGCAAAAACCAATAGAAGAGTA
*
16660833 CCATCTTAGCTGCAAAAACCAA
1 CCATCTTAGCAGCAAAAACCAA
16660855 CTAAAATCCA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
31 24 0.49
32 4 0.08
33 21 0.43
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.18
Consensus pattern (32 bp):
CCATCTTAGCAGCAAAAACCAATAGAAGAGTA
Found at i:16661578 original size:20 final size:20
Alignment explanation
Indices: 16661553--16661652 Score: 182
Period size: 20 Copynumber: 5.0 Consensus size: 20
16661543 AAGAGATGAA
16661553 GAAAGGATGAGGGGAAATCG
1 GAAAGGATGAGGGGAAATCG
*
16661573 GAAAGGATGAGGGGAAATCA
1 GAAAGGATGAGGGGAAATCG
16661593 GAAAGGATGAGGGGAAATCG
1 GAAAGGATGAGGGGAAATCG
*
16661613 GAAAGGATGAGGGGAAATCA
1 GAAAGGATGAGGGGAAATCG
16661633 GAAAGGATGAGGGGAAATCG
1 GAAAGGATGAGGGGAAATCG
16661653 CAGAAAGACT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.42, C:0.05, G:0.43, T:0.10
Consensus pattern (20 bp):
GAAAGGATGAGGGGAAATCG
Found at i:16661597 original size:40 final size:40
Alignment explanation
Indices: 16661552--16661652 Score: 202
Period size: 40 Copynumber: 2.5 Consensus size: 40
16661542 TAAGAGATGA
16661552 AGAAAGGATGAGGGGAAATCGGAAAGGATGAGGGGAAATC
1 AGAAAGGATGAGGGGAAATCGGAAAGGATGAGGGGAAATC
16661592 AGAAAGGATGAGGGGAAATCGGAAAGGATGAGGGGAAATC
1 AGAAAGGATGAGGGGAAATCGGAAAGGATGAGGGGAAATC
16661632 AGAAAGGATGAGGGGAAATCG
1 AGAAAGGATGAGGGGAAATCG
16661653 CAGAAAGACT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.43, C:0.05, G:0.43, T:0.10
Consensus pattern (40 bp):
AGAAAGGATGAGGGGAAATCGGAAAGGATGAGGGGAAATC
Found at i:16664136 original size:113 final size:114
Alignment explanation
Indices: 16663947--16664158 Score: 266
Period size: 113 Copynumber: 1.9 Consensus size: 114
16663937 CGTTTCTCTC
* * * *
16663947 AAAACGCCGCTATATCCCAATATTTTGCGGCGTTTTTTAATAAGCGCCACTAACTCTAATCCAAC
1 AAAACGCCGCTATATACCAATATTTAGCGGCGTTTTTTAATAAACGCCACTAACTCTAATACAAC
* *
16664012 TCAATACCAAACGGTGCGTTTTGGTTAAGATATTGGCGGCGCTTTTTGT
66 TCAAAACCAAACGCTGCGTTTTGGTTAAGATATTGGCGGCGCTTTTTGT
* * * ** * *
16664061 AAAACGCCGCTA-ATACCATTCTTTAGCGGTGTTTTTTCGTAAACGCCACTAA-TACTAATATAC
1 AAAACGCCGCTATATACCAATATTTAGCGGCGTTTTTTAATAAACGCCACTAACT-CTAATACAA
* *
16664124 CTCAAAATCAAACGCTGCGTTTTGGTTAAGGTATT
65 CTCAAAACCAAACGCTGCGTTTTGGTTAAGATATT
16664159 TTGCAGCGCT
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
112 1 0.01
113 69 0.84
114 12 0.15
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (114 bp):
AAAACGCCGCTATATACCAATATTTAGCGGCGTTTTTTAATAAACGCCACTAACTCTAATACAAC
TCAAAACCAAACGCTGCGTTTTGGTTAAGATATTGGCGGCGCTTTTTGT
Found at i:16667228 original size:16 final size:15
Alignment explanation
Indices: 16667207--16667236 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16667197 GGCAATCATC
16667207 ACATTAAAATGTTAAG
1 ACATTAAAAT-TTAAG
16667223 ACATTAAAATTTAA
1 ACATTAAAATTTAA
16667237 TTGCTTTAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (15 bp):
ACATTAAAATTTAAG
Found at i:16676628 original size:27 final size:27
Alignment explanation
Indices: 16676585--16676734 Score: 86
Period size: 27 Copynumber: 5.6 Consensus size: 27
16676575 ACTGATGACC
* * *
16676585 CTAGCTCGCAAGACCTACTGGTAAACA
1 CTAGCTCGCCAGGCCTACTGGCAAACA
* * *
16676612 CTAGCTCGCCTGGCCTATTGGCGAACA
1 CTAGCTCGCCAGGCCTACTGGCAAACA
* * *
16676639 CTAGCTCGTCAGGCCTA-TTGCGAACA
1 CTAGCTCGCCAGGCCTACTGGCAAACA
* ** * * *
16676665 CCAATTCGCTAGGCCTACTAGCGAACA
1 CTAGCTCGCCAGGCCTACTGGCAAACA
* ** * *
16676692 CCAATTTGCCAGGCCTACTGGCGAACA
1 CTAGCTCGCCAGGCCTACTGGCAAACA
* * *
16676719 CCAGCTTGCCAAGCCT
1 CTAGCTCGCCAGGCCT
16676735 CAAACTCCTA
Statistics
Matches: 101, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
26 20 0.20
27 81 0.80
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.20
Consensus pattern (27 bp):
CTAGCTCGCCAGGCCTACTGGCAAACA
Found at i:16678622 original size:18 final size:18
Alignment explanation
Indices: 16678601--16678636 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16678591 TAGTTACTTA
*
16678601 AGTTTAAACATCATTAAT
1 AGTTCAAACATCATTAAT
*
16678619 AGTTCGAACATCATTAAT
1 AGTTCAAACATCATTAAT
16678637 TTTTGTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (18 bp):
AGTTCAAACATCATTAAT
Found at i:16691969 original size:12 final size:12
Alignment explanation
Indices: 16691954--16692004 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
16691944 GAAAAAGGAA
16691954 GAAAAGAAAGAG
1 GAAAAGAAAGAG
*
16691966 GAAAAGAAAGAA
1 GAAAAGAAAGAG
*
16691978 GAGAAA-AACGAG
1 GA-AAAGAAAGAG
*
16691990 GAGAAGAAAGAG
1 GAAAAGAAAGAG
16692002 GAA
1 GAA
16692005 GTCAAGGAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
11 2 0.06
12 26 0.84
13 3 0.10
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAGAG
Found at i:16691970 original size:21 final size:21
Alignment explanation
Indices: 16691935--16691983 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
16691925 TAGGACCTGC
*
16691935 AAAAG-AAGAGAAAAAGGAAG
1 AAAAGAAAGAGAAAAAGAAAG
*
16691955 AAAAGAAAGAGGAAAAGAAAG
1 AAAAGAAAGAGAAAAAGAAAG
*
16691976 AAGAGAAA
1 AAAAGAAA
16691984 AACGAGGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AAAAGAAAGAGAAAAAGAAAG
Found at i:16691978 original size:24 final size:24
Alignment explanation
Indices: 16691951--16692000 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
16691941 AGAGAAAAAG
16691951 GAAGA-AAAGAAAGAGGAAAAGAAA
1 GAAGAGAAA-AAAGAGGAAAAGAAA
* *
16691975 GAAGAGAAAAACGAGGAGAAGAAA
1 GAAGAGAAAAAAGAGGAAAAGAAA
16691999 GA
1 GA
16692001 GGAAGTCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (24 bp):
GAAGAGAAAAAAGAGGAAAAGAAA
Found at i:16691978 original size:36 final size:36
Alignment explanation
Indices: 16691936--16692004 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
16691926 AGGACCTGCA
*
16691936 AAAGAAGAGAAAAAGGAAGAAAAGAAAGAGGAAAAG
1 AAAGAAGAGAAAAACGAAGAAAAGAAAGAGGAAAAG
* *
16691972 AAAGAAGAGAAAAACGAGGAGAAGAAAGAGGAA
1 AAAGAAGAGAAAAACGAAGAAAAGAAAGAGGAA
16692005 GTCAAGGAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.67, C:0.01, G:0.32, T:0.00
Consensus pattern (36 bp):
AAAGAAGAGAAAAACGAAGAAAAGAAAGAGGAAAAG
Found at i:16692015 original size:36 final size:36
Alignment explanation
Indices: 16691936--16692022 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 36
16691926 AGGACCTGCA
* *
16691936 AAAGAAGAGAAAAAGGAAGAAAAGAAAGAGGAAAAG
1 AAAGAAGAGAAAAACGAAGAAAAGAAAGAGGAAAAC
* * **
16691972 AAAGAAGAGAAAAACGAGGAGAAGAAAGAGGAAGTC
1 AAAGAAGAGAAAAACGAAGAAAAGAAAGAGGAAAAC
*
16692008 AAGGAAGAGCAAAAA
1 AAAGAAGAG-AAAAA
16692023 TAATGGAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 38 0.88
37 5 0.12
ACGTcount: A:0.64, C:0.03, G:0.31, T:0.01
Consensus pattern (36 bp):
AAAGAAGAGAAAAACGAAGAAAAGAAAGAGGAAAAC
Found at i:16692577 original size:26 final size:26
Alignment explanation
Indices: 16692531--16692580 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
16692521 AAATTTCGGT
*
16692531 TTAATTATCAATTCAATCGATTCATA
1 TTAATTATCAATTCAACCGATTCATA
*
16692557 TTAATTCTCAA-TCTAACCGATTCA
1 TTAATTATCAATTC-AACCGATTCA
16692581 AAGTCAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (26 bp):
TTAATTATCAATTCAACCGATTCATA
Found at i:16692832 original size:28 final size:28
Alignment explanation
Indices: 16692774--16692833 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
16692764 GGGATTTACG
* * * * *
16692774 TTATATATAACACCTTCACGTTTTTTTT
1 TTATATATAAAACCTTCACATCTTCTAT
*
16692802 TTATATATAAAACCTTCATATCTTCTAT
1 TTATATATAAAACCTTCACATCTTCTAT
16692830 TTAT
1 TTAT
16692834 TAATTTTTTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.17, G:0.02, T:0.52
Consensus pattern (28 bp):
TTATATATAAAACCTTCACATCTTCTAT
Found at i:16694757 original size:13 final size:13
Alignment explanation
Indices: 16694739--16694763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16694729 TAGTTATTTG
16694739 TTTTCTTTCTTTC
1 TTTTCTTTCTTTC
16694752 TTTTCTTTCTTT
1 TTTTCTTTCTTT
16694764 TATTTATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTTCTTTC
Found at i:16695836 original size:21 final size:21
Alignment explanation
Indices: 16695788--16695835 Score: 82
Period size: 19 Copynumber: 2.4 Consensus size: 21
16695778 AAAAATACAT
16695788 TATTTTTTAAATTATTATCAA
1 TATTTTTTAAATTATTATCAA
16695809 TATTTTTTAAA-T-TTATCAA
1 TATTTTTTAAATTATTATCAA
16695828 TATTTTTT
1 TATTTTTT
16695836 TAAAAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 15 0.56
20 1 0.04
21 11 0.41
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTTAAATTATTATCAA
Found at i:16710476 original size:20 final size:22
Alignment explanation
Indices: 16710428--16710479 Score: 76
Period size: 20 Copynumber: 2.5 Consensus size: 22
16710418 AAAAATACAT
16710428 TATT-TTTTAAATTATTATCAA
1 TATTGTTTTAAATTATTATCAA
16710449 TA-TGTTTTAAA-T-TTATCAA
1 TATTGTTTTAAATTATTATCAA
16710468 TATTGTTTTAAA
1 TATTGTTTTAAA
16710480 AATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.31
20 11 0.38
21 9 0.31
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (22 bp):
TATTGTTTTAAATTATTATCAA
Found at i:16726905 original size:34 final size:33
Alignment explanation
Indices: 16726862--16726925 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
16726852 ACAGTTCAAT
*
16726862 TCAGTTGGACCTTAGCGCATTACACTATCAGTA
1 TCAGTTGGACCTTAGCCCATTACACTATCAGTA
*
16726895 TCAGTGTGGACCTTAGCCCATTACAGTATCA
1 TCAGT-TGGACCTTAGCCCATTACACTATCA
16726926 ACTCAGACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 5 0.18
34 23 0.82
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (33 bp):
TCAGTTGGACCTTAGCCCATTACACTATCAGTA
Found at i:16727508 original size:19 final size:20
Alignment explanation
Indices: 16727484--16727521 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16727474 CACAAGCCTA
16727484 TTTGGCCC-ACACGGCCCAT
1 TTTGGCCCAACACGGCCCAT
*
16727503 TTTGGCCCAACATGGCCCA
1 TTTGGCCCAACACGGCCCA
16727522 AAGCGGCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.18, C:0.39, G:0.21, T:0.21
Consensus pattern (20 bp):
TTTGGCCCAACACGGCCCAT
Found at i:16735615 original size:18 final size:17
Alignment explanation
Indices: 16735588--16735621 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16735578 ATCATTTCAT
16735588 ATTTCATTTCCCATCTC
1 ATTTCATTTCCCATCTC
*
16735605 ATTTCCATTTCTCATCT
1 ATTT-CATTTCCCATCT
16735622 TGTCATCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTCATTTCCCATCTC
Found at i:16736729 original size:6 final size:6
Alignment explanation
Indices: 16736720--16736744 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16736710 TATTATGACT
16736720 ATTATA ATTATA ATTATA ATTATA A
1 ATTATA ATTATA ATTATA ATTATA A
16736745 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTATA
Found at i:16747118 original size:29 final size:28
Alignment explanation
Indices: 16747078--16747132 Score: 101
Period size: 29 Copynumber: 1.9 Consensus size: 28
16747068 TTAATTATGA
16747078 TTTGAAAATTTTCTATTATAATATTTTT
1 TTTGAAAATTTTCTATTATAATATTTTT
16747106 TTTGAATAATTTTCTATTATAATATTT
1 TTTGAA-AATTTTCTATTATAATATTT
16747133 GAGTTGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (28 bp):
TTTGAAAATTTTCTATTATAATATTTTT
Found at i:16747129 original size:16 final size:16
Alignment explanation
Indices: 16747084--16747129 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 16
16747074 ATGATTTGAA
16747084 AATTTTCTATTATAAT
1 AATTTTCTATTATAAT
16747100 -ATTTT-T-TT-TGAAT
1 AATTTTCTATTAT-AAT
16747113 AATTTTCTATTATAAT
1 AATTTTCTATTATAAT
16747129 A
1 A
16747130 TTTGAGTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
12 1 0.04
13 5 0.20
14 6 0.24
15 6 0.24
16 6 0.24
17 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (16 bp):
AATTTTCTATTATAAT
Found at i:16747139 original size:29 final size:28
Alignment explanation
Indices: 16747079--16747139 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
16747069 TAATTATGAT
***
16747079 TTGAAAATTTTCTATTATAATATTTTTT
1 TTGAAAATTTTCTATTATAATATTTGAG
16747107 TTGAATAATTTTCTATTATAATATTTGAG
1 TTGAA-AATTTTCTATTATAATATTTGAG
16747136 TTGA
1 TTGA
16747140 TAAGTTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (28 bp):
TTGAAAATTTTCTATTATAATATTTGAG
Found at i:16749243 original size:50 final size:50
Alignment explanation
Indices: 16749168--16749415 Score: 234
Period size: 50 Copynumber: 4.9 Consensus size: 50
16749158 CATTTCGGTA
* * *
16749168 AAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGAT
* * *
16749218 AAGAGGTCCCATGTAAGACCGTGTCTGGGACATGACATTGGCATCATTGAGACT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--TGAGA-T
*
16749272 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGATAT
1 A--AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGAT
* ** * * * *
16749324 GAGAACTCCCATGTAAGACCATATCTGGGATATTGCATTGG-A---AGTAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAG-AT
** *
16749371 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAG--AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
16749416 TGTTATTATC
Statistics
Matches: 163, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
46 1 0.01
47 4 0.02
49 33 0.20
50 73 0.45
51 1 0.01
52 1 0.01
53 8 0.05
54 2 0.01
55 1 0.01
56 39 0.24
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGAT
Found at i:16749363 original size:106 final size:101
Alignment explanation
Indices: 16749167--16749415 Score: 281
Period size: 106 Copynumber: 2.4 Consensus size: 101
16749157 ACATTTCGGT
* * **
16749167 AAAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATAAGAGGTCCCATGT
1 AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAACTCCCATGT
* * * *
16749232 AAGACCGTGTCTGGGACATGACATTGGCA-TCATTGAG
66 AAGACCATATCTGGGACATGACATTGGAAGT-A-TAAG
* * *
16749269 ACTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGATATGAGAACTCCC
1 A--A--AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAACTCCC
*
16749334 ATGTAAGACCATATCTGGGATATTG-CATTGGAAGTATAAG
62 ATGTAAGACCATATCTGGGACA-TGACATTGGAAGTATAAG
* *
16749374 AAACA--TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
16749416 TGTTATTATC
Statistics
Matches: 127, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
99 36 0.28
101 2 0.02
102 1 0.01
103 1 0.01
104 1 0.01
105 4 0.03
106 79 0.62
107 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (101 bp):
AAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAACTCCCATGT
AAGACCATATCTGGGACATGACATTGGAAGTATAAG
Found at i:16750004 original size:16 final size:16
Alignment explanation
Indices: 16749983--16750014 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16749973 CTAAGTAAGA
16749983 ATATGTTTGGTATTAT
1 ATATGTTTGGTATTAT
16749999 ATATGTTTGGTATTAT
1 ATATGTTTGGTATTAT
16750015 GAATGCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (16 bp):
ATATGTTTGGTATTAT
Found at i:16759214 original size:55 final size:55
Alignment explanation
Indices: 16759154--16759265 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
16759144 ACAAGTTAGT
16759154 TGATAAATGGTTAAATGTGCACATGTTTAGGTATCTTTGATGTTTGTGATTGAGG
1 TGATAAATGGTTAAATGTGCACATGTTTAGGTATCTTTGATGTTTGTGATTGAGG
*
16759209 TGATAAATGGTTAAATGTGTACATGTTTAGGTATCTTTGATGTTTGTGATTGAGG
1 TGATAAATGGTTAAATGTGCACATGTTTAGGTATCTTTGATGTTTGTGATTGAGG
16759264 TG
1 TG
16759266 TCTATATGAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.25, C:0.04, G:0.28, T:0.43
Consensus pattern (55 bp):
TGATAAATGGTTAAATGTGCACATGTTTAGGTATCTTTGATGTTTGTGATTGAGG
Found at i:16760257 original size:24 final size:24
Alignment explanation
Indices: 16760228--16760281 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
16760218 AATAGTAGAA
* *
16760228 AATAATTTATCAGCTAATAATAGT
1 AATAATTAATCAACTAATAATAGT
* * *
16760252 AATAATTAATTAATTAATAATGGT
1 AATAATTAATCAACTAATAATAGT
16760276 AATAAT
1 AATAAT
16760282 AAAATAATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (24 bp):
AATAATTAATCAACTAATAATAGT
Found at i:16760289 original size:24 final size:24
Alignment explanation
Indices: 16760242--16760290 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
16760232 ATTTATCAGC
* *
16760242 TAATAATAGTAATAATTAATTAAT
1 TAATAATAGTAATAATAAAATAAT
*
16760266 TAATAATGGTAATAATAAAATAAT
1 TAATAATAGTAATAATAAAATAAT
16760290 T
1 T
16760291 GGATTATTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (24 bp):
TAATAATAGTAATAATAAAATAAT
Found at i:16761866 original size:20 final size:22
Alignment explanation
Indices: 16761818--16761870 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
16761808 ATACACATAT
*
16761818 TATATTATATGCGTGGGTCTTAC
1 TATA-TATATGCATGGGTCTTAC
*
16761841 TATATATATGCATGGGTCTTAT
1 TATATATATGCATGGGTCTTAC
16761863 TATATATA
1 TATATATA
16761871 ATATATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.45
Consensus pattern (22 bp):
TATATATATGCATGGGTCTTAC
Found at i:16762215 original size:18 final size:18
Alignment explanation
Indices: 16762194--16762249 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
16762184 TCTGTTAACT
16762194 TGGTGAATTATATTATTA
1 TGGTGAATTATATTATTA
*
16762212 TGGTGAAATATATTAATT-
1 TGGTGAATTATATT-ATTA
* * *
16762230 TGGTGATTTGTATTAATA
1 TGGTGAATTATATTATTA
16762248 TG
1 TG
16762250 ACGAATTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 2 0.06
18 26 0.84
19 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (18 bp):
TGGTGAATTATATTATTA
Found at i:16762986 original size:12 final size:13
Alignment explanation
Indices: 16762966--16763006 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
16762956 AATAAAATGG
*
16762966 TTTCTAATAT-CC
1 TTTCAAATATACC
16762978 TTTCAAATATAGCC
1 TTTCAAATATA-CC
16762992 TTTCAAA-ATACC
1 TTTCAAATATACC
16763004 TTT
1 TTT
16763007 TTGCATCCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 14 0.54
13 3 0.12
14 9 0.35
ACGTcount: A:0.32, C:0.22, G:0.02, T:0.44
Consensus pattern (13 bp):
TTTCAAATATACC
Found at i:16788945 original size:50 final size:50
Alignment explanation
Indices: 16788834--16789071 Score: 210
Period size: 50 Copynumber: 4.7 Consensus size: 50
16788824 ATTTGGGTAA
* * *
16788834 AGAGATCCCA-GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGGGATTGTG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAGA---TG
*
16788889 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
16788939 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * * *
16788989 AGAACTCCCATGTAAGACCATATTTGGGATATGGCATTGCCAAC-ACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * *
16789038 AAACATCTCATGTAAGACCATGCCTGGGACATGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGG
16789072 GTTTGGCATG
Statistics
Matches: 153, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
49 29 0.19
50 81 0.53
53 3 0.02
55 10 0.07
56 30 0.20
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:16799569 original size:56 final size:50
Alignment explanation
Indices: 16799483--16799730 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
16799473 ATTTGGGTAA
*
16799483 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCTTCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG---CACTGAG---ATG
* * *
16799539 AGAGGTCCCATGTAGGACCATGTCTGGGACATGGCGTTGACACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
* *
16799589 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
** *
16799639 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGGACACCT-ATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG-CA-CTGAGATG
** * * *
16799689 AGAACTCCCATGTAAGACCATATTTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16799731 GTACAAGAAA
Statistics
Matches: 170, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
49 3 0.02
50 120 0.71
51 4 0.02
53 6 0.04
56 37 0.22
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATG
Found at i:16805444 original size:50 final size:50
Alignment explanation
Indices: 16805333--16805579 Score: 289
Period size: 50 Copynumber: 4.8 Consensus size: 50
16805323 ATTTGGGTAA
* *
16805333 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
16805389 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*** *
16805439 AGAGGTCCCATGTAAGACCATGTCCCAGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
16805489 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATAGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
16805539 AGAACTCCC-TGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16805580 ATACAAGAAA
Statistics
Matches: 170, Mismatches: 21, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
49 29 0.17
50 98 0.58
53 3 0.02
55 1 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:16805601 original size:49 final size:49
Alignment explanation
Indices: 16805499--16805618 Score: 136
Period size: 49 Copynumber: 2.4 Consensus size: 49
16805489 AGAGGTCCCC
* * * *
16805499 TGTAAGACCATGTCTGGGACATGGCATAGGCACCTATATGAGAACTCCC
1 TGTAAGACCATGTCTGGGACATGGCATAGGCACATACAAGAGAACTCCA
* * *
16805548 TGTAAGACCATATCTGGGATATGGCATTGGCA-ATACAAGA-AACATCTCA
1 TGTAAGACCATGTCTGGGACATGGCATAGGCACATACAAGAGAAC-TC-CA
*
16805597 TGTAAGACTATGTCTGGGACAT
1 TGTAAGACCATGTCTGGGACAT
16805619 AGTTGATACG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 3 0.05
48 7 0.12
49 49 0.83
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGGACATGGCATAGGCACATACAAGAGAACTCCA
Found at i:16811967 original size:51 final size:50
Alignment explanation
Indices: 16811802--16811978 Score: 203
Period size: 51 Copynumber: 3.5 Consensus size: 50
16811792 ATTGAAAATG
* *
16811802 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGGT
* * * *
16811853 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
* ** * * * *
16811902 TTCGACCACTTGTGTAGTACTATGTGTAGGCTACTACGTGTATCAGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
16811953 AATGGTCACATGTGTAGTACTATGTG
1 -ATGGTCACATGTGTAGTACTATGTG
16811979 AACCGAACAT
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
49 3 0.03
50 39 0.38
51 59 0.58
52 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT
Found at i:16820182 original size:15 final size:15
Alignment explanation
Indices: 16820162--16820193 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16820152 CATTTCACTA
*
16820162 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
16820177 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
16820192 TT
1 TT
16820194 TGCATGCATA
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:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:16821483 original size:13 final size:13
Alignment explanation
Indices: 16821465--16821489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16821455 CCCAATATGT
16821465 AATTGAACTTGAA
1 AATTGAACTTGAA
16821478 AATTGAACTTGA
1 AATTGAACTTGA
16821490 GATCGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTGAACTTGAA
Found at i:16821866 original size:17 final size:17
Alignment explanation
Indices: 16821844--16821917 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 17
16821834 ATTTTAATAG
16821844 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
16821861 TTTAATACTT--ATCTTAA
1 TTTAATA-TTAAAT-TTAA
** *
16821878 --TAATATTTTA-TGAA
1 TTTAATATTAAATTTAA
*
16821892 TTTAATATTAAATCTAA
1 TTTAATATTAAATTTAA
16821909 TTTAATATT
1 TTTAATATT
16821918 TATATTGTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
14 5 0.11
15 5 0.11
16 11 0.24
17 22 0.49
18 2 0.04
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:16821885 original size:48 final size:48
Alignment explanation
Indices: 16821827--16821920 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
16821817 ATTCCAGAAA
* * *
16821827 TAATATTATTTTAAT-AGTTTAATATTAAATTTAATTTAATACTTATCT
1 TAATAATATTTT-ATGAATTTAATATTAAATCTAATTTAATACTTATCT
*
16821875 TAATAATATTTTATGAATTTAATATTAAATCTAATTTAATATTTAT
1 TAATAATATTTTATGAATTTAATATTAAATCTAATTTAATACTTAT
16821921 ATTGTAGATA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 2 0.05
48 39 0.95
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (48 bp):
TAATAATATTTTATGAATTTAATATTAAATCTAATTTAATACTTATCT
Found at i:16821991 original size:28 final size:29
Alignment explanation
Indices: 16821948--16822006 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
16821938 TATTATTTTA
* *
16821948 ATAAGATTTAATATTAAATTTAATCTAAT
1 ATAAGATTAAATATTAAATTAAATCTAAT
* *
16821977 ATAAGA-TAAATATTAGATTAAATTTAAT
1 ATAAGATTAAATATTAAATTAAATCTAAT
16822005 AT
1 AT
16822007 TAAAGTGATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (29 bp):
ATAAGATTAAATATTAAATTAAATCTAAT
Found at i:16831344 original size:37 final size:36
Alignment explanation
Indices: 16831293--16831409 Score: 104
Period size: 37 Copynumber: 3.3 Consensus size: 36
16831283 ATTCCAAAAA
*
16831293 TAATATTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATATTATATTAATAGTTTAATATTAAATTTAATT
* *
16831329 TAATACTTATCTTAATAGTATT-TTATT-AATTTAATAT
1 TAATA-TTATATTAATAGT-TTAATATTAAATTTAAT-T
*
16831366 TAA-AGTA-ATT-AT-G-TTAATATTAAATTTAATT
1 TAATATTATATTAATAGTTTAATATTAAATTTAATT
*
16831397 TAATGTTTATATT
1 TAAT-ATTATATT
16831410 GTAGATAAAC
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
30 2 0.03
31 8 0.12
32 9 0.14
33 4 0.06
34 5 0.08
35 2 0.03
36 14 0.21
37 20 0.30
38 2 0.03
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (36 bp):
TAATATTATATTAATAGTTTAATATTAAATTTAATT
Found at i:16836791 original size:61 final size:63
Alignment explanation
Indices: 16836675--16836795 Score: 158
Period size: 61 Copynumber: 2.0 Consensus size: 63
16836665 GTTTTCTCCA
* * * * **
16836675 AAATGAAAATGAAAATGGAGAAAATGGAATCTTTTGAAAATGAATATGGTTTTCTCAAAATGG
1 AAATGAAAATGAAAATGGAGAAAATGGAATCATTTAAAAATGAACAAGGAATTCTCAAAATGG
16836738 AAATGAAAATGAAAAT-GAG-AAAT-GAATTCATTTAAAAATGAACAAGGAATTCTCAAAA
1 AAATGAAAATGAAAATGGAGAAAATGGAA-TCATTTAAAAATGAACAAGGAATTCTCAAAA
16836796 ATGATCGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
60 3 0.06
61 29 0.57
62 3 0.06
63 16 0.31
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (63 bp):
AAATGAAAATGAAAATGGAGAAAATGGAATCATTTAAAAATGAACAAGGAATTCTCAAAATGG
Found at i:16840255 original size:20 final size:20
Alignment explanation
Indices: 16840207--16840263 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
16840197 GAACTTTTAT
16840207 TAATTTTTT-AATTTTTAAA
1 TAATTTTTTAAATTTTTAAA
** *
16840226 TAATACTTTAAAATTTTAAA
1 TAATTTTTTAAATTTTTAAA
*
16840246 TTATTTTTTAAATTTTTA
1 TAATTTTTTAAATTTTTA
16840264 TTAGTATTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 7 0.23
20 23 0.77
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TAATTTTTTAAATTTTTAAA
Found at i:16840273 original size:21 final size:20
Alignment explanation
Indices: 16840247--16840297 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 20
16840237 AATTTTAAAT
16840247 TATTTTTTAA-ATTTTTATTA
1 TATTTTTTAAGATTTTTA-TA
16840267 GTATTTTTTATAAGATTTTTATA
1 -TA-TTTTT-TAAGATTTTTATA
16840290 TATTTTTT
1 TATTTTTT
16840298 TTGAAGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 1 0.04
21 7 0.26
22 7 0.26
23 5 0.19
24 7 0.26
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
TATTTTTTAAGATTTTTATA
Found at i:16840293 original size:22 final size:22
Alignment explanation
Indices: 16840249--16840298 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
16840239 TTTTAAATTA
16840249 TTTTTTAAATTTTTATTAGTAT
1 TTTTTTAAATTTTTATTAGTAT
16840271 TTTTTATAAGATTTTTA-TA-TAT
1 TTTTT-TAA-ATTTTTATTAGTAT
16840293 TTTTTT
1 TTTTTT
16840299 TGAAGTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 1 0.04
22 13 0.50
23 5 0.19
24 7 0.27
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTTTTAAATTTTTATTAGTAT
Found at i:16840668 original size:17 final size:18
Alignment explanation
Indices: 16840641--16840677 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
16840631 AATTTTTAAA
16840641 TAATATTATTTATAAATT
1 TAATATTATTTATAAATT
*
16840659 TAAT-TTATTTATATATT
1 TAATATTATTTATAAATT
16840676 TA
1 TA
16840678 TAAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TAATATTATTTATAAATT
Found at i:16841443 original size:50 final size:50
Alignment explanation
Indices: 16841368--16841468 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
16841358 ATTCTATGAG
16841368 AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACCCTAACTGAC
1 AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACCCTAACTGAC
16841418 AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACCCTAACTGAC
1 AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACCCTAACTGAC
16841468 A
1 A
16841469 TAGACACTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.26
Consensus pattern (50 bp):
AAAGAAAACTAGAATATAATTACATTATAAGGTTTAAGACCCTAACTGAC
Found at i:16842964 original size:13 final size:13
Alignment explanation
Indices: 16842946--16842970 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16842936 AAAATTATGT
16842946 TATTTTAATTTAA
1 TATTTTAATTTAA
16842959 TATTTTAATTTA
1 TATTTTAATTTA
16842971 TTAAATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTAATTTAA
Found at i:16843177 original size:21 final size:22
Alignment explanation
Indices: 16843138--16843178 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
16843128 TTTGAATGTT
16843138 TGAGTTTAACTTATTTTTTAAA
1 TGAGTTTAACTTATTTTTTAAA
*
16843160 TGAGTTTAA-TTTTTTTTTA
1 TGAGTTTAACTTATTTTTTA
16843179 TCTAAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (22 bp):
TGAGTTTAACTTATTTTTTAAA
Found at i:16847832 original size:22 final size:21
Alignment explanation
Indices: 16847807--16847863 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
16847797 ACCAAAAATT
16847807 TATTTTAAAAATAAAAAAAAA
1 TATTTTAAAAATAAAAAAAAA
***
16847828 GTATTTTAAAAATATTTAAAAA
1 -TATTTTAAAAATAAAAAAAAA
16847850 -ATTTTAAAAATAAA
1 TATTTTAAAAATAAA
16847864 TATTTATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 12 0.40
22 18 0.60
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
TATTTTAAAAATAAAAAAAAA
Found at i:16847845 original size:10 final size:11
Alignment explanation
Indices: 16847823--16847861 Score: 55
Period size: 10 Copynumber: 3.6 Consensus size: 11
16847813 AAAAATAAAA
16847823 AAAAAGTATTTT
1 AAAAA-TATTTT
16847835 AAAAATA-TTT
1 AAAAATATTTT
16847845 AAAAA-ATTTT
1 AAAAATATTTT
16847855 AAAAATA
1 AAAAATA
16847862 AATATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 1 0.04
10 16 0.64
11 3 0.12
12 5 0.20
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:16849465 original size:168 final size:169
Alignment explanation
Indices: 16849162--16849525 Score: 522
Period size: 168 Copynumber: 2.2 Consensus size: 169
16849152 TGGTCTTGAA
*
16849162 TGATTTTAGGAAACACG-TTTGTTTAAATTAAGACTTCAATTTTACAGCTTGATAAATTAGACTT
1 TGATTTTAGGAAACA-GATTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTT
16849226 TGTGATGACATGCAATTTGAATGCTTGCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAG
65 TGTGATGACATGCAA-TTGAATGCTTGCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAG
16849291 GAATATAAGTAAATAGTAATGAAACCTTGGATCTT-AAATTT
129 GAATATAAGTAAATAGTAATGAAACCTTGG-TCTTAAAATTT
* *
16849332 TGATTCTAGGAAACAGATTTGTTTAAA-TAAGACTTCAATTTTACAGCATGATAAATTAGATTTT
1 TGATTTTAGGAAACAGATTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTT
* * * ** *
16849396 GTGATGACATTCACA-TGAATGCTTTCTTGTCCTTTATTTATATGGTTTTCCAATTTCACAATGG
66 GTGATGACATGCA-ATTGAATGCTTGCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGG
** * *
16849460 AATATACTTAAATGGTAATGAAACCTTTGTCTTAAAATTT
130 AATATAAGTAAATAGTAATGAAACCTTGGTCTTAAAATTT
* *
16849500 T-ATTTTAGGAAACTGATTTGCTTAAA
1 TGATTTTAGGAAACAGATTTGTTTAAA
16849526 ATTATATCTT
Statistics
Matches: 175, Mismatches: 16, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
167 26 0.15
168 76 0.43
169 48 0.27
170 25 0.14
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (169 bp):
TGATTTTAGGAAACAGATTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTT
GTGATGACATGCAATTGAATGCTTGCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGGA
ATATAAGTAAATAGTAATGAAACCTTGGTCTTAAAATTT
Found at i:16857295 original size:18 final size:18
Alignment explanation
Indices: 16857272--16857307 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16857262 ACTTAGACAG
16857272 GAAAATCAGTTAATGCAT
1 GAAAATCAGTTAATGCAT
16857290 GAAAATCAGTTAATGCAT
1 GAAAATCAGTTAATGCAT
16857308 CTTTGTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
GAAAATCAGTTAATGCAT
Found at i:16858352 original size:20 final size:20
Alignment explanation
Indices: 16858314--16858352 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16858304 AATATTATAA
** *
16858314 ATAAATAAATTTTATTAATC
1 ATAAATAAATAATAATAATC
16858334 ATAAATAAATAATAATAAT
1 ATAAATAAATAATAATAAT
16858353 TAAGTAAGAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAATAAATAATAATAATC
Found at i:16858354 original size:24 final size:24
Alignment explanation
Indices: 16858310--16858355 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
16858300 CTTTAATATT
* *
16858310 ATAAATAAATAAATTTTATTAATC
1 ATAAATAAATAAATATAATTAATC
16858334 ATAAATAAAT-AATAATAATTAA
1 ATAAATAAATAAAT-ATAATTAA
16858356 GTAAGACTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAAATAAATAAATATAATTAATC
Found at i:16860450 original size:7 final size:7
Alignment explanation
Indices: 16860438--16860465 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
16860428 GCCCTGGCCC
16860438 TATTTAT
1 TATTTAT
16860445 TATTTAT
1 TATTTAT
16860452 TATTTAT
1 TATTTAT
16860459 TATTTAT
1 TATTTAT
16860466 GTCTTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TATTTAT
Found at i:16868908 original size:70 final size:70
Alignment explanation
Indices: 16868762--16868927 Score: 156
Period size: 70 Copynumber: 2.4 Consensus size: 70
16868752 GCAAGGAAAG
* * *
16868762 CTTTTGTAACTTCAACATGGTGAGAAGATGACCTATTTCAAACTTTGCAACATCAACATGGTGGG
1 CTTTTGCAACTTCAACATGGTGAGAAGATGACCCATTTCAAACTTTGCAACATCAACACGGTGGG
*
16868827 AAGCA
66 AAGAA
* * * * * * *
16868832 CCTTTGCAACTTCAACATTGTGAGAGGA-GAGCCCA-TTCTGAACTTTGTATCATCAATACGGTG
1 CTTTTGCAACTTCAACATGGTGAGAAGATGA-CCCATTTC-AAACTTTGCAACATCAACACGGTG
16868895 GGAAGAA
64 GGAAGAA
* * * * *
16868902 GTTTTGCACCTTTAGCATGGCGAGAA
1 CTTTTGCAACTTCAACATGGTGAGAA
16868928 ACTTCAACAT
Statistics
Matches: 75, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
69 5 0.07
70 70 0.93
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (70 bp):
CTTTTGCAACTTCAACATGGTGAGAAGATGACCCATTTCAAACTTTGCAACATCAACACGGTGGG
AAGAA
Found at i:16869261 original size:67 final size:67
Alignment explanation
Indices: 16869143--16869273 Score: 181
Period size: 67 Copynumber: 2.0 Consensus size: 67
16869133 AGGAGGGCCC
** * * *
16869143 ATTTCAAACTTTACACCATCAACATGGCAAGAAGAATTTTTGCATCCTTAACATGATAAGAGGAC
1 ATTTCAAACTTTACACCATCAACATGGCAAGAAGAACCTTTACAACCTTAACATGACAAGAGGAC
16869208 TT
66 TT
* * * *
16869210 ATTTCAAACTTTGCACCATCAACATGGCGAGAAGAGCCTTTACAACTTTAACATGACAAGAGGA
1 ATTTCAAACTTTACACCATCAACATGGCAAGAAGAACCTTTACAACCTTAACATGACAAGAGGA
16869274 AGGCCCATTT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (67 bp):
ATTTCAAACTTTACACCATCAACATGGCAAGAAGAACCTTTACAACCTTAACATGACAAGAGGAC
TT
Found at i:16886445 original size:41 final size:41
Alignment explanation
Indices: 16886388--16886599 Score: 343
Period size: 41 Copynumber: 5.1 Consensus size: 41
16886378 TATATTATGC
* *
16886388 GATCTGAATCAGGCTATAAGCCTAGCAAGCTAAGTGCCAGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
16886429 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
* * *
16886470 GATCTGAATCAAGTTATAAACCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
* * *
16886511 GATCTAAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
16886552 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
1 GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
16886593 GAATCTG
1 G-ATCTG
16886600 TTAAATTAAG
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
41 155 0.97
42 5 0.03
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (41 bp):
GATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGT
Found at i:16890586 original size:13 final size:13
Alignment explanation
Indices: 16890570--16890604 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
16890560 GGAGAAGAAG
16890570 AAGGCAATCCCTT
1 AAGGCAATCCCTT
*
16890583 AAGGCAATCCTTT
1 AAGGCAATCCCTT
*
16890596 TAGGCAATC
1 AAGGCAATC
16890605 ACAAGAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (13 bp):
AAGGCAATCCCTT
Found at i:16892569 original size:30 final size:29
Alignment explanation
Indices: 16892533--16892753 Score: 117
Period size: 30 Copynumber: 7.4 Consensus size: 29
16892523 CAAAGGTACC
*
16892533 ATCCCTTTTCATAGTTCGATAGCTGAAGCT
1 ATCCCTTTTCATAATTCGATAGCTGAA-CT
* * * * *
16892563 ATCCCTTTTCATAATGCAAT-GATCGTCACC
1 ATCCCTTTTCATAATTCGATAGCT-G-AACT
*
16892593 ATCCCTTTTCATAATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATTCGATAGCTGAA-CT
* * * * * *
16892623 ATCACTTTTCATATTTCAAT-GGTCGTCACC
1 ATCCCTTTTCATAATTCGATAGCT-G-AACT
** * * * *
16892653 ATCCCTTTTCATTGTT-GATGGTTGTCACC
1 ATCCCTTTTCATAATTCGATAGCTG-AACT
* ** *
16892682 ATCCATTTTCATTGTTCAATAGGC-GAATCT
1 ATCCCTTTTCATAATTCGATA-GCTGAA-CT
16892712 ATCCCTTTTCATAATTCGATAGCTGAAGCT
1 ATCCCTTTTCATAATTCGATAGCTGAA-CT
16892742 ATCCCTTTTCAT
1 ATCCCTTTTCAT
16892754 TGGTCGATGA
Statistics
Matches: 145, Mismatches: 35, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
29 30 0.21
30 111 0.77
31 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATAATTCGATAGCTGAACT
Found at i:16892602 original size:60 final size:60
Alignment explanation
Indices: 16892530--16892753 Score: 231
Period size: 60 Copynumber: 3.8 Consensus size: 60
16892520 TCACAAAGGT
* *
16892530 ACCATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATGCAATGATCGTC
1 ACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATAATTCAATGATCGTC
* * * *
16892590 ACCATCCCTTTTCATAATTCGATAGCCGAAGCTATCACTTTTCATATTTCAATGGTCGTC
1 ACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATAATTCAATGATCGTC
** * * * * * ** * *
16892650 ACCATCCCTTTTCATTGTT-GATGGTTGTCA-CCATCCATTTTCATTGTTCAAT-AGGCG-A
1 ACCATCCCTTTTCATAATTCGATAGCTG-AAGCTATCCCTTTTCATAATTCAATGA-TCGTC
*
16892708 ATCTATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCAT
1 A-CCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCAT
16892754 TGGTCGATGA
Statistics
Matches: 131, Mismatches: 28, Indels: 10
0.78 0.17 0.06
Matches are distributed among these distances:
58 1 0.01
59 40 0.31
60 90 0.69
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (60 bp):
ACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATAATTCAATGATCGTC
Found at i:16892679 original size:29 final size:29
Alignment explanation
Indices: 16892641--16892697 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
16892631 TCATATTTCA
*
16892641 ATGGTCGTCACCATCCCTTTTCATTGTTG
1 ATGGTCGTCACCATCCATTTTCATTGTTG
*
16892670 ATGGTTGTCACCATCCATTTTCATTGTT
1 ATGGTCGTCACCATCCATTTTCATTGTT
16892698 CAATAGGCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.44
Consensus pattern (29 bp):
ATGGTCGTCACCATCCATTTTCATTGTTG
Found at i:16892746 original size:89 final size:88
Alignment explanation
Indices: 16892533--16892755 Score: 234
Period size: 89 Copynumber: 2.5 Consensus size: 88
16892523 CAAAGGTACC
* *
16892533 ATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATAATGCAATGATCGTCACCATCCC
1 ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCAT--TGCAATGATCGTCACCATCCA
*
16892598 TTTTCATAATTCGATAGCCGAAGCT
64 TTTTCATAATTCAATAGCCGAAGCT
* * * * * * ** * *
16892623 ATCACTTTTCATATTTCAAT-GGTCGTCA-CCATCCCTTTTCATTGTTGATGGTTGTCACCATCC
1 ATCCCTTTTCATAATTCGATAGCT-G-AAGCTATCCCTTTTCATTG-CAATGATCGTCACCATCC
** * *
16892686 ATTTTCATTGTTCAATAGGCGAATCT
63 ATTTTCATAATTCAATAGCCGAAGCT
16892712 ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATTG
1 ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATTG
16892756 GTCGATGATT
Statistics
Matches: 106, Mismatches: 22, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
88 3 0.03
89 69 0.65
90 33 0.31
91 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (88 bp):
ATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATTGCAATGATCGTCACCATCCATT
TTCATAATTCAATAGCCGAAGCT
Found at i:16905037 original size:40 final size:40
Alignment explanation
Indices: 16904993--16905132 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
16904983 AACTATTGAA
* * *
16904993 TAAATGCACATACATGCCCTTGTTTGTACTTTGGAACCCC
1 TAAATGCACATACGTGCCCCTGTTTGTACTTTAGAACCCC
* * *
16905033 TAAATGCACATACGTGCCCCTGTTTCTACTTTAGTACCCT
1 TAAATGCACATACGTGCCCCTGTTTGTACTTTAGAACCCC
* * *
16905073 TGAATGCACATACGTTCCCCTGTTTGTAC-TTAAATACCCC
1 TAAATGCACATACGTGCCCCTGTTTGTACTTTAGA-ACCCC
* *
16905113 TGAATGCAACTTACGTGCCC
1 TAAATGC-ACATACGTGCCC
16905133 TGCTTATACT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 3 0.04
40 71 0.85
41 10 0.12
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (40 bp):
TAAATGCACATACGTGCCCCTGTTTGTACTTTAGAACCCC
Found at i:16905157 original size:80 final size:80
Alignment explanation
Indices: 16904995--16905144 Score: 178
Period size: 80 Copynumber: 1.9 Consensus size: 80
16904985 CTATTGAATA
* ** * *
16904995 AATGCACATACATGCCCTTGTTTGTACTTTGGAACCCCTAAATGCACATACGTGCCCCTGTTTCT
1 AATGCACATACATGCCCCTGTTTGTACTTTAAAACCCCTAAATGCACATACGTGCCCCTGCTTAT
*
16905060 ACTTTAGTACCCTTG
66 ACTCTAGTACCCTTG
* * * *
16905075 AATGCACATACGTTCCCCTGTTTGTAC-TTAAATACCCCTGAATGCAACTTACGTG-CCCTGCTT
1 AATGCACATACATGCCCCTGTTTGTACTTTAAA-ACCCCTAAATGC-ACATACGTGCCCCTGCTT
16905138 ATACTCT
64 ATACTCT
16905145 GGTAACTCTG
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
79 3 0.05
80 47 0.81
81 8 0.14
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.33
Consensus pattern (80 bp):
AATGCACATACATGCCCCTGTTTGTACTTTAAAACCCCTAAATGCACATACGTGCCCCTGCTTAT
ACTCTAGTACCCTTG
Found at i:16905952 original size:12 final size:12
Alignment explanation
Indices: 16905935--16905961 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16905925 TCAGTGAGTT
16905935 ACACGACTTGGC
1 ACACGACTTGGC
16905947 ACACGACTTGGC
1 ACACGACTTGGC
16905959 ACA
1 ACA
16905962 TGGGTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (12 bp):
ACACGACTTGGC
Found at i:16910643 original size:51 final size:51
Alignment explanation
Indices: 16910584--16910919 Score: 317
Period size: 51 Copynumber: 6.6 Consensus size: 51
16910574 TATCGATGAA
* * *
16910584 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
* * * * * *
16910635 CACATGTGTAGTACTAAT-TGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACT-ATGTGAAGGCTACTACGTGAACCGATAA-ATGTTGGT
* * *
16910686 CACGTGTGTAGTACTGTG-GAAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTG-AAGGCTACTACGTGAACCGATAAATGTTGGT
* * * * *
16910737 CACATGTGTAGTACTAAGTGAAGACTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATG--TTGGT
* * ** *
16910788 CACGTGTGTAGTACTAGGTGAAGGCTACTACGTGAACC-TTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
* * * ** *
16910838 CACGTGTGTAGTACTATGTGAAAGCTACTACTTGAAGCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
*
16910888 CACGTGTGTAGTACTATGTGAAGGATACTACG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACG
16910920 AGTATCGAAT
Statistics
Matches: 233, Mismatches: 41, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
49 1 0.00
50 84 0.36
51 145 0.62
52 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGTTGGT
Found at i:16910770 original size:102 final size:102
Alignment explanation
Indices: 16910584--16910919 Score: 416
Period size: 102 Copynumber: 3.3 Consensus size: 102
16910574 TATCGATGAA
16910584 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * *
16910649 TAATTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGACTACAATGTGTACCGAAAAGCTTTGGT
16910686 CACGTGTGTAGTACTGTG-GAAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTG-AAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTA
*
16910750 CTAAGTGAAGACTACTATGTGTACCGAAAAGCTTTGGT
65 CTAAGTGAAGACTACAATGTGTACCGAAAAGCTTTGGT
** *** * *
16910788 CACGTGTGTAGTACTAG-GTGAAGGCTACTACGTGAA-CCTTAAAACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACT-GTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTA
* * * * *
16910851 CTATGTGAA-AGCTACTACT-TGAAGCGTAAAA-C-TTGAT
65 CTAAGTGAAGA-CTAC-AATGTGTACCG-AAAAGCTTTGGT
* *
16910888 CACGTGTGTAGTACTATGTGAAGGATACTACG
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACG
16910920 AGTATCGAAT
Statistics
Matches: 208, Mismatches: 19, Indels: 16
0.86 0.08 0.07
Matches are distributed among these distances:
100 34 0.16
101 39 0.19
102 133 0.64
103 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGACTACAATGTGTACCGAAAAGCTTTGGT
Found at i:16911139 original size:12 final size:12
Alignment explanation
Indices: 16911118--16911177 Score: 50
Period size: 12 Copynumber: 4.9 Consensus size: 12
16911108 GATGTGTGGA
16911118 ATTGAATTGAAT
1 ATTGAATTGAAT
* *
16911130 ATTGACTTGAAA
1 ATTGAATTGAAT
*
16911142 ATGGCAAATTGAAT
1 ATTG--AATTGAAT
*
16911156 TTTGAATTGAAT
1 ATTGAATTGAAT
*
16911168 AGTG-ATTGAA
1 ATTGAATTGAA
16911178 AGTGAAAAAG
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
11 6 0.16
12 23 0.62
14 8 0.22
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.37
Consensus pattern (12 bp):
ATTGAATTGAAT
Found at i:16917443 original size:6 final size:6
Alignment explanation
Indices: 16917413--16917465 Score: 72
Period size: 6 Copynumber: 8.5 Consensus size: 6
16917403 AAACACAATG
16917413 AAAAT- AAAATA AACGAATAA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AA--AAT-A AAAATA AAAATA AAAATA AAAATA AAAATA
16917463 AAA
1 AAA
16917466 CAGAATTTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.11
6 30 0.68
7 3 0.07
8 3 0.07
9 3 0.07
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (6 bp):
AAAATA
Done.