Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008917.1 Hibiscus syriacus cultivar Beakdansim tig00112221_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: 766343
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:151893 original size:31 final size:31
Alignment explanation
Indices: 151858--151936 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 31
151848 TAAAATGTTT
*
151858 ATTAAATTTATTGAATTGTTATAA-ATAAGTC
1 ATTAAATTTATTGAATTGTTATAACAT-AGTA
*
151889 ATTAAATTTTATCT-AATTTTTATAACATAGTA
1 ATTAAA-TTTAT-TGAATTGTTATAACATAGTA
151921 ATTAAATTTATTGAAT
1 ATTAAATTTATTGAAT
151937 ATAATATTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
30 1 0.02
31 14 0.33
32 24 0.57
33 3 0.07
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (31 bp):
ATTAAATTTATTGAATTGTTATAACATAGTA
Found at i:165224 original size:13 final size:13
Alignment explanation
Indices: 165206--165230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
165196 AGACTAATCA
165206 CATACCAATAGTG
1 CATACCAATAGTG
165219 CATACCAATAGT
1 CATACCAATAGT
165231 TCAGTCTGAG
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:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (13 bp):
CATACCAATAGTG
Found at i:173652 original size:21 final size:21
Alignment explanation
Indices: 173628--173686 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
173618 TGATTTATTA
*
173628 TTATGAATTTCAATTTTGTAG
1 TTATGAATTTCAAGTTTGTAG
* *
173649 TTATGGATTTCAAGTTTGTTG
1 TTATGAATTTCAAGTTTGTAG
* * *
173670 TTTTGGATATCAAGTTT
1 TTATGAATTTCAAGTTT
173687 ATTGGATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.05, G:0.19, T:0.53
Consensus pattern (21 bp):
TTATGAATTTCAAGTTTGTAG
Found at i:187200 original size:17 final size:17
Alignment explanation
Indices: 187180--187239 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 17
187170 AGGGAAGCAA
*
187180 TTCATTAATTCAACTAG
1 TTCATTAATTAAACTAG
*
187197 TTCATTCATTAAACTAG
1 TTCATTAATTAAACTAG
* *
187214 TTCATTTATTAAAATAG
1 TTCATTAATTAAACTAG
*
187231 GTC-TTAATT
1 TTCATTAATT
187240 GTTTCATGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
16 5 0.14
17 32 0.86
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (17 bp):
TTCATTAATTAAACTAG
Found at i:190918 original size:15 final size:15
Alignment explanation
Indices: 190898--190947 Score: 91
Period size: 15 Copynumber: 3.3 Consensus size: 15
190888 CCCATGTACC
190898 GTGCCGATTCTACTT
1 GTGCCGATTCTACTT
190913 GTGCCGATTCTACTT
1 GTGCCGATTCTACTT
*
190928 GTGCCGGTTCTACTT
1 GTGCCGATTCTACTT
190943 GTGCC
1 GTGCC
190948 AAACAAGGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.10, C:0.28, G:0.24, T:0.38
Consensus pattern (15 bp):
GTGCCGATTCTACTT
Found at i:193521 original size:17 final size:17
Alignment explanation
Indices: 193501--193549 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
193491 GGGAAGTAGT
193501 TCATTAATTAAACTAGA
1 TCATTAATTAAACTAGA
* * *
193518 TCATTCATCAAACTAGT
1 TCATTAATTAAACTAGA
*
193535 TCATTTATTAAACTA
1 TCATTAATTAAACTA
193550 ACTCTTAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (17 bp):
TCATTAATTAAACTAGA
Found at i:200049 original size:24 final size:24
Alignment explanation
Indices: 200022--200146 Score: 121
Period size: 24 Copynumber: 5.3 Consensus size: 24
200012 CGAAGTGTCA
200022 CGTAGAATTTGTCTCGAAGGACCG
1 CGTAGAATTTGTCTCGAAGGACCG
* *
200046 CGTA-ACATTGGTCTCGAAGGATCG
1 CGTAGA-ATTTGTCTCGAAGGACCG
* *
200070 CGTAGCATTGGTCTCGAAGGACCG
1 CGTAGAATTTGTCTCGAAGGACCG
* * *
200094 AGTAGAA-TTGTCCCGAAGGACCA
1 CGTAGAATTTGTCTCGAAGGACCG
* * *
200117 CATAG-ATTTGTCCCGAAGGACAG
1 CGTAGAATTTGTCTCGAAGGACCG
*
200140 CATAGAA
1 CGTAGAA
200147 CCCATGACTC
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
22 1 0.01
23 36 0.43
24 47 0.56
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (24 bp):
CGTAGAATTTGTCTCGAAGGACCG
Found at i:200143 original size:23 final size:23
Alignment explanation
Indices: 200096--200146 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
200086 AAGGACCGAG
200096 TAGAATTGTCCCGAAGGACCACA
1 TAGAATTGTCCCGAAGGACCACA
*
200119 TAGATTTGTCCCGAAGGA-CAGCA
1 TAGAATTGTCCCGAAGGACCA-CA
200142 TAGAA
1 TAGAA
200147 CCCATGACTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (23 bp):
TAGAATTGTCCCGAAGGACCACA
Found at i:207036 original size:45 final size:45
Alignment explanation
Indices: 206926--207238 Score: 360
Period size: 45 Copynumber: 7.0 Consensus size: 45
206916 CCTTTATTCA
* * * *
206926 TGTTTATAATGCA-CCACTATTCATTTTTAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAACATACTTTTC
* *
206972 TGTTGATAATGTA-CCATATGCATTTAAACTATAACATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTTC
*
207016 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTTC
* * ** *
207061 TGTTGATAATGCACTCATATGCATTTGAACTATGCCATAATTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTTC
* * *
207106 AGTTGAAAATGCACCCATATGCATTTCAACTATAACATACTTTCC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTTC
* * * * *
207151 TATTGACAATGCACCCATATGTATTTCAACCATAACATACATTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTTC
* * * * **
207196 TGTTGACAATGTACCCAGATGCATTTTAACTATAGTATACTTT
1 TGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTT
207239 CTTGCCAATA
Statistics
Matches: 229, Mismatches: 37, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
44 32 0.14
45 183 0.80
46 14 0.06
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTTC
Found at i:207095 original size:23 final size:23
Alignment explanation
Indices: 207069--207138 Score: 54
Period size: 23 Copynumber: 3.1 Consensus size: 23
207059 TCTGTTGATA
207069 ATGCACTCATATGCATTTGAACT
1 ATGCACTCATATGCATTTGAACT
* * * * *
207092 ATGC-CATAATTTTCAGTTGAA-A
1 ATGCAC-TCATATGCATTTGAACT
* *
207114 ATGCACCCATATGCATTTCAACT
1 ATGCACTCATATGCATTTGAACT
207137 AT
1 AT
207139 AACATACTTT
Statistics
Matches: 32, Mismatches: 12, Indels: 6
0.64 0.24 0.12
Matches are distributed among these distances:
22 14 0.44
23 18 0.56
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (23 bp):
ATGCACTCATATGCATTTGAACT
Found at i:214014 original size:45 final size:45
Alignment explanation
Indices: 213922--214261 Score: 427
Period size: 45 Copynumber: 7.6 Consensus size: 45
213912 CCTCCATTCA
* *
213922 TGTTTATAATGCA-CCATTATGCATTTTTAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACTTTTC
* *
213968 TGTTTATAATGAACCCATATGCATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* * *
214013 TGTTGATAATGCACTCATATGTATTTCAACTATAGCGTACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
*
214058 TGTTGATAATGCA-CCATATGCATTTCAACTAT-GCCATAATTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAG-CATACTTTTC
* * *
214102 TGTTGATATTGCACCCATATGCATTTCAACTATATCATACTTTTT
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* * *
214147 TGTTTACAATGCACCCATATACATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* * * *
214192 TATTGATAATGCATCCATATGCATTTCAACTATGGCAT-CCTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
***
214236 ATGCCAATAATGCACCCATATGCATT
1 -TGTTGATAATGCACCCATATGCATT
214262 ATTATTTTCA
Statistics
Matches: 256, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.00
44 42 0.16
45 192 0.75
46 18 0.07
47 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
Found at i:214190 original size:134 final size:133
Alignment explanation
Indices: 213922--214225 Score: 428
Period size: 134 Copynumber: 2.2 Consensus size: 133
213912 CCTCCATTCA
* * * *
213922 TGTTTATAATGCACCATTATGCATTTTTAACTATAGCATACTTTTCTGTTTATAATGAACCCATA
1 TGTTGATAATGCACCA-TATGCA-TTTCAACTAT-GCATAATTTTCTGTTGATAATGAACCCATA
* * ** *
213987 TGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACTCATATGTATTTCAACTATAGCGTA
63 TGCATTTCAACTATAGCATACTTTTCTGTTGACAATGCACCCATATACATTTCAACTATAGCATA
214052 CTTTTC
128 CTTTTC
* *
214058 TGTTGATAATGCACCATATGCATTTCAACTATGCCATAATTTTCTGTTGATATTGCACCCATATG
1 TGTTGATAATGCACCATATGCATTTCAACTATG-CATAATTTTCTGTTGATAATGAACCCATATG
* * *
214123 CATTTCAACTATATCATACTTTTTTGTTTACAATGCACCCATATACATTTCAACTATAGCATACT
65 CATTTCAACTATAGCATACTTTTCTGTTGACAATGCACCCATATACATTTCAACTATAGCATACT
214188 TTTC
130 TTTC
*
214192 TATTGATAATGCATCCATATGCATTTCAACTATG
1 TGTTGATAATGCA-CCATATGCATTTCAACTATG
214226 GCATCCTTTC
Statistics
Matches: 151, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
133 1 0.01
134 109 0.72
135 26 0.17
136 15 0.10
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (133 bp):
TGTTGATAATGCACCATATGCATTTCAACTATGCATAATTTTCTGTTGATAATGAACCCATATGC
ATTTCAACTATAGCATACTTTTCTGTTGACAATGCACCCATATACATTTCAACTATAGCATACTT
TTC
Found at i:214250 original size:179 final size:181
Alignment explanation
Indices: 213922--214261 Score: 474
Period size: 179 Copynumber: 1.9 Consensus size: 181
213912 CCTCCATTCA
* * *
213922 TGTTTATAATGCACCATTATGCATTTTTAACTATAGCATACTTTTCTGTTTATAATGAACCCATA
1 TGTTGATAATGCACCATTATGCATTTTCAACTATAGCATACTTTTCTGTTTACAATGAACCCATA
* * * *
213987 TGCATTTCAACTATAGCATACTTTTCTGTTGATAATGCACTCATATGTATTTCAACTATAGCGTA
66 TACATTTCAACTATAGCATACTTTTCTATTGATAATGCACTCATATGCATTTCAACTATAGCATA
* ***
214052 CTTTTCTGTTGATAATGCA-CCATATGCATTTCAACTATGCCATAATTTTC
131 CCTTTCTGCCAATAATGCACCCATATGCATTTCAACTATGCCATAATTTTC
* * * *
214102 TGTTGATATTGCACCCA-TATGCA-TTTCAACTATATCATACTTTTTTGTTTACAATGCACCCAT
1 TGTTGATAATGCA-CCATTATGCATTTTCAACTATAGCATACTTTTCTGTTTACAATGAACCCAT
*
214165 ATACATTTCAACTATAGCATACTTTTCTATTGATAATGCA-TCCATATGCATTTCAACTATGGCA
65 ATACATTTCAACTATAGCATACTTTTCTATTGATAATGCACT-CATATGCATTTCAACTATAGCA
214229 T-CCTTTCATGCCAATAATGCACCCATATGCATT
129 TACCTTTC-TGCCAATAATGCACCCATATGCATT
214262 ATTATTTTCA
Statistics
Matches: 140, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
178 6 0.04
179 103 0.74
180 28 0.20
181 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (181 bp):
TGTTGATAATGCACCATTATGCATTTTCAACTATAGCATACTTTTCTGTTTACAATGAACCCATA
TACATTTCAACTATAGCATACTTTTCTATTGATAATGCACTCATATGCATTTCAACTATAGCATA
CCTTTCTGCCAATAATGCACCCATATGCATTTCAACTATGCCATAATTTTC
Found at i:215901 original size:15 final size:15
Alignment explanation
Indices: 215883--215942 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
215873 CACAAGGCAC
* *
215883 TTTCACGTAGAATAT
1 TTTCACATAGAACAT
* *
215898 TTTCACTTAGCACAT
1 TTTCACATAGAACAT
*
215913 TTTAACATAGAACAT
1 TTTCACATAGAACAT
* *
215928 TTTCATATAAAACAT
1 TTTCACATAGAACAT
215943 AATCATATGC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (15 bp):
TTTCACATAGAACAT
Found at i:220723 original size:31 final size:32
Alignment explanation
Indices: 220688--220769 Score: 112
Period size: 32 Copynumber: 2.6 Consensus size: 32
220678 TTAATGCTTC
*
220688 TAATGTAATGTAGGAGTTAAT-GTTTCTAATG
1 TAATGTAATGTAAGAGTTAATGGTTTCTAATG
* *
220719 TAATGTAATGCAAGAGTTAATGGTTTTTAATG
1 TAATGTAATGTAAGAGTTAATGGTTTCTAATG
* *
220751 TAATGTGATGTATGAGTTA
1 TAATGTAATGTAAGAGTTA
220770 CAATATGTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 19 0.43
32 25 0.57
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.41
Consensus pattern (32 bp):
TAATGTAATGTAAGAGTTAATGGTTTCTAATG
Found at i:220755 original size:32 final size:31
Alignment explanation
Indices: 220688--220756 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
220678 TTAATGCTTC
* *
220688 TAATGTAATGTAGGAGTTAATGTTTCTAATG
1 TAATGTAATGCAAGAGTTAATGTTTCTAATG
*
220719 TAATGTAATGCAAGAGTTAATGGTTTTTAATG
1 TAATGTAATGCAAGAGTTAAT-GTTTCTAATG
220751 TAATGT
1 TAATGT
220757 GATGTATGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 19 0.56
32 15 0.44
ACGTcount: A:0.33, C:0.03, G:0.22, T:0.42
Consensus pattern (31 bp):
TAATGTAATGCAAGAGTTAATGTTTCTAATG
Found at i:227127 original size:2 final size:2
Alignment explanation
Indices: 227113--227150 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
227103 ATTTTTTAAC
227113 AT AT -T AT AT -T AT AT A- 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 AT AT AT AT AT AT AT AT A
227151 ATTTATTCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:233107 original size:42 final size:42
Alignment explanation
Indices: 233044--233173 Score: 140
Period size: 42 Copynumber: 3.1 Consensus size: 42
233034 AATAAGTAAG
* * *
233044 TCCTCTGGGACATCAGGAAGTCTTCTGAGCATGATGATTAAA
1 TCCTCTAGGTCATCAGTAAGTCTTCTGAGCATGATGATTAAA
*
233086 TCCTCTAGGTCATCAGTAAGTCTT-TCAAGCATGATGATTAAA
1 TCCTCTAGGTCATCAGTAAGTCTTCT-GAGCATGATGATTAAA
* * * * *
233128 TCATAC-AGGTCATCTGTAAGTTTTCCGAGCAAGATGA-TAAA
1 TCCT-CTAGGTCATCAGTAAGTCTTCTGAGCATGATGATTAAA
233169 TCCTC
1 TCCTC
233174 CGGGATATTT
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
40 1 0.01
41 8 0.11
42 64 0.86
43 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (42 bp):
TCCTCTAGGTCATCAGTAAGTCTTCTGAGCATGATGATTAAA
Found at i:233304 original size:50 final size:50
Alignment explanation
Indices: 233223--233554 Score: 253
Period size: 50 Copynumber: 6.7 Consensus size: 50
233213 GGAAAATCTT
* * *
233223 ACCTAACTTTCTTGTTTAGAGGATTCAATCTTTCGGTAATGTTACCTTCA
1 ACCTGACTTTCTTATTTAGAGGAGTCAATCTTTCGGTAATGTTACCTTCA
* * * * *
233273 ACCTGACTTTCTCATTTAAAGGAGTCAATCTTTTGGTAATGTTACATTTA
1 ACCTGACTTTCTTATTTAGAGGAGTCAATCTTTCGGTAATGTTACCTTCA
** * * * *
233323 GTCTGAGTTTTTTATTTAGAGGAGTCAATC-TTCTG-ATATGTTACCTTCG
1 ACCTGACTTTCTTATTTAGAGGAGTCAATCTTTCGGTA-ATGTTACCTTCA
* *
233372 ACCTGACTTTCTTGTTTAGAGGAGTCAATCTTTTGGTAATGTTACCCTT-A
1 ACCTGACTTTCTTATTTAGAGGAGTCAATCTTTCGGTAATGTTA-CCTTCA
* * * * ** * * * *
233422 GCC-AAATTTATCCTTTAGAGGGGTCAATCTTTAGATAATGTTACCCTCA
1 ACCTGACTTTCTTATTTAGAGGAGTCAATCTTTCGGTAATGTTACCTTCA
* * * * ** *
233471 ACTTGACATTT-TCATTTAAAGGAGTGAATCTTTCAATAATATTATCC-TCA
1 ACCTGAC-TTTCTTATTTAGAGGAGTCAATCTTTCGGTAATGTTA-CCTTCA
* ** *
233521 ACTTGACTTTCTTATTTAGATAAGTCGATCTTTC
1 ACCTGACTTTCTTATTTAGAGGAGTCAATCTTTC
233555 AATAATATTA
Statistics
Matches: 219, Mismatches: 54, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
48 4 0.02
49 74 0.34
50 131 0.60
51 10 0.05
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (50 bp):
ACCTGACTTTCTTATTTAGAGGAGTCAATCTTTCGGTAATGTTACCTTCA
Found at i:233377 original size:99 final size:99
Alignment explanation
Indices: 233237--233503 Score: 315
Period size: 99 Copynumber: 2.7 Consensus size: 99
233227 AACTTTCTTG
* * *
233237 TTTAGAGGATTCAATCTTTCGGTAATGTTACCTTCAACCTGACTTTCTCATTTAAAGGAGTCAAT
1 TTTAGAGGAGTCAATCTTTAGATAATGTTACCTTCAACCTGACTTTCTCATTTAAAGGAGTCAAT
* ** * * *
233302 CTTTTGGTAATGTTACATTTAGTCTGAGTTTTTTA
66 CTTTTGGTAATGTTACACTTAG-CCAAATTTATCA
* ** *
233337 TTTAGAGGAGTCAATCTTCT-GAT-ATGTTACCTTCGACCTGACTTTCTTGTTTAGAGGAGTCAA
1 TTTAGAGGAGTCAATCTT-TAGATAATGTTACCTTCAACCTGACTTTCTCATTTAAAGGAGTCAA
* *
233400 TCTTTTGGTAATGTTACCCTTAGCCAAATTTATCC
65 TCTTTTGGTAATGTTACACTTAGCCAAATTTATCA
* * * *
233435 TTTAGAGGGGTCAATCTTTAGATAATGTTACCCTCAACTTGACATTT-TCATTTAAAGGAGTGAA
1 TTTAGAGGAGTCAATCTTTAGATAATGTTACCTTCAACCTGAC-TTTCTCATTTAAAGGAGTCAA
233499 TCTTT
65 TCTTT
233504 CAATAATATT
Statistics
Matches: 141, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
97 1 0.01
98 26 0.18
99 91 0.65
100 22 0.16
101 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.41
Consensus pattern (99 bp):
TTTAGAGGAGTCAATCTTTAGATAATGTTACCTTCAACCTGACTTTCTCATTTAAAGGAGTCAAT
CTTTTGGTAATGTTACACTTAGCCAAATTTATCA
Found at i:233658 original size:50 final size:48
Alignment explanation
Indices: 233604--233760 Score: 145
Period size: 50 Copynumber: 3.1 Consensus size: 48
233594 TATTTTAGTG
* *
233604 ATGTTATCCTCAGCCTGACTTTCTCGTGGAGATGAGTCAAACTTTCAGTA
1 ATGTTATCCTCA-CCTGACTTTCTCGTAGAGA-GAGTCAAACTTTAAGTA
* * * * * *
233654 ATGTTAGTCTTGACCTTACTTTCTTGCATAGAGA-AGTCAATCTTTAAGTG
1 ATGTTA-TCCTCACCTGACTTTC-T-CGTAGAGAGAGTCAAACTTTAAGTA
* *
233704 ATGTTATCCTCAACTTGACTTTCTCGTAGAGAGGAGTCAAACTTTTAGTA
1 ATGTTATCCTC-ACCTGACTTTCTCGTAGAGA-GAGTCAAACTTTAAGTA
*
233754 ATATTAT
1 ATGTTAT
233761 ATTCAATCCT
Statistics
Matches: 84, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
48 7 0.08
49 4 0.05
50 62 0.74
51 5 0.06
52 6 0.07
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (48 bp):
ATGTTATCCTCACCTGACTTTCTCGTAGAGAGAGTCAAACTTTAAGTA
Found at i:237235 original size:17 final size:17
Alignment explanation
Indices: 237205--237254 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
237195 TAAGAGTTAT
* *
237205 TTTAATAAATGAACTCG
1 TTTAATTAATGAACTAG
* *
237222 TTTGATTTATGAACTAG
1 TTTAATTAATGAACTAG
237239 TTTAATTAATGAACTA
1 TTTAATTAATGAACTA
237255 ACTTTATTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (17 bp):
TTTAATTAATGAACTAG
Found at i:237263 original size:17 final size:18
Alignment explanation
Indices: 237205--237269 Score: 50
Period size: 17 Copynumber: 3.8 Consensus size: 18
237195 TAAGAGTTAT
237205 TTTAA-TAAATGAACT-C
1 TTTAATTAAATGAACTAC
* * *
237221 GTTTGATT-TATGAACTAG
1 -TTTAATTAAATGAACTAC
237239 TTTAATT-AATGAACTAAC
1 TTTAATTAAATGAACT-AC
237257 TTT-ATTAAATGAA
1 TTTAATTAAATGAA
237270 ATAGATGCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
17 27 0.71
18 11 0.29
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (18 bp):
TTTAATTAAATGAACTAC
Found at i:238613 original size:2 final size:2
Alignment explanation
Indices: 238606--238642 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
238596 GTTTGTCTAA
238606 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
238643 CCACCTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:242800 original size:20 final size:20
Alignment explanation
Indices: 242763--242801 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
242753 AGGAAAAGAG
* *
242763 AGAGAGAGAGAGAGAAAAAA
1 AGAGAGAGAAAGACAAAAAA
*
242783 AGAGAGAGAAAGCCAAAAA
1 AGAGAGAGAAAGACAAAAA
242802 TAAAAAAATA
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:0.64, C:0.05, G:0.31, T:0.00
Consensus pattern (20 bp):
AGAGAGAGAAAGACAAAAAA
Found at i:247108 original size:41 final size:41
Alignment explanation
Indices: 247051--247144 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
247041 TTGTTCAATA
* *
247051 GATCGATCCCTTTTCAAAAGTATTGATC-CATCGGGGAAAAG
1 GATCGATCCCTTTTCAAAAGGATCGATCTC-TCGGGGAAAAG
*
247092 GATCGATTCCTTTTCAAAAGGATCGATCTCTCGGGGAAAAG
1 GATCGATCCCTTTTCAAAAGGATCGATCTCTCGGGGAAAAG
*
247133 AATCGATCCCTT
1 GATCGATCCCTT
247145 CGTTGTTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 46 0.98
42 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (41 bp):
GATCGATCCCTTTTCAAAAGGATCGATCTCTCGGGGAAAAG
Found at i:251253 original size:21 final size:22
Alignment explanation
Indices: 251228--251271 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
251218 TTGGTTCTAA
* *
251228 CCAACTTTTCAA-CTTAAAATT
1 CCAACATTTCAATATTAAAATT
251249 CCAACATTTCAATATTAAAATT
1 CCAACATTTCAATATTAAAATT
251271 C
1 C
251272 AGCATTGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (22 bp):
CCAACATTTCAATATTAAAATT
Found at i:255006 original size:21 final size:23
Alignment explanation
Indices: 254973--255017 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
254963 CCAAACAAAT
254973 TCTTCAAAAAAATAATTTT-TTC
1 TCTTCAAAAAAATAATTTTCTTC
*
254995 TCTT-AAACAAATAATTTTCTTC
1 TCTTCAAAAAAATAATTTTCTTC
255017 T
1 T
255018 TAATAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (23 bp):
TCTTCAAAAAAATAATTTTCTTC
Found at i:261020 original size:32 final size:32
Alignment explanation
Indices: 260984--261048 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
260974 TTACAAATGA
260984 AATAGGAAAGCCTATTTATAGTTTTTGAAGGG
1 AATAGGAAAGCCTATTTATAGTTTTTGAAGGG
261016 AATAGGAAAGCCTATTTATAGTTTTTGAAGGG
1 AATAGGAAAGCCTATTTATAGTTTTTGAAGGG
261048 A
1 A
261049 CTTGGCCGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (32 bp):
AATAGGAAAGCCTATTTATAGTTTTTGAAGGG
Found at i:262506 original size:20 final size:20
Alignment explanation
Indices: 262462--262514 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
262452 CTTGGGCAGG
262462 GTATCAATACTAAAGAGATA
1 GTATCAATACTAAAGAGATA
* *
262482 ATATCAATACTACAA-AGCTA
1 GTATCAATACTA-AAGAGATA
*
262502 GTATCGATACTAA
1 GTATCAATACTAA
262515 GGTTGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 25 0.89
21 2 0.07
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.26
Consensus pattern (20 bp):
GTATCAATACTAAAGAGATA
Found at i:275861 original size:21 final size:22
Alignment explanation
Indices: 275815--275867 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
275805 TTTTCGTTGG
275815 TATATATAAATCTAAAATTTAAT
1 TATATATAAATCTAAAATTT-AT
*
275838 TATATATCAAA-CTTAAATTT-T
1 TATATAT-AAATCTAAAATTTAT
275859 TATATATAA
1 TATATATAA
275868 TTATTCAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 8 0.29
23 15 0.54
24 3 0.11
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATATAAATCTAAAATTTAT
Found at i:288467 original size:26 final size:28
Alignment explanation
Indices: 288436--288492 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
288426 AAAATTGGAA
*
288436 AATAT-AAGAAAAATAAA-AGGTAAAAT
1 AATATAAAGAAAAATAAACAAGTAAAAT
*
288462 AATATAAAAGAAATATAAACAAGTAAAAT
1 AATAT-AAAGAAAAATAAACAAGTAAAAT
288491 AA
1 AA
288493 CAATGCTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 5 0.19
28 11 0.42
29 10 0.38
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (28 bp):
AATATAAAGAAAAATAAACAAGTAAAAT
Found at i:291814 original size:31 final size:31
Alignment explanation
Indices: 291776--291837 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
291766 TAAGGTAACC
*
291776 TTACCCTATTTTTCATTCCATGACCATCATA
1 TTACCCTATTTTTCATTCCATAACCATCATA
291807 TTACCCTATTTTTCATTCCATAACCATCATA
1 TTACCCTATTTTTCATTCCATAACCATCATA
291838 GTTGACATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.29, G:0.02, T:0.42
Consensus pattern (31 bp):
TTACCCTATTTTTCATTCCATAACCATCATA
Found at i:293019 original size:18 final size:18
Alignment explanation
Indices: 292996--293035 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
292986 GGTACTCTAG
292996 GGTTAGTATTGATACAAA
1 GGTTAGTATTGATACAAA
293014 GGTTAGTATTGATACAAA
1 GGTTAGTATTGATACAAA
293032 GGTT
1 GGTT
293036 GAGTTTTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (18 bp):
GGTTAGTATTGATACAAA
Found at i:298128 original size:40 final size:45
Alignment explanation
Indices: 298084--298178 Score: 112
Period size: 46 Copynumber: 2.2 Consensus size: 45
298074 AGAATAAAAT
*
298084 AATAATAAACT-AAACA-TGTTTTAA-C-TC-TAATTCCTAATAA
1 AATAATAAACTAAAACATTGTTTTAACCACCTTAATTCCTAATAA
*
298124 AATAAT-AACTAAAATATTGTTTTAACCCAACCTTAATTCCTAATAA
1 AATAATAAACTAAAACATTGTTTTAA-CC-ACCTTAATTCCTAATAA
298170 AATAATAAA
1 AATAATAAA
298179 TCTGATCTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
39 4 0.09
40 10 0.22
41 8 0.18
43 1 0.02
45 1 0.02
46 19 0.42
47 2 0.04
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (45 bp):
AATAATAAACTAAAACATTGTTTTAACCACCTTAATTCCTAATAA
Found at i:306231 original size:34 final size:33
Alignment explanation
Indices: 306187--306305 Score: 107
Period size: 34 Copynumber: 3.5 Consensus size: 33
306177 CAAACGAACA
* * *
306187 CAAACATTAAACGAACGCTAAAAGAATATGATCG
1 CAAACGTTAAACGAACACTAAAAGAACATG-TCG
*
306221 CAAACGTTAAACGAACACTAACCAG-ACATGTTCG
1 CAAACGTTAAACGAACACTAA-AAGAACATG-TCG
* * *
306255 CAAACATTTAAACGAACATTAAATGAACATGTC-
1 CAAAC-GTTAAACGAACACTAAAAGAACATGTCG
306288 CACGAACGTTAAACGAAC
1 CA--AACGTTAAACGAAC
306306 GAACACAAAC
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
33 2 0.03
34 44 0.63
35 24 0.34
ACGTcount: A:0.46, C:0.22, G:0.13, T:0.18
Consensus pattern (33 bp):
CAAACGTTAAACGAACACTAAAAGAACATGTCG
Found at i:306270 original size:35 final size:34
Alignment explanation
Indices: 306187--306285 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 34
306177 CAAACGAACA
* *
306187 CAAACATTAAACGAACGCTAAAAGAATATGATCG
1 CAAACATTAAACGAACACTAAAAGAACATGATCG
* * *
306221 CAAACGTTAAACGAACACTAACCAG-ACATGTTCG
1 CAAACATTAAACGAACACTAA-AAGAACATGATCG
* *
306255 CAAACATTTAAACGAACATTAAATGAACATG
1 CAAACA-TTAAACGAACACTAAAAGAACATG
306286 TCCACGAACG
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
34 32 0.60
35 21 0.40
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.19
Consensus pattern (34 bp):
CAAACATTAAACGAACACTAAAAGAACATGATCG
Found at i:309621 original size:21 final size:21
Alignment explanation
Indices: 309597--309638 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
309587 AGTTTATTTT
309597 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
309618 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
309639 AACTTGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:309683 original size:33 final size:33
Alignment explanation
Indices: 309633--309735 Score: 156
Period size: 33 Copynumber: 3.2 Consensus size: 33
309623 TTTGTTTCAA
309633 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
*
309665 TTATTGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
309698 TTATCAAACTTGGAAGTATTTAAGTATTTCAA-
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
309730 TTATCG
1 TTATCG
309736 TAAACTTTGT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 15 0.23
33 49 0.77
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.46
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:309829 original size:15 final size:15
Alignment explanation
Indices: 309777--309829 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
309767 TTTAATAATA
309777 TTAAAATCGGTTTTT
1 TTAAAATCGGTTTTT
* *
309792 TTATAACCGGTTTTT
1 TTAAAATCGGTTTTT
*
309807 TAAAAAAATCGGTTTTT
1 T--TAAAATCGGTTTTT
309824 TTAAAA
1 TTAAAA
309830 CCGAAACCGG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 18 0.60
17 12 0.40
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (15 bp):
TTAAAATCGGTTTTT
Found at i:312224 original size:20 final size:19
Alignment explanation
Indices: 312181--312230 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
312171 TATTAATTAT
*
312181 AAAATTTAGTATAAATAAA
1 AAAAGTTAGTATAAATAAA
*
312200 AAAAG-TAGTATAAACATATA
1 AAAAGTTAGTAT-AA-ATAAA
312220 AAAAGTTAGTA
1 AAAAGTTAGTA
312231 ATTTACCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.23
19 6 0.23
20 9 0.35
21 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.28
Consensus pattern (19 bp):
AAAAGTTAGTATAAATAAA
Found at i:313193 original size:31 final size:31
Alignment explanation
Indices: 313134--313279 Score: 150
Period size: 32 Copynumber: 4.6 Consensus size: 31
313124 GCCCATTGGT
* * * *
313134 CCTAGGAGCCAACCTAAGGTAATGCCTTGGGG
1 CCTAAGAGCCTACCCAAGG-AATACCTTGGGG
*
313166 CCTTAGAGCCTACCCAAGGAATACCTTGGGG
1 CCTAAGAGCCTACCCAAGGAATACCTTGGGG
* * * *
313197 CCTCATAGCCTACCCAATGAAGTACCATGGGG
1 CCTAAGAGCCTACCCAAGGAA-TACCTTGGGG
* *
313229 CCTGAA-AGCCTACCCAAGGGAATATCTCGGGG
1 CCT-AAGAGCCTACCCAA-GGAATACCTTGGGG
313261 CCTAAGAGCCTACCCAAGG
1 CCTAAGAGCCTACCCAAGG
313280 GTCACCTTAG
Statistics
Matches: 96, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
31 33 0.34
32 59 0.61
33 4 0.04
ACGTcount: A:0.27, C:0.29, G:0.26, T:0.17
Consensus pattern (31 bp):
CCTAAGAGCCTACCCAAGGAATACCTTGGGG
Found at i:315181 original size:23 final size:23
Alignment explanation
Indices: 315091--315173 Score: 139
Period size: 23 Copynumber: 3.6 Consensus size: 23
315081 CATCTTATAT
*
315091 GGCACTTCGGTGCAGTTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
315114 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
315137 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
*
315160 GGCACTTTGGTGCA
1 GGCACTTCGGTGCA
315174 TTTATACGAG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.16, C:0.28, G:0.29, T:0.28
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:321839 original size:23 final size:23
Alignment explanation
Indices: 321808--321852 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
321798 ACATCTTATA
321808 TGGCACTTCGGTACAATTCTACG
1 TGGCACTTCGGTACAATTCTACG
* *
321831 TGGCTCTTCGGTGCAATTCTAC
1 TGGCACTTCGGTACAATTCTAC
321853 AAGTTGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (23 bp):
TGGCACTTCGGTACAATTCTACG
Found at i:325545 original size:863 final size:859
Alignment explanation
Indices: 323836--325549 Score: 2799
Period size: 864 Copynumber: 2.0 Consensus size: 859
323826 TAACCATAAC
*
323836 TTTTATTTTTATTTTGAAAGCCAAGGAAAAAATGGGTAATTTTAGATTCAGGTCATTGAATTGAT
1 TTTTATTTTTATTTTGAAAGCCAAGG-AAAAATGGGTAATTTCAGATTCAGGTCATTGAATTGAT
*
323901 CAGAATCTTACAAAATAGATCCTATGTTCTCAAATTCTCACAAATAGTCCCTCAAAGGAATAATT
65 CAGAATCTTACAAAATAGATCCTAAGTTCTCAAATTCTCACAAATAGTCCCTCAAAGGAATAATT
** *
323966 AAAGTTATTAATATTAATCTATAAAATTTTGGGGTGTGACAATTTTCGATATAAAAATGTCAAAA
130 AAAGTTATTAATATTAATCTATAAAATTTCAGGGTGTGACAATTTTCGATATAAAAATGCCAAAA
*
324031 TAGTCGAGCCCCAACTAGTGTTGCAACACTCAGTAAAATTCTTCAATATCATAAGATACTGAATG
195 TAGTCGAGCCCCAACTACTGTTGCAACACTCAGTAAAATTCTTCAATATCATAAGATACTGAATG
*
324096 TGCATCAAATTACCAATTTATTCGGTAATAATATTCCTTCAATTGGAGAAGATATCTCGAGCTGT
260 TGCATCAAATTACCAATTTATTCGGTAATAATATTCCTTCAATTGGAGAAGATATCTCGAGCTAT
* *
324161 AAATATGGCCTCCTCTTCGGTAGAGTCATTAGTTACATTAAATTCGAACTTCAACCAAGTGATCC
325 AAATATGGCCTCCTCTTCGGTAGAGTCATTAGTCACATTAAATTCAAACTTCAACCAAGTGATCC
* * * * **
324226 GTATCTAATACCCCTCTAAGGCCACTGGTGTTGGCATCCTTCACAAAACTTGGTGAACTATAGCG
390 GTAACCAATACCCCTCTAAGGCCACTGGTGATGGCATCCTTCACAAAACTTGGTGAACAATAGAA
*
324291 AATCGGTTGAAATCGTTCTGCCTCACTAGTGTCGCACCATTAACTGGAACACCGAGTTAGTAAGC
455 AATCGGTTGAAATCGTTCTGCCTCACTAGTGTCGCACAATTAACTGGAACACCGAGTTAGTAAGC
* * *
324356 GACATCTTCCAACGTAATCATGGAAACACCACTCGGGAAATGGAAAGTATGTGTCTCGATCCTCC
520 AACATCTTCCAACGTAATCATCGAAACACCACTCGGGAAATGAAAAGTATGTGTCTCGATCCTCC
* *
324421 AACGTTAAATCAGAGCCGAAATCAATGTCAGGTTCACCTTAAAACCACGTAGAAATGTGGCTGGA
585 AACGTTAAATCAGAGCCGAAATCAATGCCAGGTTCACCTTAAAACCACATAGAAATGTGGCTGGA
324486 TACAACCCAGATTGTTCAAGATATATAATAATCCGCAGATGCAGATCTCTCGCTGTCATTCCTCG
650 TACAACCCAGATTGTTCAAGATATATAATAATCCGCAGATGCAGATCTCTCGCTGTCATTCCTCG
* * *
324551 TTGGCGAATGCCCATTCTTCTTTCGGGCCAAGTTCGATCGAAGAAATATGGACATCATCAAGGCA
715 TTGACGAATGCCCATTCTTCTTTCGGGCCAAGCTCGATCGAAGAAATATGGACATCATCAAGACA
* * *
324616 TGACATTTCTTCTTGGGTAGACATTTTTCGGGAATTCTTCCAAAACTAAGCTATTTTTTCTTCAA
780 TAACATTTCTTCTCGGGTACACATTTTTCGGGAATTCTTCCAAAACTAAGCTATTTTTTCTTCAA
324681 TTTTTTAAACACAAG
845 TTTTTTAAACACAAG
* *
324696 TTTTATTTTTATTTTGAAAGCCAAGG-AAAATGGGTAATTTCAGATTCAGGTCCTTGAATTGATT
1 TTTTATTTTTATTTTGAAAGCCAAGGAAAAATGGGTAATTTCAGATTCAGGTCATTGAATTGATC
* *
324760 TGAATCTTACAAAATAGATCCTAAGTTCTCAAATTCTCACAAATAGTCCCTCAAATGAATAATTA
66 AGAATCTTACAAAATAGATCCTAAGTTCTCAAATTCTCACAAATAGTCCCTCAAAGGAATAATTA
* *
324825 AAGTTATTAATATTAATCTATAAAATTTCAGGGTGTGACAATTTTTGTTATAAAAATGCCAAAAT
131 AAGTTATTAATATTAATCTATAAAATTTCAGGGTGTGACAATTTTCGATATAAAAATGCCAAAAT
* * *
324890 GGTCGATCCCCAACTACTGTTGCGACACTCAGTAAAATTCTTCAATATCATAAGATACTGAATGT
196 AGTCGAGCCCCAACTACTGTTGCAACACTCAGTAAAATTCTTCAATATCATAAGATACTGAATGT
*
324955 GCGTCAAATTACCATATTTATTCGGTAATAATATTCCTTCAATCAATTGGAGAAGATATGCTC-A
261 GCATCAAATTACCA-ATTTATTCGGTAATAATATTCC-T---TCAATTGGAGAAGATAT-CTCGA
*
325019 GGCTATAAATATGGCCTCCTCTTCGGTAGAGTCATTAGTCACATTAAATTCAAACTTCAGCCAAG
320 -GCTATAAATATGGCCTCCTCTTCGGTAGAGTCATTAGTCACATTAAATTCAAACTTCAACCAAG
* * * *
325084 TGATCCGTAACCGATACCCCTCTAAGGTCTCTGGTGATGGCATCCTTCGCAAAACTTGGTGAACA
384 TGATCCGTAACCAATACCCCTCTAAGGCCACTGGTGATGGCATCCTTCACAAAACTTGGTGAACA
* * *
325149 ATAGAAAATCGGTTGAAATCGTTCTGCCTTATTAGTGTCGCACAATTAACT-GAACACCGAGTTG
449 ATAGAAAATCGGTTGAAATCGTTCTGCCTCACTAGTGTCGCACAATTAACTGGAACACCGAGTTA
* * *** *
325213 GTAAGCAACATCTTCTAACGTAATCGTCGCTTCACCACTCGGGAAATGAAAAGTATGTGTCTCGG
514 GTAAGCAACATCTTCCAACGTAATCATCGAAACACCACTCGGGAAATGAAAAGTATGTGTCTCGA
*
325278 TCCTCCAACGTTTAATCAGAGCCGAAATCAATGCCAGGTTCACCTTAAAACCACATAGAAATGTG
579 TCCTCCAACGTTAAATCAGAGCCGAAATCAATGCCAGGTTCACCTTAAAACCACATAGAAATGTG
*
325343 GCTGGATACAACCCAGATTGTTCAAGATATATAATAATCCGCAGATGCAGATCTCTCGTTGTCAT
644 GCTGGATACAACCCAGATTGTTCAAGATATATAATAATCCGCAGATGCAGATCTCTCGCTGTCAT
*
325408 TCCTCGTTGACGAATGCCTCATTCTTC-TTCAGGGCCAAGCTCGGTCGAAGAAATATGGACATCA
709 TCCTCGTTGACGAATGCC-CATTCTTCTTTC-GGGCCAAGCTCGATCGAAGAAATATGGACATCA
* *
325472 TCAAGACATAACATTTCTTCTCGGGTACACGTTTTTCGGGAATTCTTCCAAAACTATGCT-TTTT
772 TCAAGACATAACATTTCTTCTCGGGTACACATTTTTCGGGAATTCTTCCAAAACTAAGCTATTTT
325536 TTCTTCAATTTTTT
837 TTCTTCAATTTTTT
325550 TCTTAACAAT
Statistics
Matches: 789, Mismatches: 56, Indels: 15
0.92 0.07 0.02
Matches are distributed among these distances:
858 231 0.29
859 22 0.03
860 27 0.03
863 250 0.32
864 259 0.33
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (859 bp):
TTTTATTTTTATTTTGAAAGCCAAGGAAAAATGGGTAATTTCAGATTCAGGTCATTGAATTGATC
AGAATCTTACAAAATAGATCCTAAGTTCTCAAATTCTCACAAATAGTCCCTCAAAGGAATAATTA
AAGTTATTAATATTAATCTATAAAATTTCAGGGTGTGACAATTTTCGATATAAAAATGCCAAAAT
AGTCGAGCCCCAACTACTGTTGCAACACTCAGTAAAATTCTTCAATATCATAAGATACTGAATGT
GCATCAAATTACCAATTTATTCGGTAATAATATTCCTTCAATTGGAGAAGATATCTCGAGCTATA
AATATGGCCTCCTCTTCGGTAGAGTCATTAGTCACATTAAATTCAAACTTCAACCAAGTGATCCG
TAACCAATACCCCTCTAAGGCCACTGGTGATGGCATCCTTCACAAAACTTGGTGAACAATAGAAA
ATCGGTTGAAATCGTTCTGCCTCACTAGTGTCGCACAATTAACTGGAACACCGAGTTAGTAAGCA
ACATCTTCCAACGTAATCATCGAAACACCACTCGGGAAATGAAAAGTATGTGTCTCGATCCTCCA
ACGTTAAATCAGAGCCGAAATCAATGCCAGGTTCACCTTAAAACCACATAGAAATGTGGCTGGAT
ACAACCCAGATTGTTCAAGATATATAATAATCCGCAGATGCAGATCTCTCGCTGTCATTCCTCGT
TGACGAATGCCCATTCTTCTTTCGGGCCAAGCTCGATCGAAGAAATATGGACATCATCAAGACAT
AACATTTCTTCTCGGGTACACATTTTTCGGGAATTCTTCCAAAACTAAGCTATTTTTTCTTCAAT
TTTTTAAACACAAG
Found at i:326306 original size:21 final size:22
Alignment explanation
Indices: 326276--326317 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
326266 ACCTTATCAT
* *
326276 TACACCTAATAT-TTTTTAACA
1 TACACATAATATATTTATAACA
326297 TACACATAATATATTTATAAC
1 TACACATAATATATTTATAAC
326318 TTAATCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (22 bp):
TACACATAATATATTTATAACA
Found at i:328388 original size:2 final size:2
Alignment explanation
Indices: 328377--328422 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
328367 TAGCCCGGTT
328377 TA TA -A 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 TA TA
328418 TA TA T
1 TA TA T
328423 TCGTAACAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:328860 original size:2 final size:2
Alignment explanation
Indices: 328853--328880 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
328843 TTAAAACATA
328853 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
328881 CTATTAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:333000 original size:17 final size:18
Alignment explanation
Indices: 332978--333030 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 18
332968 AATTAAGAGT
332978 TAGTTT-ATTGAATGAAC
1 TAGTTTAATTGAATGAAC
*
332995 TAGTTTGA-TGAATGAAC
1 TAGTTTAATTGAATGAAC
*
333012 TACTTTAATT-AATGAAC
1 TAGTTTAATTGAATGAAC
333029 TA
1 TA
333031 ACTTTATTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 30 0.94
18 2 0.06
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (18 bp):
TAGTTTAATTGAATGAAC
Found at i:336778 original size:17 final size:17
Alignment explanation
Indices: 336756--336808 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
336746 AATTAAGAGT
336756 TAGTTT-ATTAAATGAAC
1 TAGTTTAATT-AATGAAC
* *
336773 TAGTTTGATGAATGAAC
1 TAGTTTAATTAATGAAC
*
336790 TACTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
336807 TA
1 TA
336809 ACTTTATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 29 0.94
18 2 0.06
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:338206 original size:31 final size:29
Alignment explanation
Indices: 338127--338223 Score: 113
Period size: 29 Copynumber: 3.2 Consensus size: 29
338117 AAAATTGAAT
*
338127 ACTTTAGGTATCTATTTTGACCAAAAAAA
1 ACTTTAGGTATCTATTTTGACCAAAAATA
* *
338156 ACATTGGGTATCTATTTTGACCTAAAAGATA
1 ACTTTAGGTATCTATTTTGACC-AAAA-ATA
* * *
338187 ACTTTATGTATTTATTTTGACCAAAAAAA
1 ACTTTAGGTATCTATTTTGACCAAAAATA
338216 TACTTTAG
1 -ACTTTAG
338224 ATATTGATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
29 22 0.39
30 14 0.25
31 20 0.36
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.38
Consensus pattern (29 bp):
ACTTTAGGTATCTATTTTGACCAAAAATA
Found at i:343168 original size:7 final size:7
Alignment explanation
Indices: 343158--343349 Score: 184
Period size: 7 Copynumber: 26.9 Consensus size: 7
343148 ATACTAAATA
343158 AATATAT
1 AATATAT
343165 AATATA-
1 AATATAT
343171 AATATAAT
1 AATAT-AT
343179 AATAT-T
1 AATATAT
343185 -ATATAT
1 AATATAT
343191 AATATAT
1 AATATAT
343198 AATACTAT
1 AATA-TAT
343206 AATA-AT
1 AATATAT
343212 AATATACTAT
1 -A-ATA-TAT
343222 AATATAT
1 AATATAT
343229 AATACTAT
1 AATA-TAT
343237 -ATA-AT
1 AATATAT
343242 AA-ATAT
1 AATATAT
343248 -ATATAT
1 AATATAT
343254 ATATAATAT
1 A-AT-ATAT
343263 AATATAT
1 AATATAT
*
343270 GATATAT
1 AATATAT
343277 AATATATT
1 AATATA-T
*
343285 ACAAATAT
1 A-ATATAT
*
343293 AGTATAT
1 AATATAT
343300 AATATAT
1 AATATAT
343307 AATATAAT
1 AATAT-AT
343315 ATATATAT
1 A-ATATAT
*
343323 AATATAC
1 AATATAT
343330 AATATAT
1 AATATAT
343337 AATATAT
1 AATATAT
343344 AATATA
1 AATATA
343350 CTATATAATA
Statistics
Matches: 157, Mismatches: 8, Indels: 40
0.77 0.04 0.20
Matches are distributed among these distances:
5 8 0.05
6 16 0.10
7 82 0.52
8 35 0.22
9 14 0.09
10 2 0.01
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (7 bp):
AATATAT
Found at i:343191 original size:2 final size:2
Alignment explanation
Indices: 343159--343360 Score: 137
Period size: 2 Copynumber: 110.0 Consensus size: 2
343149 TACTAAATAA
*
343159 AT AT AT A- AT AT AA AT AT A- AT A- AT AT -T AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
343196 AT A- AT ACT AT A- AT A- AT A- AT AT ACT AT A- AT AT AT A- AT ACT
1 AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T
*
343235 AT AT A- AT AA AT AT AT AT AT AT AT A- AT AT A- AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* *
343275 AT A- AT AT AT -T AC AA AT AT AGT AT AT A- AT AT AT A- AT AT A-
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
*
343313 AT AT AT AT AT A- AT AT AC A- AT AT AT A- AT AT AT A- AT AT ACT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T
343352 AT AT A- AT AT
1 AT AT AT AT AT
343361 GTGTAACATA
Statistics
Matches: 162, Mismatches: 8, Indels: 60
0.70 0.03 0.26
Matches are distributed among these distances:
1 24 0.15
2 126 0.78
3 12 0.07
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (2 bp):
AT
Found at i:343355 original size:7 final size:6
Alignment explanation
Indices: 343159--343360 Score: 137
Period size: 5 Copynumber: 36.7 Consensus size: 6
343149 TACTAAATAA
*
343159 ATATAT A-ATAT AAATAT A-ATA- ATAT-T ATATAT A-ATAT ATA-AT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
*
343201 ACTATA- ATA-AT A-ATAT ACTATA- ATATAT A-ATACT ATATA- ATAAAT
1 A-TATAT ATATAT ATATAT A-TATAT ATATAT ATATA-T ATATAT ATATAT
* *
343246 ATATAT ATATAT A-ATAT A-ATAT ATGATAT ATA-AT ATAT-T ACAAAT
1 ATATAT ATATAT ATATAT ATATAT AT-ATAT ATATAT ATATAT ATATAT
*
343291 ATAGTAT ATA-AT ATATA- ATATA- ATATAT ATATA- ATATAC A-ATAT
1 ATA-TAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
343335 ATA-AT ATATA- ATATACT ATATA- ATAT
1 ATATAT ATATAT ATATA-T ATATAT ATAT
343361 GTGTAACATA
Statistics
Matches: 162, Mismatches: 7, Indels: 55
0.72 0.03 0.25
Matches are distributed among these distances:
4 3 0.02
5 95 0.59
6 41 0.25
7 23 0.14
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (6 bp):
ATATAT
Found at i:343373 original size:44 final size:41
Alignment explanation
Indices: 343155--343360 Score: 180
Period size: 44 Copynumber: 5.0 Consensus size: 41
343145 AAAATACTAA
*
343155 ATAAATATATAATATA-AATATAATAATATTATATATAATA-T
1 ATAAATATACAATATATAATAT-ATAATA-TATATATAATATT
* *
343196 AT-AATACTATAATA-ATAATATACT-ATA-ATATATAATACT
1 ATAAATA-TACAATATATAATATA-TAATATATATATAATATT
* *
343235 ATATA-ATA-AATATATATATATATAATATAATATATGATA-T
1 ATAAATATACAATATATA-ATATATAATAT-ATATATAATATT
*
343275 ATAATATATTACAA-ATATAGTATATAATATATAATATAATATAT
1 ATAA-ATA-TACAATATATAATATATAATATAT-ATATAATAT-T
343319 ATATAATATACAATATATAATATATAATATACTATATAATAT
1 ATA-AATATACAATATATAATATATAATATA-TATATAATAT
343361 GTGTAACATA
Statistics
Matches: 139, Mismatches: 6, Indels: 37
0.76 0.03 0.20
Matches are distributed among these distances:
37 4 0.03
38 16 0.12
39 12 0.09
40 14 0.10
41 27 0.19
42 18 0.13
43 12 0.09
44 34 0.24
45 2 0.01
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (41 bp):
ATAAATATACAATATATAATATATAATATATATATAATATT
Found at i:348419 original size:42 final size:42
Alignment explanation
Indices: 348357--348557 Score: 203
Period size: 42 Copynumber: 4.8 Consensus size: 42
348347 AGCCGTAATG
*
348357 GGTCGAGATCTATAG-AGCATTTTTGGAACAAAAGCCGCAAAA
1 GGTC-AGATCTATAGCGGCATTTTTGGAACAAAAGCCGCAAAA
* * * * *
348399 AGTTAGATCTATAGCGGCATTTTTGGAACAAACGCTGTAAAA
1 GGTCAGATCTATAGCGGCATTTTTGGAACAAAAGCCGCAAAA
348441 GGTCAGATCTATTA-CGGCA-TTTTGGAACAAACA-CCGCAAAA
1 GGTCAGATCTA-TAGCGGCATTTTTGGAACAAA-AGCCGCAAAA
* * * *
348482 GGTCAGATCTATAACAGCGTTTTTTGGAACAAACGCCGCAAAA
1 GGTCAGATCTATAGCGGC-ATTTTTGGAACAAAAGCCGCAAAA
* * **
348525 GGTCAGATTTATAGTGGTGTTTTTGGATACAAA
1 GGTCAGATCTATAGCGGCATTTTTGGA-ACAAA
348558 CACCGCTAAT
Statistics
Matches: 131, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
40 2 0.02
41 42 0.32
42 47 0.36
43 40 0.31
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (42 bp):
GGTCAGATCTATAGCGGCATTTTTGGAACAAAAGCCGCAAAA
Found at i:348521 original size:43 final size:42
Alignment explanation
Indices: 348357--348537 Score: 192
Period size: 41 Copynumber: 4.3 Consensus size: 42
348347 AGCCGTAATG
*
348357 GGTCGAGATCTATAGA-GC-ATTTTTGGAACAAAAGCCGCAAAA
1 GGTC-AGATCTATA-ACGCGATTTTTGGAACAAACGCCGCAAAA
* * * * *
348399 AGTTAGATCTATAGCG-GCATTTTTGGAACAAACGCTGTAAAA
1 GGTCAGATCTATAACGCG-ATTTTTGGAACAAACGCCGCAAAA
* *
348441 GGTCAGATCTATTACG-GCA-TTTTGGAACAAACACCGCAAAA
1 GGTCAGATCTATAACGCG-ATTTTTGGAACAAACGCCGCAAAA
*
348482 GGTCAGATCTATAACAGCGTTTTTTGGAACAAACGCCGCAAAA
1 GGTCAGATCTATAAC-GCGATTTTTGGAACAAACGCCGCAAAA
*
348525 GGTCAGATTTATA
1 GGTCAGATCTATA
348538 GTGGTGTTTT
Statistics
Matches: 116, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
41 43 0.37
42 39 0.34
43 34 0.29
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.25
Consensus pattern (42 bp):
GGTCAGATCTATAACGCGATTTTTGGAACAAACGCCGCAAAA
Found at i:348547 original size:43 final size:41
Alignment explanation
Indices: 348357--348563 Score: 191
Period size: 43 Copynumber: 4.9 Consensus size: 41
348347 AGCCGTAATG
* ** *
348357 GGTCGAGATCTATAGAGCATTTTTGGAACAAAAGCCGCAAAA
1 GGTC-AGATCTATAGCGGGTTTTTGGAACAAACGCCGCAAAA
* * * * *
348399 AGTTAGATCTATAGCGGCATTTTTGGAACAAACGCTGTAAAA
1 GGTCAGATCTATAGCGG-GTTTTTGGAACAAACGCCGCAAAA
** *
348441 GGTCAGATCTATTA-CGGCATTTTGGAACAAACACCGCAAAA
1 GGTCAGATCTA-TAGCGGGTTTTTGGAACAAACGCCGCAAAA
* *
348482 GGTCAGATCTATAACAGCGTTTTTTGGAACAAACGCCGCAAAA
1 GGTCAGATCTATAGC-G-GGTTTTTGGAACAAACGCCGCAAAA
* * *
348525 GGTCAGATTTATAGTGGTGTTTTTGGATACAAACACCGC
1 GGTCAGATCTATAGCGG-GTTTTTGGA-ACAAACGCCGC
348564 TAATTATCTT
Statistics
Matches: 136, Mismatches: 22, Indels: 13
0.80 0.13 0.08
Matches are distributed among these distances:
40 2 0.01
41 43 0.32
42 45 0.33
43 46 0.34
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (41 bp):
GGTCAGATCTATAGCGGGTTTTTGGAACAAACGCCGCAAAA
Found at i:352974 original size:23 final size:23
Alignment explanation
Indices: 352939--352995 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
352929 ATCAAGTACA
*
352939 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
352962 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
352985 ATAATAAAATA
1 ATAATATAATA
352996 TGCATTTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:353059 original size:87 final size:86
Alignment explanation
Indices: 352907--353073 Score: 298
Period size: 87 Copynumber: 1.9 Consensus size: 86
352897 CGGTTATGTT
* * *
352907 ATATCATTTAACTAGAAATATTATCAAGTACAATAATATATTAGGTAGCGCTTATATAATGTAAT
1 ATATCATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAAT
352972 AGGTAGCGCTTATATAATAAA
66 AGGTAGCGCTTATATAATAAA
352993 ATATGCATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAA
1 ATAT-CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAA
353058 TAGGTAGCGCTTATAT
65 TAGGTAGCGCTTATAT
353074 TGACCTATTT
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
86 4 0.05
87 73 0.95
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (86 bp):
ATATCATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATATAAT
AGGTAGCGCTTATATAATAAA
Found at i:353072 original size:21 final size:23
Alignment explanation
Indices: 353026--353073 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
353016 ATCAAGTACA
*
353026 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
*
353049 ATAATATAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
353072 AT
1 AT
353074 TGACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:353492 original size:200 final size:198
Alignment explanation
Indices: 353099--353597 Score: 632
Period size: 200 Copynumber: 2.5 Consensus size: 198
353089 GTAAACCGAC
* *
353099 ATATTTATAC-CGGTAACATTGCAAATTTACCTATTACATTATAATTATCGGTTTCGATGTCTTT
1 ATATTTATACTAGGT-ACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATG--TTT
* * * *
353163 TG-GATCGATACAATTT--TAAATGTATCGATACTTTATGCATGCACCTCGTTGGACATTCATTC
63 TGAGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCATGCACCCCGTTGGACATTCATTA
* *
353225 TAGAAAAAAGTATTGACACAAACTTAAAAAGTGTCGATACATTATTTAGACCAATTTTCTCATAA
127 TAGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATCTAGACCAATTTTCTCATAA
353290 AACCAAT
192 AACCAAT
* * *
353297 ATATTTCTA-TCAGGTACATTGTAAATTTACCTATCACATTGTAATTATCGGTTTCGATGTTTGT
1 ATATTTATACT-AGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT-T
** * *
353361 GAGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCCCGTTTGACATTCATTATG
64 GAGATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCACCCCGTTGGACATTCATTATA
* * * ** *
353426 GATAAAAAGTATCGACACAAATTTAAATAGTGTCGATACTTTATGCT-GACTTATTTTCTTATAA
129 GA-AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTAT-CTAGACCAATTTTCTCATAA
*
353490 AACCAGT
192 AACCAAT
* * *
353497 ATATTTATACTAGTTACATTGTAAATTTACCGATTACATTATAATTATCGGTTTTGATGTTATTG
1 ATATTTATACTAGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT-TTG
* *
353562 AGATCTATACTTTTAATAAATGTATCGACAGTTTAT
65 AGATCGATACTTTTAATAAATGTATCGACACTTTAT
353598 ATTCTGGACA
Statistics
Matches: 261, Mismatches: 30, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
196 3 0.01
197 5 0.02
198 58 0.22
199 46 0.18
200 146 0.56
201 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (198 bp):
ATATTTATACTAGGTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTGA
GATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCACCCCGTTGGACATTCATTATAGA
AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTATCTAGACCAATTTTCTCATAAAACC
AAT
Found at i:353751 original size:177 final size:178
Alignment explanation
Indices: 353432--353768 Score: 455
Period size: 177 Copynumber: 1.9 Consensus size: 178
353422 TATGGATAAA
* * * * *
353432 AAGTATCGACACAAATTTAAATAGTGTCGATACTTTATGCTGACTTATTTTCTTATAAAACCAGT
1 AAGTATCGACACAAATTTAAAAAGTATCGATACATTATGCTGACATATTTTCTAATAAAACCAGT
* *
353497 ATATTTATACTAGTTACATTGTAAATTTACCGATTACATTATAATTATCGGTTTTGATGTTATTG
66 ATATTTATACCAGTTACATTGTAAATTTACCGATTACATTATAATTATCGGTTTCGATGTTATTG
*
353562 AGATCTATACTTTTA-ATAAATGTATCGACAGTTTATATTCTGGACAAT
131 AGATCGATACTTTTAGA-AAATGTATCGACAGTTTATATTCTGGACAAT
* * * * *
353610 AAGTATCGACACAAA-TTAAAAACGTATCGATACATTATGTTGACATGTTTTCTAAT-TAATCGG
1 AAGTATCGACACAAATTTAAAAA-GTATCGATACATTATGCTGACATATTTTCTAATAAAACCAG
* * * * *
353673 TATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTCGATGTTTTT
65 TATATTTATACCAGTTACATTGTAAATTTACCGATTACATTATAATTATCGGTTTCGATGTTATT
* *
353738 GGGGTCGATACTTTTAGAAAATGTATCGACA
130 GAGATCGATACTTTTAGAAAATGTATCGACA
353769 CCTATTTAGC
Statistics
Matches: 137, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
177 94 0.69
178 43 0.31
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (178 bp):
AAGTATCGACACAAATTTAAAAAGTATCGATACATTATGCTGACATATTTTCTAATAAAACCAGT
ATATTTATACCAGTTACATTGTAAATTTACCGATTACATTATAATTATCGGTTTCGATGTTATTG
AGATCGATACTTTTAGAAAATGTATCGACAGTTTATATTCTGGACAAT
Found at i:356293 original size:19 final size:19
Alignment explanation
Indices: 356252--356296 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
356242 ATTCACATAC
**
356252 AAAATTATAAATAGTATGT
1 AAAATTATAAATAGTATAA
**
356271 AAAATTATAAATCTTATAA
1 AAAATTATAAATAGTATAA
356290 AAAATTA
1 AAAATTA
356297 ACCCTACATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
AAAATTATAAATAGTATAA
Found at i:357145 original size:199 final size:200
Alignment explanation
Indices: 356846--357212 Score: 603
Period size: 199 Copynumber: 1.8 Consensus size: 200
356836 GCATCCTTCT
* * *
356846 GGACAAACAGTATCGACACAAATTTCATAAGTGTCGATACATTATGTAGACCTATTCTCTCATAA
1 GGACAAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAA
* * *
356911 AACCGGTATAGTTTTACCGGTTATGTTAAAAAATTACCTATTACATTATAATTATGGGTTTCGAT
66 AACCGATATAGTTTTACCAGTTATGTTAAAAAATTACCTATTACATTATAATTATGGGTTTCAAT
356976 G-TTTCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCATTTTGGGACTC
131 GTTTTCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCATTTTGGGACTC
357040 ATTTA
196 ATTTA
* *
357045 GGACAAAAAGTATCGACACTAATTTCAAAAGTGTTGATACATTATGTAGACCTATTCTCACATAA
1 GGACAAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAA
* *
357110 AGCCGATATA-TTTATACCAGTTATGTTACAAAATTACCTATTACATTATAATTATGGGTTTCAA
66 AACCGATATAGTTT-TACCAGTTATGTTAAAAAATTACCTATTACATTATAATTATGGGTTTCAA
* *
357174 TGTTTTTTTGGATCGATACTTTTTATAAATGTATCGACA
130 TGTTTTCTGGGATCGATACTTTTTATAAATGTATCGACA
357213 TATCTGCTTA
Statistics
Matches: 154, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
198 3 0.02
199 117 0.76
200 34 0.22
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (200 bp):
GGACAAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAA
AACCGATATAGTTTTACCAGTTATGTTAAAAAATTACCTATTACATTATAATTATGGGTTTCAAT
GTTTTCTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGCGTTCACCATTTTGGGACTC
ATTTA
Found at i:357504 original size:19 final size:19
Alignment explanation
Indices: 357480--357524 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
357470 ATTAACATAA
357480 AAAATTATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
357499 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
357518 AAAATTA
1 AAAATTA
357525 ACCCTACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:359088 original size:18 final size:18
Alignment explanation
Indices: 359065--359120 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
359055 TCCTCCTTAT
*
359065 TTCCTCAATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
359083 TTCCTCCATCTTTTCTTA
1 TTCCTCCATCTTTTCTTC
* *
359101 TTCTTCCATCTTTTTTTC
1 TTCCTCCATCTTTTCTTC
359119 TT
1 TT
359121 AATATTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:362071 original size:182 final size:182
Alignment explanation
Indices: 361764--362513 Score: 1091
Period size: 182 Copynumber: 4.2 Consensus size: 182
361754 TACGCGTACT
* * ** * * * * *
361764 TATTAAAGTATCGACACTTTCAATATATCCGATAGAGCTTTATCGGTTTTATCATTTCGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCTGATCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
* * * * *
361829 GTTTTATCATATTTTTACCTGTTATATAGTTGTGGACCGATATATTTTTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
361894 TTATAGGCGCTAAAACTGCTTCTTTTTTAAATTCACAAAGTGTCGATACTTA
131 TTATAGGCGCTAAAACTGCTTCTTTTTTAAATTCACAAAGTGTCGATACTTA
* * *
361946 TATTAAAGTATCAACACTTTAAATATATCTGATCGCTCTATACCGGTTTTGTCCTTTAGAGACTG
1 TATTAAAGTATCGACACTTTCAATATATCTGATCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
* * *
362011 ATTTTGTCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTATTATAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
* * * *
362076 TTATGGGCGTTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGACACTTA
131 TTATAGGCGCTAAAACTGCTTCTTTTTTAAATTCACAAAGTGTCGATACTTA
* * *
362128 TATTAAAGTATC-ACCACTTTAAATATATCTGGTTGCTCTATACCGGTTTTGTCCTTTAGAGACC
1 TATTAAAGTATCGA-CACTTTCAATATATCTGATCGCTCTATACCGGTTTTGTCCTTTAGAGACC
** *
362192 GGTTTTGTCATATTTTTATATGTTATATCGTTGTAGATCGATACATTGTTATAAAGTATCGACAC
65 GGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACAC
* *
362257 TTTATAGGTGCTAAAACTGCTTCTTTTTTAAATTCACAAAATGTCGATACTTA
130 TTTATAGGCGCTAAAACTGCTTCTTTTTTAAATTCACAAAGTGTCGATACTTA
* * ** *
362310 TATTAAAGTATTGACACTTTCAATATATATGGGCGCTCTATACCGGTTTTGTCCTTAAGAGACCG
1 TATTAAAGTATCGACACTTTCAATATATCTGATCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
*
362375 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTAGAAAGTATCGACACT
66 GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
*
362440 TTATAGGCGCT-AAA-T--TT-TTTTTT-AATTCACAAAGTGTCAATACTTA
131 TTATAGGCGCTAAAACTGCTTCTTTTTTAAATTCACAAAGTGTCGATACTTA
362486 TATTAAAGTATCGACACTTTCAATATAT
1 TATTAAAGTATCGACACTTTCAATATAT
362514 TCGGTACCGT
Statistics
Matches: 514, Mismatches: 52, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
176 48 0.09
177 6 0.01
178 2 0.00
180 1 0.00
181 4 0.01
182 452 0.88
183 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAATATATCTGATCGCTCTATACCGGTTTTGTCCTTTAGAGACCG
GTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGACACT
TTATAGGCGCTAAAACTGCTTCTTTTTTAAATTCACAAAGTGTCGATACTTA
Found at i:363558 original size:164 final size:165
Alignment explanation
Indices: 363257--363567 Score: 446
Period size: 164 Copynumber: 1.9 Consensus size: 165
363247 AATTCAAACA
* * ** *
363257 ATTGCGTCGTTTATTGAAAAAACGCCACTATAGGTAAACAATATTGTGGCATTTGTATAAAAGCA
1 ATTGCGGCGTTTATTGAAAAAACGCCACTATAGGCAAACAATATTGCAGCATTTGTATAAAAACA
* *
363322 CCGCTAAAGTTCTAATCTGTTGCGGCGTTTATTGAAAAAACGCCACTATAGTGAACCTTGTTGCG
66 CCGCTAAAGTACTAATCTGTTGCGGCGTTTATTGAAAAAACGCCACTATAGTGAACCTTATTGCG
*
363387 ACGTTTGTATGAAAATGTTGCTAAAGTTCTAATTT
131 ACGTTTGTATAAAAATGTTGCTAAAGTTCTAATTT
* * **
363422 ATTGCGGCGTTTATTG-AAAAATGCCACTATAGGCGAACCCTATTGCAGCATTTGTATAAAAACA
1 ATTGCGGCGTTTATTGAAAAAACGCCACTATAGGCAAACAATATTGCAGCATTTGTATAAAAACA
* * * *
363486 CCGCTAAAGTACTAATCTGTTGCGGCGTTTATTGAAAAAATGCCACTATAGATGGATC-TATTGT
66 CCGCTAAAGTACTAATCTGTTGCGGCGTTTATTGAAAAAACGCCACTATAG-TGAACCTTATTGC
*
363550 GGCGTTTGTATAAAAATG
130 GACGTTTGTATAAAAATG
363568 CCACTAAAGT
Statistics
Matches: 128, Mismatches: 17, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
164 109 0.85
165 19 0.15
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (165 bp):
ATTGCGGCGTTTATTGAAAAAACGCCACTATAGGCAAACAATATTGCAGCATTTGTATAAAAACA
CCGCTAAAGTACTAATCTGTTGCGGCGTTTATTGAAAAAACGCCACTATAGTGAACCTTATTGCG
ACGTTTGTATAAAAATGTTGCTAAAGTTCTAATTT
Found at i:363577 original size:164 final size:164
Alignment explanation
Indices: 363257--363616 Score: 443
Period size: 164 Copynumber: 2.2 Consensus size: 164
363247 AATTCAAACA
* * * ** *
363257 ATTGCGTCGTTTATTGAAAAAACGCCACTATAGGTAAACAATATTGTGGCATTTGTATAAAAGCA
1 ATTGCGGCGTTTATTG-AAAAATGCCACTATAGGCAAACAATATTGCAGCATTTGTATAAAAACA
* *
363322 CCGCTAAAGTTCTAATCTGTTGCGGCGTTTATTGAAAAAACGCCACTATAGTGAACCTTGTTGCG
65 CCGCTAAAGTACTAATCTGTTGCGGCGTTTATTGAAAAAACGCCACTATAGTGAACCTTATTGCG
* *** * *
363387 ACGTTTGTATGAAAATGTTGCTAAAGTTCTAATTT
130 ACGTTTGTATAAAAATGCCACTAAAGTACTAATCT
* **
363422 ATTGCGGCGTTTATTGAAAAATGCCACTATAGGCGAACCCTATTGCAGCATTTGTATAAAAACAC
1 ATTGCGGCGTTTATTGAAAAATGCCACTATAGGCAAACAATATTGCAGCATTTGTATAAAAACAC
* * * *
363487 CGCTAAAGTACTAATCTGTTGCGGCGTTTATTGAAAAAATGCCACTATAGATGGATC-TATTGTG
66 CGCTAAAGTACTAATCTGTTGCGGCGTTTATTGAAAAAACGCCACTATAG-TGAACCTTATTGCG
* *
363551 GCGTTTGTATAAAAATGCCACTAAAGTACTACTCT
130 ACGTTTGTATAAAAATGCCACTAAAGTACTAATCT
* * * **
363586 GTTGCGGTGTTTGTCAAAAAATGCCACTATA
1 ATTGCGGCGTTTATTGAAAAATGCCACTATA
363617 AATGATCCCT
Statistics
Matches: 166, Mismatches: 28, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
164 147 0.89
165 19 0.11
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (164 bp):
ATTGCGGCGTTTATTGAAAAATGCCACTATAGGCAAACAATATTGCAGCATTTGTATAAAAACAC
CGCTAAAGTACTAATCTGTTGCGGCGTTTATTGAAAAAACGCCACTATAGTGAACCTTATTGCGA
CGTTTGTATAAAAATGCCACTAAAGTACTAATCT
Found at i:363598 original size:41 final size:40
Alignment explanation
Indices: 363472--363614 Score: 123
Period size: 41 Copynumber: 3.5 Consensus size: 40
363462 TATTGCAGCA
** *
363472 TTTGTATAAAAACACCGCTAAAGTACTAATCTGTTGCGGCG
1 TTTGTATAAAAATGCCACTAAAGTACT-ATCTGTTGCGGCG
* * * *
363513 TTTAT-TGAAAAAATGCCACTATAG-A-TGGATCTATTGTGGCG
1 TTTGTAT--AAAAATGCCACTAAAGTACT--ATCTGTTGCGGCG
*
363554 TTTGTATAAAAATGCCACTAAAGTACTACTCTGTTGCGGTG
1 TTTGTATAAAAATGCCACTAAAGTACTA-TCTGTTGCGGCG
363595 TTTGTCA-AAAAATGCCACTA
1 TTTGT-ATAAAAATGCCACTA
363615 TAAATGATCC
Statistics
Matches: 81, Mismatches: 13, Indels: 16
0.74 0.12 0.15
Matches are distributed among these distances:
40 18 0.22
41 48 0.59
42 15 0.19
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (40 bp):
TTTGTATAAAAATGCCACTAAAGTACTATCTGTTGCGGCG
Found at i:363629 original size:82 final size:83
Alignment explanation
Indices: 363258--363659 Score: 355
Period size: 82 Copynumber: 4.9 Consensus size: 83
363248 ATTCAAACAA
* * ** * ** * *
363258 TTGCGTCGTTTATTGAAAAAACGCCACTATAGGTAAACAATATTGTGGCATTTGTATAAAAGCAC
1 TTGCGGCGTTTATTGAAAAAATGCCACTATAAATGAACCCTATTGCGGCATTTGTATAAAAACAC
*
363323 CGCTAAAGTTCTAATCTG
66 CGCTAAAGTACTAATCTG
* * * * * * * ***
363341 TTGCGGCGTTTATTGAAAAAACGCCACTAT-AGTGAACCTTGTTGCGACGTTTGTATGAAAATGT
1 TTGCGGCGTTTATTGAAAAAATGCCACTATAAATGAACCCTATTGCGGCATTTGTATAAAAACAC
* * * *
363405 TGCTAAAGTTCTAATTTA
66 CGCTAAAGTACTAATCTG
*** *
363423 TTGCGGCGTTTATTG-AAAAATGCCACTATAGGCGAACCCTATTGCAGCATTTGTATAAAAACAC
1 TTGCGGCGTTTATTGAAAAAATGCCACTATAAATGAACCCTATTGCGGCATTTGTATAAAAACAC
363487 CGCTAAAGTACTAATCTG
66 CGCTAAAGTACTAATCTG
* * * * * **
363505 TTGCGGCGTTTATTGAAAAAATGCCACTATAGATGGA-TCTATTGTGGCGTTTGTATAAAAATGC
1 TTGCGGCGTTTATTGAAAAAATGCCACTATAAATGAACCCTATTGCGGCATTTGTATAAAAACAC
* *
363569 CACTAAAGTACTACTCTG
66 CGCTAAAGTACTAATCTG
* * * * ** *
363587 TTGCGGTGTTT-GTCAAAAAATGCCACTATAAATGATCCCTATTATGACATTTGTA-AAGAAACA
1 TTGCGGCGTTTATTGAAAAAATGCCACTATAAATGAACCCTATTGCGGCATTTGTATAA-AAACA
*
363650 CTGCTAAAGT
65 CCGCTAAAGT
363660 TACCATTTTG
Statistics
Matches: 257, Mismatches: 58, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
81 35 0.14
82 175 0.68
83 47 0.18
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (83 bp):
TTGCGGCGTTTATTGAAAAAATGCCACTATAAATGAACCCTATTGCGGCATTTGTATAAAAACAC
CGCTAAAGTACTAATCTG
Found at i:363629 original size:164 final size:163
Alignment explanation
Indices: 363305--363659 Score: 419
Period size: 164 Copynumber: 2.2 Consensus size: 163
363295 CAATATTGTG
* *
363305 GCATTTGTATAAAAGCACCGCTAAAGTTCTAATCTGTTGCGGCGTTTATTGAAAAAACGCCACTA
1 GCATTTGTATAAAAACACCGCTAAAGTACTAATCTGTTGCGGCGTTTATTGAAAAAACGCCACTA
* * *** * *
363370 TAGTGAACCTTGTTGCGACGTTTGTATGAAAATGTTGCTAAAGTTCTAATTTATTGCGGCGTTTA
66 TAGTGAACCTTATTGCGACGTTTGTATAAAAATGCCACTAAAGTACTAATCTATTGCGGCGTTTA
** **
363435 TTGAAAAATGCCACTATAGGCGAACCCTATTGCA-
131 TCAAAAAATGCCACTATAAACGAACCCTATT--AT
*
363469 GCATTTGTATAAAAACACCGCTAAAGTACTAATCTGTTGCGGCGTTTATTGAAAAAATGCCACTA
1 GCATTTGTATAAAAACACCGCTAAAGTACTAATCTGTTGCGGCGTTTATTGAAAAAACGCCACTA
* * * * * * *
363534 TAGATGGATC-TATTGTGGCGTTTGTATAAAAATGCCACTAAAGTACTACTCTGTTGCGGTGTTT
66 TAG-TGAACCTTATTGCGACGTTTGTATAAAAATGCCACTAAAGTACTAATCTATTGCGGCGTTT
* * *
363598 GTCAAAAAATGCCACTATAAATGATCCCTATTAT
130 ATCAAAAAATGCCACTATAAACGAACCCTATTAT
*
363632 GACATTTGTA-AAGAAACACTGCTAAAGT
1 G-CATTTGTATAA-AAACACCGCTAAAGT
363660 TACCATTTTG
Statistics
Matches: 162, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
162 1 0.01
163 3 0.02
164 154 0.95
165 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (163 bp):
GCATTTGTATAAAAACACCGCTAAAGTACTAATCTGTTGCGGCGTTTATTGAAAAAACGCCACTA
TAGTGAACCTTATTGCGACGTTTGTATAAAAATGCCACTAAAGTACTAATCTATTGCGGCGTTTA
TCAAAAAATGCCACTATAAACGAACCCTATTAT
Found at i:365247 original size:16 final size:16
Alignment explanation
Indices: 365226--365256 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
365216 AGTTAATTTG
365226 AATGTAAAGAAATGAT
1 AATGTAAAGAAATGAT
365242 AATGTAAAGAAATGA
1 AATGTAAAGAAATGA
365257 AAAAGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (16 bp):
AATGTAAAGAAATGAT
Found at i:367091 original size:6 final size:6
Alignment explanation
Indices: 367080--367105 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
367070 ACATCCTCCA
367080 TGGGAT TGGGAT TGGGAT TGGGAT TG
1 TGGGAT TGGGAT TGGGAT TGGGAT TG
367106 AAGTTGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (6 bp):
TGGGAT
Found at i:370687 original size:20 final size:20
Alignment explanation
Indices: 370658--370702 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
370648 GGAGCGTCGT
370658 CTCCTAGCCAAGCCAGTCTA
1 CTCCTAGCCAAGCCAGTCTA
* *
370678 CTCCTGGCCAGGCCAGTCTA
1 CTCCTAGCCAAGCCAGTCTA
370698 CTCCT
1 CTCCT
370703 CTCGAGTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.18, C:0.42, G:0.18, T:0.22
Consensus pattern (20 bp):
CTCCTAGCCAAGCCAGTCTA
Found at i:374361 original size:31 final size:29
Alignment explanation
Indices: 374321--374380 Score: 68
Period size: 31 Copynumber: 2.0 Consensus size: 29
374311 TAAAATAAAA
* *
374321 ATAAAAATAAATAA-TATATATATATATAT
1 ATAAAAAT-AATAATTATAGAAATATATAT
374350 ATATAATAATAATAATTATAGAAATATATAT
1 ATA-AA-AATAATAATTATAGAAATATATAT
374381 TTTCTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 3 0.12
30 7 0.27
31 16 0.62
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (29 bp):
ATAAAAATAATAATTATAGAAATATATAT
Found at i:374393 original size:41 final size:42
Alignment explanation
Indices: 374348--374525 Score: 129
Period size: 41 Copynumber: 4.2 Consensus size: 42
374338 ATATATATAT
374348 ATATATAATA-ATAATAATTATAGAAA-TATATAT-TTTC-TAAA
1 ATATATAATACAT-AT-ATTATA-AAACTATATATGTTTCTTAAA
* *
374389 ATATATAATACATATATTTTAAAACTATATGTGTTTCTTAAA
1 ATATATAATACATATATTATAAAACTATATATGTTTCTTAAA
* * * *
374431 ATATATAATATAAATATTTCTAAAACTATACATATATTT-TTAAA
1 ATATATAATACATATA-TTATAAAACTAT--ATATGTTTCTTAAA
** * * *
374475 ATATAT-AT--ATATATTCCAAAACTATACATATTTTTTGAAAA
1 ATATATAATACATATATTATAAAACTATATATGTTTCTT--AAA
374516 ATATATAATA
1 ATATATAATA
374526 TATTTTTAAA
Statistics
Matches: 115, Mismatches: 10, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
38 7 0.06
39 5 0.04
40 22 0.19
41 29 0.25
42 22 0.19
43 13 0.11
44 11 0.10
45 6 0.05
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (42 bp):
ATATATAATACATATATTATAAAACTATATATGTTTCTTAAA
Found at i:374439 original size:42 final size:39
Alignment explanation
Indices: 374348--374537 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 39
374338 ATATATATAT
*
374348 ATATATAATAATAATAATTATAGAAA-TATATATTTTCTAAA
1 ATATATAATAAT-AT-ATTTTA-AAACTATATATTTTCTAAA
*
374389 ATATATAATACATATATTTTAAAACTATATGTGTTTCTTAAA
1 ATATATAATA-ATATATTTTAAAACTATATAT-TTTC-TAAA
* *
374431 ATATATAATATAAATATTTCTAAAACTATACATATATTTTTAAA
1 ATATATAATA-ATATATTT-TAAAACTAT--ATAT-TTTCTAAA
** *
374475 ATATAT-AT-ATATATTCCAAAACTATACATATTTTTTGAAA
1 ATATATAATAATATATTTTAAAACTAT--ATATTTTCT-AAA
374515 A-ATAT-ATAATATATTTTTAAAAC
1 ATATATAATAATATA-TTTTAAAAC
374538 CATACACATA
Statistics
Matches: 127, Mismatches: 12, Indels: 20
0.80 0.08 0.13
Matches are distributed among these distances:
39 14 0.11
40 34 0.27
41 29 0.23
42 23 0.18
43 11 0.09
44 10 0.08
45 6 0.05
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (39 bp):
ATATATAATAATATATTTTAAAACTATATATTTTCTAAA
Found at i:374543 original size:81 final size:82
Alignment explanation
Indices: 374375--374569 Score: 200
Period size: 81 Copynumber: 2.3 Consensus size: 82
374365 TTATAGAAAT
** ** *
374375 ATATATTTTCTAAAATATATAATACATATATTTTAAAACTATATGTGTTTCTTAAAATATATAAT
1 ATATATTTT-TAAAATATAT-AT--ATATATTCCAAAACTATACATATTTCTTAAAATATATAAT
*
374440 ATAAATATTTCTAAAACTATAC
62 AT-AATATTTCTAAAACCATAC
*
374462 ATATATTTTTAAAATATATATATATATTCCAAAACTATACATATTTTTTGAAAAATATATAATAT
1 ATATATTTTTAAAATATATATATATATTCCAAAACTATACATATTTCTT--AAAATATATAATAT
374527 -AT-TTT-TAAAACCATAC
64 AATATTTCTAAAACCATAC
* * *
374543 ACATA-CTTTAAAATATTATATGTATAT
1 ATATATTTTTAAAATA-TATATATATAT
374570 AATATTAACA
Statistics
Matches: 95, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
80 9 0.09
81 24 0.25
82 3 0.03
83 24 0.25
85 16 0.17
86 10 0.11
87 9 0.09
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (82 bp):
ATATATTTTTAAAATATATATATATATTCCAAAACTATACATATTTCTTAAAATATATAATATAA
TATTTCTAAAACCATAC
Found at i:386804 original size:19 final size:19
Alignment explanation
Indices: 386780--386824 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
386770 GACTAAAGAG
386780 TTTGCATACTTCTTCCTTC
1 TTTGCATACTTCTTCCTTC
386799 TTTGCATACTTCTTCCTTC
1 TTTGCATACTTCTTCCTTC
386818 TTTGCAT
1 TTTGCAT
386825 TCTCGTTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.11, C:0.29, G:0.07, T:0.53
Consensus pattern (19 bp):
TTTGCATACTTCTTCCTTC
Found at i:399856 original size:48 final size:48
Alignment explanation
Indices: 399777--400071 Score: 369
Period size: 48 Copynumber: 6.2 Consensus size: 48
399767 AAGGTAGAAC
* * *
399777 AATTAGCACGTCTGACGT-TTTGTGACGGTGGTGATACCATTGATGAT
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGAT
* * * *
399824 AATTAACACG-CTTGATGTCTGTGTGACAGTGGTGCTACTATTCATGAT
1 AATTAGCACGTC-TGACGTCTGTGTGACGGTGGTGCTACTATTGATGAT
* * *
399872 AATTAACACGTCTGACATCTGTGTGACGGTGCTGCTACTATTGATGAT
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGAT
* * * *
399920 AATTAGCACGACTGACATCTATGTGACGGTAGTGCTACTATTGATGAT
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGAT
* * * * * *
399968 AGTTAGCATGTCTAACGTCTGTGTAAAGGTGGTGCTACTATTGATTAT
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGAT
* *
400016 AATTAGCACGTCTGACGTCTGTGTGACGGTCGTGCTACTATTGATGAC
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGAT
400064 AATTAGCA
1 AATTAGCA
400072 TTGATGATAA
Statistics
Matches: 210, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
46 1 0.00
47 14 0.07
48 194 0.92
49 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGAT
Found at i:399945 original size:96 final size:96
Alignment explanation
Indices: 399777--400255 Score: 426
Period size: 96 Copynumber: 4.9 Consensus size: 96
399767 AAGGTAGAAC
* * * * *
399777 AATTAGCACGTCTGACGT-TTTGTGACGGTGGTGATACCATTGATGATAATTAACACG-CTTGAT
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGATAATTAGCACGAC-TGAC
*
399840 GTCTGTGTGACAGTGGTGCTACTATTCATGAT
65 GTCTGTGTGACAGTGGTGCTACTATTGATGAT
* * * *
399872 AATTAACACGTCTGACATCTGTGTGACGGTGCTGCTACTATTGATGATAATTAGCACGACTGACA
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGATAATTAGCACGACTGACG
* * *
399937 TCTATGTGACGGTAGTGCTACTATTGATGAT
66 TCTGTGTGACAGTGGTGCTACTATTGATGAT
* * * * * * *
399968 AGTTAGCATGTCTAACGTCTGTGTAAAGGTGGTGCTACTATTGATTATAATTAGCACGTCTGACG
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGATAATTAGCACGACTGACG
* * *
400033 TCTGTGTGACGGTCGTGCTACTATTGATGAC
66 TCTGTGTGACAGTGGTGCTACTATTGATGAT
* * * * * *
400064 AATTAGCATTGATGATAATTAGCACGACTGACATCTATGACGGTAGTGCTACTATTGATGATAGT
1 AATTAGC----ACG-T--CT-G-ACG--T--C-TGTGTGACGGTGGTGCTACTATTGATGATAAT
* * * * *
400129 TAGCATGTCTAACGTCTGTGT-AAAGGTGGTGCTACTATTGATTAT
52 TAGCACGACTGACGTCTGTGTGACA-GTGGTGCTACTATTGATGAT
* *
400174 AATTAGCACGTCTGACGTCTGTGTGACGGTCGTGCTACTATTGATGACAATTAGCAC-ACTTGAC
1 AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGATAATTAGCACGAC-TGAC
* * *
400238 ATCTATGTAACAGTGGTG
65 GTCTGTGTGACAGTGGTG
400256 ATATTTATGT
Statistics
Matches: 308, Mismatches: 57, Indels: 37
0.77 0.14 0.09
Matches are distributed among these distances:
95 17 0.06
96 199 0.65
97 4 0.01
99 1 0.00
100 3 0.01
101 4 0.01
102 1 0.00
103 2 0.01
105 4 0.01
106 2 0.01
107 1 0.00
109 2 0.01
110 68 0.22
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (96 bp):
AATTAGCACGTCTGACGTCTGTGTGACGGTGGTGCTACTATTGATGATAATTAGCACGACTGACG
TCTGTGTGACAGTGGTGCTACTATTGATGAT
Found at i:400057 original size:144 final size:143
Alignment explanation
Indices: 399775--400245 Score: 411
Period size: 158 Copynumber: 3.2 Consensus size: 143
399765 TAAAGGTAGA
* * * * * *
399775 ACAATTAGCACGTCTGACGTTTTGTGACGGTGGTGATACCATTGATGATAATTAACACGCTTGAT
1 ACAATTAGCACGACTGACATTATGTGACGGTAGTGATACCATTGATGATAATTAACACGCTTAAC
*
399840 GTCTGTGTGACAGTGGTGCTACTATTCATGATAATTAACACGTCTGACATCTGTGTGACGGTGCT
66 GTCTGTGTGAAAGTGGTGCTACTATTCATGATAATTAACACGTCTGACATCTGTGTGACGGTGCT
399905 GCTACTATTGATG
131 GCTACTATTGATG
* * * * * *
399918 ATAATTAGCACGACTGACATCTATGTGACGGTAGTGCTACTATTGATGATAGTTAGCATG-TCTA
1 ACAATTAGCACGACTGACAT-TATGTGACGGTAGTGATACCATTGATGATAATTAACACGCT-TA
* * * *
399982 ACGTCTGTGT-AAAGGTGGTGCTACTATTGATTATAATTAGCACGTCTGACGTCTGTGTGACGGT
64 ACGTCTGTGTGAAA-GTGGTGCTACTATTCATGATAATTAACACGTCTGACATCTGTGTGACGGT
400046 -CGTGCTACTATTGATG
128 GC-TGCTACTATTGATG
* *
400062 ACAATTAGCATTGATGATAATTAGCACGACTGACATCTA--TGACGGTAGTGCTACTATTGATGA
1 ------A-C---------AATTAGCACGACTGACAT-TATGTGACGGTAGTGATACCATTGATGA
* * * * * *
400125 TAGTTAGCATG-TCTAACGTCTGTGT-AAAGGTGGTGCTACTATTGATTATAATTAGCACGTCTG
49 TAATTAACACGCT-TAACGTCTGTGTGAAA-GTGGTGCTACTATTCATGATAATTAACACGTCTG
*
400188 ACGTCTGTGTGACGGT-CGTGCTACTATTGATG
112 ACATCTGTGTGACGGTGC-TGCTACTATTGATG
400220 ACAATTAGCAC-ACTTGACATCTATGT
1 ACAATTAGCACGAC-TGACAT-TATGT
400246 AACAGTGGTG
Statistics
Matches: 287, Mismatches: 18, Indels: 45
0.82 0.05 0.13
Matches are distributed among these distances:
141 2 0.01
142 18 0.06
143 21 0.07
144 103 0.36
150 1 0.00
151 1 0.00
152 1 0.00
158 119 0.41
160 21 0.07
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (143 bp):
ACAATTAGCACGACTGACATTATGTGACGGTAGTGATACCATTGATGATAATTAACACGCTTAAC
GTCTGTGTGAAAGTGGTGCTACTATTCATGATAATTAACACGTCTGACATCTGTGTGACGGTGCT
GCTACTATTGATG
Found at i:400076 original size:16 final size:16
Alignment explanation
Indices: 400055--400087 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
400045 TCGTGCTACT
400055 ATTGATGACAATTAGC
1 ATTGATGACAATTAGC
*
400071 ATTGATGATAATTAGC
1 ATTGATGACAATTAGC
400087 A
1 A
400088 CGACTGACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (16 bp):
ATTGATGACAATTAGC
Found at i:400124 original size:62 final size:63
Alignment explanation
Indices: 400007--400134 Score: 177
Period size: 62 Copynumber: 2.0 Consensus size: 63
399997 TGGTGCTACT
* * * * *
400007 ATTGATTATAATTAGCACGTCTGACGTCTGTGTGACGGTCGTGCTACTATTGATGACAATTAGC
1 ATTGATGATAATTAGCACGACTGACATC-GTATGACGGTAGTGCTACTATTGATGACAATTAGC
* *
400071 ATTGATGATAATTAGCACGACTGACATC-TATGACGGTAGTGCTACTATTGATGATAGTTAGC
1 ATTGATGATAATTAGCACGACTGACATCGTATGACGGTAGTGCTACTATTGATGACAATTAGC
400133 AT
1 AT
400135 GTCTAACGTC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
62 32 0.56
64 25 0.44
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (63 bp):
ATTGATGATAATTAGCACGACTGACATCGTATGACGGTAGTGCTACTATTGATGACAATTAGC
Found at i:400180 original size:48 final size:48
Alignment explanation
Indices: 400071--400230 Score: 180
Period size: 48 Copynumber: 3.4 Consensus size: 48
400061 GACAATTAGC
* * * * * *
400071 ATTGATGATAATTAGCACGACTGACATCTATG--ACGGTAGTGCTACT
1 ATTGATGATAATTAGCACGTCTAACGTCTGTGTAAAGGTCGTGCTACT
* * *
400117 ATTGATGATAGTTAGCATGTCTAACGTCTGTGTAAAGGTGGTGCTACT
1 ATTGATGATAATTAGCACGTCTAACGTCTGTGTAAAGGTCGTGCTACT
* * * *
400165 ATTGATTATAATTAGCACGTCTGACGTCTGTGTGACGGTCGTGCTACT
1 ATTGATGATAATTAGCACGTCTAACGTCTGTGTAAAGGTCGTGCTACT
*
400213 ATTGATGACAATTAGCAC
1 ATTGATGATAATTAGCAC
400231 ACTTGACATC
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 26 0.27
48 69 0.73
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (48 bp):
ATTGATGATAATTAGCACGTCTAACGTCTGTGTAAAGGTCGTGCTACT
Found at i:400201 original size:158 final size:159
Alignment explanation
Indices: 399911--400229 Score: 622
Period size: 158 Copynumber: 2.0 Consensus size: 159
399901 TGCTGCTACT
399911 ATTGATGATAATTAGCACGACTGACATCTATGTGACGGTAGTGCTACTATTGATGATAGTTAGCA
1 ATTGATGATAATTAGCACGACTGACATCTA-GTGACGGTAGTGCTACTATTGATGATAGTTAGCA
399976 TGTCTAACGTCTGTGTAAAGGTGGTGCTACTATTGATTATAATTAGCACGTCTGACGTCTGTGTG
65 TGTCTAACGTCTGTGTAAAGGTGGTGCTACTATTGATTATAATTAGCACGTCTGACGTCTGTGTG
400041 ACGGTCGTGCTACTATTGATGACAATTAGC
130 ACGGTCGTGCTACTATTGATGACAATTAGC
400071 ATTGATGATAATTAGCACGACTGACATCTA-TGACGGTAGTGCTACTATTGATGATAGTTAGCAT
1 ATTGATGATAATTAGCACGACTGACATCTAGTGACGGTAGTGCTACTATTGATGATAGTTAGCAT
400135 GTCTAACGTCTGTGTAAAGGTGGTGCTACTATTGATTATAATTAGCACGTCTGACGTCTGTGTGA
66 GTCTAACGTCTGTGTAAAGGTGGTGCTACTATTGATTATAATTAGCACGTCTGACGTCTGTGTGA
400200 CGGTCGTGCTACTATTGATGACAATTAGC
131 CGGTCGTGCTACTATTGATGACAATTAGC
400229 A
1 A
400230 CACTTGACAT
Statistics
Matches: 159, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
158 129 0.81
160 30 0.19
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (159 bp):
ATTGATGATAATTAGCACGACTGACATCTAGTGACGGTAGTGCTACTATTGATGATAGTTAGCAT
GTCTAACGTCTGTGTAAAGGTGGTGCTACTATTGATTATAATTAGCACGTCTGACGTCTGTGTGA
CGGTCGTGCTACTATTGATGACAATTAGC
Found at i:409782 original size:15 final size:14
Alignment explanation
Indices: 409762--409794 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
409752 TCATTAATGG
409762 TAAGAATTGAATTT
1 TAAGAATTGAATTT
409776 CTAAGAATTGAATTT
1 -TAAGAATTGAATTT
409791 TAAG
1 TAAG
409795 TTCAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (14 bp):
TAAGAATTGAATTT
Found at i:413506 original size:13 final size:13
Alignment explanation
Indices: 413488--413539 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
413478 GTCATAAATC
413488 TATGACGCGCATT
1 TATGACGCGCATT
* *
413501 TATGACACACATT
1 TATGACGCGCATT
* **
413514 TATGATGCTTATT
1 TATGACGCGCATT
413527 TATGACGCGCATT
1 TATGACGCGCATT
413540 GAACGTCATT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:416772 original size:111 final size:111
Alignment explanation
Indices: 416574--416798 Score: 369
Period size: 111 Copynumber: 2.0 Consensus size: 111
416564 TCGTGGCGTC
* *
416574 CCTAGGGTTTCAAGAGGGATGCCGCTCACACCATTACTGGAGCTTTAAAGAAGATCGAAAGCTGA
1 CCTAGGGTTTCAAGAGGGATGCCACTCACACCATTACTGGAGCTTCAAAGAAGATCGAAAGCTGA
*
416639 AGTTCCAGTAAATGCATATGGAGAATACGTCATAGAAGTCATCACG
66 AGTTCCAGTAAATGCAGATGGAGAATACGTCATAGAAGTCATCACG
* *
416685 CCTAGGGTTTCAAGAGGGATGCCACTCACTCCATTACTGGAGCTTCAAAGAAGATCGGAAGCTGA
1 CCTAGGGTTTCAAGAGGGATGCCACTCACACCATTACTGGAGCTTCAAAGAAGATCGAAAGCTGA
* * * *
416750 AGTTCCAGTAAATGCAGCTGGAGAATATGTCATATAAGTCATCATG
66 AGTTCCAGTAAATGCAGATGGAGAATACGTCATAGAAGTCATCACG
416796 CCT
1 CCT
416799 CGATCTTAGA
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 105 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (111 bp):
CCTAGGGTTTCAAGAGGGATGCCACTCACACCATTACTGGAGCTTCAAAGAAGATCGAAAGCTGA
AGTTCCAGTAAATGCAGATGGAGAATACGTCATAGAAGTCATCACG
Found at i:426926 original size:2 final size:2
Alignment explanation
Indices: 426915--426952 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
426905 TTCATTAAGT
426915 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
426953 TATTTTGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:431276 original size:19 final size:19
Alignment explanation
Indices: 431254--431291 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
431244 ATTTTGCATA
* *
431254 TGCATTTTACTTTTCGCAC
1 TGCATCTTACTTTCCGCAC
431273 TGCATCTTACTTTCCGCAC
1 TGCATCTTACTTTCCGCAC
431292 CACATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.42
Consensus pattern (19 bp):
TGCATCTTACTTTCCGCAC
Found at i:438516 original size:21 final size:19
Alignment explanation
Indices: 438478--438520 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
438468 AAGGAGAGGG
438478 AAAAAAAGATAAAAAAATGA
1 AAAAAAAGATAAAAAAAT-A
438498 AAAATAAAGA-AAAATAAATA
1 AAAA-AAAGATAAAA-AAATA
438518 AAA
1 AAA
438521 TGGGGTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAAAAGATAAAAAAATA
Found at i:440277 original size:130 final size:131
Alignment explanation
Indices: 439910--440295 Score: 472
Period size: 134 Copynumber: 2.9 Consensus size: 131
439900 AGATCCCTGT
* * *
439910 TTCTTTCAGATTTTGTATTCCTGAAGAACAGTGAAGAAAATCACGTTCGATTCAGTGTTCCCTGA
1 TTCTTTCAGATTTGGTATTCCTGAAGAGCAGTGAAGAAAATCACGTTCGATTCAGTATTCCCTGA
* * * * *
439975 AAAGCAGCGAAATGGATCAAAATTTTCTCGAGTTTGATCTCCCCTAAAGAGTAGTGGAGGAGATT
66 AGAGCAGCGAAGTGGAT-AAAA-ATTAT-GAGTTTGATCTCCCCTAAAGAGTAGTGGAGGAAATT
*
440040 CTTC
128 ATTC
* * * * * *
440044 TTCTTTCAGATTTGGTATTCCTGAAGAGCAGCGAAGTAAATCATGTTTGATTCAGTCTTCCATGA
1 TTCTTTCAGATTTGGTATTCCTGAAGAGCAGTGAAGAAAATCACGTTCGATTCAGTATTCCCTGA
* ** * *
440109 AGAGCAGCAAAGTGGATAAAAAATTACAAGTTTTATCT-CCCTAAAGAATAGTGGAGGAAATTAT
66 AGAGCAGCGAAGTGGAT-AAAAATTATGAGTTTGATCTCCCCTAAAGAGTAGTGGAGGAAATTAT
440173 TC
130 TC
* * *
440175 TTCTTTCAGATTTGGTCTT-CTGAAGAGCAGTGAAGCAAATCACGTTCGATT-TGATATTCCCTG
1 TTCTTTCAGATTTGGTATTCCTGAAGAGCAGTGAAGAAAATCACGTTCGATTCAG-TATTCCCTG
* *
440238 AAGAGCAGCGAAGTGGATAACAAATTATGAGTCTGATCTCCCCTAAAGAGTAATGGAG
65 AAGAGCAGCGAAGTGGATAA-AAATTATGAGTTTGATCTCCCCTAAAGAGTAGTGGAG
440296 CAGACCCACC
Statistics
Matches: 214, Mismatches: 35, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
129 3 0.01
130 66 0.31
131 59 0.28
132 9 0.04
133 2 0.01
134 75 0.35
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (131 bp):
TTCTTTCAGATTTGGTATTCCTGAAGAGCAGTGAAGAAAATCACGTTCGATTCAGTATTCCCTGA
AGAGCAGCGAAGTGGATAAAAATTATGAGTTTGATCTCCCCTAAAGAGTAGTGGAGGAAATTATT
C
Found at i:440809 original size:2 final size:2
Alignment explanation
Indices: 440802--440827 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
440792 AGTAATCAAG
440802 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
440828 CATTAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:441416 original size:16 final size:16
Alignment explanation
Indices: 441395--441425 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
441385 CAGAAAAATC
*
441395 AGAAAAGAAAAGAAAA
1 AGAAAAAAAAAGAAAA
441411 AGAAAAAAAAAGAAA
1 AGAAAAAAAAAGAAA
441426 TGAGGGGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAAAGAAAA
Found at i:444946 original size:60 final size:60
Alignment explanation
Indices: 444813--444926 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
444803 GTCATGTGAC
* * * * * *
444813 CATTTTATAACTTTTAATAGTCGAGTAACTCAACAAAGCAACGCCCTATAGTCGGTAGAT
1 CATTTTGTAACTTTTAATAATCAAATAACTCAACAAAGAAACACCCTATAGTCGGTAGAT
* *
444873 CATTTTGTAACTTTTAATAATCAAATGACTCAATAAAGAAACACCCTATAGTCG
1 CATTTTGTAACTTTTAATAATCAAATAACTCAACAAAGAAACACCCTATAGTCG
444927 AGAGTTCATT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 46 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (60 bp):
CATTTTGTAACTTTTAATAATCAAATAACTCAACAAAGAAACACCCTATAGTCGGTAGAT
Found at i:449533 original size:19 final size:19
Alignment explanation
Indices: 449495--449533 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
449485 ATATGATTTC
* * *
449495 AAAAATAAAATTATATTTT
1 AAAAATAAAAATAGACTTT
449514 AAAAATAAAAATAGACTTT
1 AAAAATAAAAATAGACTTT
449533 A
1 A
449534 TAACAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAATAAAAATAGACTTT
Found at i:453156 original size:21 final size:20
Alignment explanation
Indices: 453130--453186 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 20
453120 AAATAAAATG
453130 TTTTAATATATATTAAATAA
1 TTTTAATATATATTAAATAA
*
453150 TTTTTAATATATATT-AATGA
1 -TTTTAATATATATTAAATAA
*
453170 TTTTATTATATATTAAA
1 TTTTAATATATATTAAA
453187 GAGTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 13 0.39
20 6 0.18
21 14 0.42
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTTAATATATATTAAATAA
Found at i:453159 original size:19 final size:20
Alignment explanation
Indices: 453137--453186 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
453127 ATGTTTTAAT
453137 ATATATTAAATAATTTT-TA
1 ATATATTAAATAATTTTATA
* * *
453156 ATATATATTAATGATTTTATT
1 ATATAT-TAAATAATTTTATA
453177 ATATATTAAA
1 ATATATTAAA
453187 GAGTAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 6 0.24
20 12 0.48
21 7 0.28
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATATATTAAATAATTTTATA
Found at i:461158 original size:24 final size:24
Alignment explanation
Indices: 461131--461179 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
461121 TATATCAAAA
*
461131 ATCAAAACATAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
* *
461155 ATCATATCAGAAATCAGGTCAAGT
1 ATCAAAACAGAAATCAGGTCAAGT
461179 A
1 A
461180 ACAGATCAGA
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:0.47, C:0.16, G:0.14, T:0.22
Consensus pattern (24 bp):
ATCAAAACAGAAATCAGGTCAAGT
Found at i:461239 original size:24 final size:24
Alignment explanation
Indices: 461148--461239 Score: 125
Period size: 24 Copynumber: 3.8 Consensus size: 24
461138 CATAAATCAG
* *
461148 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAT
*
461172 GTCAAGTAACAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
461196 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
461220 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
461240 TCAAATCGAA
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
23 5 0.08
24 54 0.89
25 2 0.03
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.24
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:461255 original size:48 final size:48
Alignment explanation
Indices: 461155--461257 Score: 111
Period size: 48 Copynumber: 2.1 Consensus size: 48
461145 CAGGTCAAGT
* ** *
461155 ATCATATCAGAAATCAGGTCAAGTAACAGATCAGAATCCATGTCAGAT
1 ATCAGATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAAATCAGAA
* * *
461203 ATCAGATCAG-AATCCATGTCAAGTATCAGATCAGAATTCAAATC-GAAA
1 ATCAGATCAGAAAT-CAGGTCAAGTAACAGATCAGAATCCAAATCAG-AA
461251 ATCAGAT
1 ATCAGAT
461258 AAAATATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 4 0.09
48 42 0.91
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (48 bp):
ATCAGATCAGAAATCAGGTCAAGTAACAGATCAGAATCCAAATCAGAA
Found at i:463661 original size:13 final size:13
Alignment explanation
Indices: 463643--463674 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
463633 CGTCGATCAA
*
463643 CGGGTCAACGGGT
1 CGGGTCAACAGGT
463656 CGGGTCAACAGGT
1 CGGGTCAACAGGT
463669 CGGGTC
1 CGGGTC
463675 GGGTCAACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.25, G:0.44, T:0.16
Consensus pattern (13 bp):
CGGGTCAACAGGT
Found at i:463674 original size:18 final size:17
Alignment explanation
Indices: 463651--463691 Score: 73
Period size: 18 Copynumber: 2.4 Consensus size: 17
463641 AACGGGTCAA
463651 CGGGTCGGGTCAACAGGT
1 CGGGTCGGGTCAAC-GGT
463669 CGGGTCGGGTCAACGGT
1 CGGGTCGGGTCAACGGT
463686 CGGGTC
1 CGGGTC
463692 AGGTTATGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.12, C:0.24, G:0.46, T:0.17
Consensus pattern (17 bp):
CGGGTCGGGTCAACGGT
Found at i:466487 original size:56 final size:56
Alignment explanation
Indices: 466421--466536 Score: 214
Period size: 56 Copynumber: 2.1 Consensus size: 56
466411 AAAAACACAT
466421 CATAAAACAGGTATATCAGTTCACAACGAGTACACGTAGCATCATATCAAATCATA
1 CATAAAACAGGTATATCAGTTCACAACGAGTACACGTAGCATCATATCAAATCATA
* *
466477 CATAAAACAGGTATATCATTTCATAACGAGTACACGTAGCATCATATCAAATCATA
1 CATAAAACAGGTATATCAGTTCACAACGAGTACACGTAGCATCATATCAAATCATA
466533 CATA
1 CATA
466537 TTTATGTACA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.43, C:0.21, G:0.11, T:0.25
Consensus pattern (56 bp):
CATAAAACAGGTATATCAGTTCACAACGAGTACACGTAGCATCATATCAAATCATA
Found at i:466524 original size:31 final size:31
Alignment explanation
Indices: 466433--466532 Score: 79
Period size: 31 Copynumber: 3.4 Consensus size: 31
466423 TAAAACAGGT
* *
466433 ATATCAGTTCACAACGAGTACACGTAGCATC
1 ATATCAATTCATAACGAGTACACGTAGCATC
* * *
466464 ATATCAAATCAT-AC-A-TAAAAC--AG-GT-
1 ATATCAATTCATAACGAGT-ACACGTAGCATC
*
466489 ATATCATTTCATAACGAGTACACGTAGCATC
1 ATATCAATTCATAACGAGTACACGTAGCATC
*
466520 ATATCAAATCATA
1 ATATCAATTCATA
466533 CATATTTATG
Statistics
Matches: 50, Mismatches: 11, Indels: 16
0.65 0.14 0.21
Matches are distributed among these distances:
25 10 0.20
26 3 0.06
27 6 0.12
28 2 0.04
29 6 0.12
30 3 0.06
31 20 0.40
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (31 bp):
ATATCAATTCATAACGAGTACACGTAGCATC
Found at i:468864 original size:28 final size:28
Alignment explanation
Indices: 468793--468871 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
468783 ATGTATAATT
**
468793 TGTCCCGAAGGACCAAATAGAACACATA
1 TGTCCCGAAGGACCACGTAGAACACATA
468821 TGTCCCGAAGGACCACGTAGAACACATA
1 TGTCCCGAAGGACCACGTAGAACACATA
*
468849 TGTCCCGAAGGACCACGCAGAAC
1 TGTCCCGAAGGACCACGTAGAAC
468872 CCTCGACTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.37, C:0.29, G:0.22, T:0.13
Consensus pattern (28 bp):
TGTCCCGAAGGACCACGTAGAACACATA
Found at i:469994 original size:73 final size:76
Alignment explanation
Indices: 469864--470016 Score: 249
Period size: 73 Copynumber: 2.1 Consensus size: 76
469854 GTACCGATTT
* *
469864 CCCTCATATGGTGTACCGATCCCCCTATGCCAATTTTGGCTCCGAGAAAAACTGAATGCCAAATG
1 CCCTCATATGGTGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAGAATGCCAAATG
469929 GGTACTGATAC
66 GGTACTGATAC
* *
469940 CCCTCATA-GG-GTACCGATATCCCTATGCCAA-TTTGGCTCCGAGAAAAACAGAATGCCTAATG
1 CCCTCATATGGTGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAGAATGCCAAATG
470002 GGTACTGATAC
66 GGTACTGATAC
470013 CCCT
1 CCCT
470017 AGTCATTTAA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
73 44 0.60
74 19 0.26
75 2 0.03
76 8 0.11
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (76 bp):
CCCTCATATGGTGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAGAATGCCAAATG
GGTACTGATAC
Found at i:475791 original size:23 final size:21
Alignment explanation
Indices: 475742--475799 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 21
475732 TGTGTACCAG
475742 GTATCGATACCCCTTCAACGT
1 GTATCGATACCCCTTCAACGT
* *
475763 GTATCGATACCCTCTTTGAATGT
1 GTATCGATACCC-C-TTCAACGT
475786 GTATCGATACCCCT
1 GTATCGATACCCCT
475800 ATAAGGGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.39
22 2 0.06
23 18 0.55
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (21 bp):
GTATCGATACCCCTTCAACGT
Found at i:478464 original size:19 final size:20
Alignment explanation
Indices: 478440--478478 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
478430 AAACAGAATA
*
478440 CCTAAT-GGGTACTGATACC
1 CCTAATAGGGTACCGATACC
478459 CCTAATAGGGTACCGATACC
1 CCTAATAGGGTACCGATACC
478479 GATACCCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (20 bp):
CCTAATAGGGTACCGATACC
Found at i:478542 original size:81 final size:80
Alignment explanation
Indices: 478394--478558 Score: 226
Period size: 80 Copynumber: 2.0 Consensus size: 80
478384 TCATAGGGTG
* * *
478394 TACCGATCCCCCTATGCCAATTTTGGCTCCGAGAAAAAACAGAATACCTAATGGGTACTGATACC
1 TACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAAACAGAATACCCAATGGGTACCGATACC
478459 CC-TAATAGGGTACCGA
66 CCTTAA-A-GGTACCGA
* * *
478475 TACCGATACCCCTATGCTAATTTTGGCTCCGAG-AAAAATAGAATGCCCAATGGGTACCGATACC
1 TACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAAACAGAATACCCAATGGGTACCGATA-C
*
478539 CCCTTAAAGGTACTGA
65 CCCTTAAAGGTACCGA
478555 TACC
1 TACC
478559 CCCTTAAAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
80 36 0.48
81 36 0.48
82 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (80 bp):
TACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAAACAGAATACCCAATGGGTACCGATACC
CCTTAAAGGTACCGA
Found at i:478556 original size:20 final size:20
Alignment explanation
Indices: 478527--478580 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
478517 ATGCCCAATG
478527 GGTACCGATACCCCCTTAAA
1 GGTACCGATACCCCCTTAAA
*
478547 GGTACTGATACCCCCTTAAA
1 GGTACCGATACCCCCTTAAA
478567 GGTACCGATACCCC
1 GGTACCGATACCCC
478581 TAGTCATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.20
Consensus pattern (20 bp):
GGTACCGATACCCCCTTAAA
Found at i:481383 original size:25 final size:25
Alignment explanation
Indices: 481341--481410 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
481331 TGTAGTTGGC
*
481341 TCAGAGGTTAT-GATTCTCTTGTGT
1 TCAGAGGATATAGATTCTCTTGTGT
481365 TCAGAGGATATAGATTCTCTTGTGT
1 TCAGAGGATATAGATTCTCTTGTGT
481390 TCAGAGGATATAGATTC-CTTG
1 TCAGAGGATATAGATTCTCTTG
481411 GAAGTTCCAG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
24 14 0.32
25 30 0.68
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (25 bp):
TCAGAGGATATAGATTCTCTTGTGT
Found at i:486194 original size:14 final size:15
Alignment explanation
Indices: 486175--486211 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
486165 CATTGTTGCA
486175 TTTGCATCTCGCA-T
1 TTTGCATCTCGCATT
*
486189 TTTGCAT-TCTCATT
1 TTTGCATCTCGCATT
486203 TTTGCATCT
1 TTTGCATCT
486212 TTGCATTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 15 0.75
15 1 0.05
ACGTcount: A:0.14, C:0.24, G:0.11, T:0.51
Consensus pattern (15 bp):
TTTGCATCTCGCATT
Found at i:486240 original size:28 final size:28
Alignment explanation
Indices: 486175--486251 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
486165 CATTGTTGCA
*
486175 TTTGCATC-TCGCATTTTGCATTCTCATT
1 TTTGCATCTTTGCA-TTTGCATTCTCATT
*
486203 TTTGCATCTTTGCATTTGCATGTGT-ATT
1 TTTGCATCTTTGCATTTGCAT-TCTCATT
*
486231 TTTGCATCTTTGCATTAGCAT
1 TTTGCATCTTTGCATTTGCAT
486252 ATATACATTG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 38 0.86
29 6 0.14
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (28 bp):
TTTGCATCTTTGCATTTGCATTCTCATT
Found at i:487458 original size:20 final size:22
Alignment explanation
Indices: 487419--487461 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
487409 GAGAGATAAG
487419 AAAAAATATAGAAAAAAAGAAA
1 AAAAAATATAGAAAAAAAGAAA
*
487441 AAAAAATA-AG-AAAGAAGAAA
1 AAAAAATATAGAAAAAAAGAAA
487461 A
1 A
487462 TATACATATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 2 0.10
22 8 0.40
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (22 bp):
AAAAAATATAGAAAAAAAGAAA
Found at i:488150 original size:28 final size:28
Alignment explanation
Indices: 488087--488150 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
488077 CACAAGAAGA
*
488087 CAACCTGAAACACTTTACCTCCCCAAAT
1 CAACCTGAAACACATTACCTCCCCAAAT
* * * *
488115 TAATCTGAAACACATTACCTTCCCAAGT
1 CAACCTGAAACACATTACCTCCCCAAAT
*
488143 CAGCCTGA
1 CAACCTGA
488151 TCCTTTTATC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.34, G:0.08, T:0.23
Consensus pattern (28 bp):
CAACCTGAAACACATTACCTCCCCAAAT
Found at i:489564 original size:43 final size:43
Alignment explanation
Indices: 489498--489710 Score: 299
Period size: 43 Copynumber: 5.0 Consensus size: 43
489488 TATAATAAAC
* * **
489498 TAAGCTTGAGGGACCAACATGATATGTATAGGTTCCTTGATGA
1 TAAGCTTAAGGGACCAACGTGATATGTAGGGGTTCCTTGATGA
489541 TAAGCTTAAGGGACCAACGTGATATGTAGGGGTTCCTTGATGA
1 TAAGCTTAAGGGACCAACGTGATATGTAGGGGTTCCTTGATGA
* *
489584 TAAGCTTGAGGGACCAACGTGATATGTAGGGGTTTCTTGATGA
1 TAAGCTTAAGGGACCAACGTGATATGTAGGGGTTCCTTGATGA
489627 TAAGCTTGAA-GGACCAACGTGATATGTAGGGGTTCCTTGATGA
1 TAAGCTT-AAGGGACCAACGTGATATGTAGGGGTTCCTTGATGA
* * *
489670 CAA-C-TAGAGGAACCAATGTGATATGTA-GGGTTCCTTGATGA
1 TAAGCTTA-AGGGACCAACGTGATATGTAGGGGTTCCTTGATGA
489711 CAATTATGAA
Statistics
Matches: 156, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
40 1 0.01
41 16 0.10
42 17 0.11
43 121 0.78
44 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (43 bp):
TAAGCTTAAGGGACCAACGTGATATGTAGGGGTTCCTTGATGA
Done.