Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009595.1 Hibiscus syriacus cultivar Beakdansim tig00116974_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: 1046665
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:228849 original size:20 final size:20
Alignment explanation
Indices: 228790--228877 Score: 95
Period size: 20 Copynumber: 4.2 Consensus size: 20
228780 GCATAGCTCG
* * *
228790 CTCGGTTGCCCTCGGATGCC
1 CTCGGATGCTCTCGGATGGC
*
228810 CTCGCATAGCTCGTTCGGATGGC
1 CTCGGAT-GCTC--TCGGATGGC
228833 CTCGGATGCTCTCGGATGGC
1 CTCGGATGCTCTCGGATGGC
* *
228853 CTCGGATGCTTTCGGATAGC
1 CTCGGATGCTCTCGGATGGC
228873 CTCGG
1 CTCGG
228878 TCGAATGGCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
20 37 0.64
21 3 0.05
22 4 0.07
23 14 0.24
ACGTcount: A:0.10, C:0.32, G:0.32, T:0.26
Consensus pattern (20 bp):
CTCGGATGCTCTCGGATGGC
Found at i:228857 original size:53 final size:54
Alignment explanation
Indices: 228790--228895 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 54
228780 GCATAGCTCG
* * *
228790 CTCGGTTGCCCTCGGATGCCCTCGCATAG-CTCGTTCGGATGGCCTCGGATGCT
1 CTCGGATGCCCTCGGATGCCCTCGCATAGCCTCGGTCGAATGGCCTCGGATGCT
* ** *
228843 CTCGGATGGCCTCGGATGCTTTCGGATAGCCTCGGTCGAATGGCCTCGGATGC
1 CTCGGATGCCCTCGGATGCCCTCGCATAGCCTCGGTCGAATGGCCTCGGATGC
228896 CCAGCGTGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 24 0.53
54 21 0.47
ACGTcount: A:0.11, C:0.31, G:0.32, T:0.25
Consensus pattern (54 bp):
CTCGGATGCCCTCGGATGCCCTCGCATAGCCTCGGTCGAATGGCCTCGGATGCT
Found at i:228877 original size:10 final size:9
Alignment explanation
Indices: 228824--228877 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 9
228814 CATAGCTCGT
228824 TCGGATGGCC
1 TCGGAT-GCC
228834 TCGGATGCTC
1 TCGGATGC-C
228844 TCGGATGGCC
1 TCGGAT-GCC
*
228854 TCGGATGCTT
1 TCGGATGC-C
228864 TCGGATAGCC
1 TCGGAT-GCC
228874 TCGG
1 TCGG
228878 TCGAATGGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 4 0.11
10 30 0.79
11 4 0.11
ACGTcount: A:0.11, C:0.28, G:0.35, T:0.26
Consensus pattern (9 bp):
TCGGATGCC
Found at i:228976 original size:30 final size:29
Alignment explanation
Indices: 228942--229013 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
228932 CTGCATGGAT
*
228942 TGCATGGCTACCTACCTAGGTCGCTGGGCG
1 TGCATGGCGACCT-CCTAGGTCGCTGGGCG
**
228972 TGCATGGCGACCTGGTAGGTCGCTGGGCG
1 TGCATGGCGACCTCCTAGGTCGCTGGGCG
*
229001 TGCATGGTGACCT
1 TGCATGGCGACCT
229014 ATATGGGGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 26 0.68
30 12 0.32
ACGTcount: A:0.12, C:0.26, G:0.38, T:0.24
Consensus pattern (29 bp):
TGCATGGCGACCTCCTAGGTCGCTGGGCG
Found at i:228994 original size:29 final size:29
Alignment explanation
Indices: 228958--229013 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
228948 GCTACCTACC
228958 TAGGTCGCTGGGCGTGCATGGCGACCTGG
1 TAGGTCGCTGGGCGTGCATGGCGACCTGG
*
228987 TAGGTCGCTGGGCGTGCATGGTGACCT
1 TAGGTCGCTGGGCGTGCATGGCGACCT
229014 ATATGGGGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.11, C:0.23, G:0.43, T:0.23
Consensus pattern (29 bp):
TAGGTCGCTGGGCGTGCATGGCGACCTGG
Found at i:229412 original size:29 final size:29
Alignment explanation
Indices: 229376--229441 Score: 114
Period size: 29 Copynumber: 2.3 Consensus size: 29
229366 GACCTATTTA
* *
229376 GGTCGCCATGCAGGCTGTGCGCCATTGTT
1 GGTCGCCATACAGGCTATGCGCCATTGTT
229405 GGTCGCCATACAGGCTATGCGCCATTGTT
1 GGTCGCCATACAGGCTATGCGCCATTGTT
229434 GGTCGCCA
1 GGTCGCCA
229442 CGAAGGCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.14, C:0.29, G:0.32, T:0.26
Consensus pattern (29 bp):
GGTCGCCATACAGGCTATGCGCCATTGTT
Found at i:229448 original size:29 final size:28
Alignment explanation
Indices: 229376--229459 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 28
229366 GACCTATTTA
* *
229376 GGTCGCCATGCAGGCTGTGCGCCATTGTT
1 GGTCGCCA-GAAGGCTATGCGCCATTGTT
*
229405 GGTCGCCATACAGGCTATGCGCCATTGTT
1 GGTCGCCAGA-AGGCTATGCGCCATTGTT
* *
229434 GGTCGCCACGAAGGCCATGCGACATT
1 GGTCGCCA-GAAGGCTATGCGCCATT
229460 CTATCAAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 46 0.98
30 1 0.02
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.24
Consensus pattern (28 bp):
GGTCGCCAGAAGGCTATGCGCCATTGTT
Found at i:229764 original size:2 final size:2
Alignment explanation
Indices: 229757--229795 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
229747 ATTTTGTATG
229757 TA TA TA 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
229796 CCAAATTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:230026 original size:13 final size:14
Alignment explanation
Indices: 230008--230039 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
229998 TTATTTATAA
230008 AAAATAATATT-TT
1 AAAATAATATTATT
230021 AAAAT-ATATTATT
1 AAAATAATATTATT
230034 AAAATA
1 AAAATA
230040 CAATATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATAATATTATT
Found at i:230033 original size:15 final size:16
Alignment explanation
Indices: 229994--230033 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
229984 GTAATTATCC
229994 TATATTATTTATAAAA
1 TATATTATTTATAAAA
* *
230010 AATAATATTT-TAAAA
1 TATATTATTTATAAAA
230025 TATATTATT
1 TATATTATT
230034 AAAATACAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATTATTTATAAAA
Found at i:230278 original size:14 final size:14
Alignment explanation
Indices: 230256--230300 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
230246 TTATTGCTAA
230256 AAATCATAAACCCT
1 AAATCATAAACCCT
* *
230270 AAATTATAAACTCT
1 AAATCATAAACCCT
230284 AAA-CATTAAACCCT
1 AAATCA-TAAACCCT
230298 AAA
1 AAA
230301 CCCTAATCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 1 0.04
14 25 0.96
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATCATAAACCCT
Found at i:231076 original size:16 final size:16
Alignment explanation
Indices: 231076--231118 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
231066 TATTTATAAA
231076 TATAAATTCGACTTGT
1 TATAAATTCGACTTGT
* *
231092 TATAAGTTCAACTAT-T
1 TATAAATTCGACT-TGT
231108 TATAAATTCGA
1 TATAAATTCGA
231119 TTTAAATTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 21 0.95
17 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (16 bp):
TATAAATTCGACTTGT
Found at i:231080 original size:22 final size:22
Alignment explanation
Indices: 231055--231096 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
231045 TGTAATAAGA
231055 ATAAATTCGACTAT-TTATAAAT
1 ATAAATTCGACT-TGTTATAAAT
231077 ATAAATTCGACTTGTTATAA
1 ATAAATTCGACTTGTTATAA
231097 GTTCAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (22 bp):
ATAAATTCGACTTGTTATAAAT
Found at i:231187 original size:24 final size:22
Alignment explanation
Indices: 231141--231192 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
231131 AAATTCTATT
**
231141 TAATTATTTAATCATTATTAAA
1 TAATTATTTAATCATTACAAAA
231163 TAATTATTAGTAATCATTACAAAA
1 TAATTATT--TAATCATTACAAAA
*
231187 TCATTA
1 TAATTA
231193 GTATCAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.32
24 17 0.68
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (22 bp):
TAATTATTTAATCATTACAAAA
Found at i:231213 original size:21 final size:22
Alignment explanation
Indices: 231184--231227 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
231174 AATCATTACA
*
231184 AAATCATTAGT-ATCAAATCATT
1 AAATCATTAATAAT-AAATCATT
231206 AAAT-ATTAATAATAAATCATT
1 AAATCATTAATAATAAATCATT
231227 A
1 A
231228 TTAGTAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.36
Consensus pattern (22 bp):
AAATCATTAATAATAAATCATT
Found at i:232206 original size:17 final size:17
Alignment explanation
Indices: 232176--232208 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
232166 TATTAATTTA
232176 ATTTATAAAAATTTAAG
1 ATTTATAAAAATTTAAG
232193 ATTT-TAAAAGATTTAA
1 ATTTATAAAA-ATTTAA
232209 CGTATAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
ATTTATAAAAATTTAAG
Found at i:232243 original size:23 final size:23
Alignment explanation
Indices: 232211--232255 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
232201 AGATTTAACG
*
232211 TATAACTATAAATTAGTTAAAAA
1 TATAAATATAAATTAGTTAAAAA
*
232234 TATAAATATAAATTATTTAAAA
1 TATAAATATAAATTAGTTAAAA
232256 TAAAAAATTA
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:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
TATAAATATAAATTAGTTAAAAA
Found at i:232263 original size:23 final size:23
Alignment explanation
Indices: 232217--232269 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
232207 AACGTATAAC
*
232217 TATAAATTAGTTAAAAATATAAA
1 TATAAATTAGTTAAAAATAAAAA
*
232240 TATAAATTA-TTTAAAATAAAAA
1 TATAAATTAGTTAAAAATAAAAA
*
232262 -ATTAATTA
1 TATAAATTA
232270 CATTATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 7 0.26
22 11 0.41
23 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
TATAAATTAGTTAAAAATAAAAA
Found at i:233300 original size:21 final size:20
Alignment explanation
Indices: 233274--233335 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
233264 CGCAAATCAG
233274 TTTCCAGATTCGCAATGCGAT
1 TTTCCA-ATTCGCAATGCGAT
** *
233295 TTTCCAATTTCGCGTTGCTAT
1 TTTCCAA-TTCGCAATGCGAT
233316 TTTCCCAATTCGCAATGCGA
1 TTT-CCAATTCGCAATGCGA
233336 ATTTGGAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.03
21 28 0.85
22 4 0.12
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (20 bp):
TTTCCAATTCGCAATGCGAT
Found at i:233379 original size:20 final size:20
Alignment explanation
Indices: 233346--233412 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
233336 ATTTGGAAAA
*
233346 TCGCAACGCGATACTGACTT
1 TCGCAACTCGATACTGACTT
* * *
233366 TCGTAACTCGATACTTAATT
1 TCGCAACTCGATACTGACTT
*
233386 TCGCAACTCAATACTGACTT
1 TCGCAACTCGATACTGACTT
233406 TCGCAAC
1 TCGCAAC
233413 GAGATAATAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (20 bp):
TCGCAACTCGATACTGACTT
Found at i:233633 original size:22 final size:22
Alignment explanation
Indices: 233605--233656 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
233595 CACTCTCTCA
233605 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
233627 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
233649 TCCATCTC
1 CCCATCTC
233657 TCAGAGCCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.46, G:0.12, T:0.21
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:233997 original size:170 final size:170
Alignment explanation
Indices: 233796--234136 Score: 570
Period size: 170 Copynumber: 2.0 Consensus size: 170
233786 TTACTGGTAA
233796 TTCAATAATAGATTAACCATCACTTAGATTGCTTATTAAATCAACCGAGAATCGCAACGCGAAAT
1 TTCAATAATAGATTAACCATCACTTAGATTGCTTATTAAATCAACCGAGAATCGCAACGCGAAAT
233861 GAAAATCGCAACGCGATTTTATTCT-T-G-TGCGATAGTC-AATTCGCGTTGCGATTGTCATTTT
66 GAAAATCGCAACGCGATTTTATTCTCTCGTTGCGATAGTCAAATTCGCGTTGCGATTGTC-TTTT
233922 -TGTGTGCGATTTTCA-TTTCAGAAACTATTCTTCTTCTGCAAAT
130 GTGT-TGC-ATTTTCATTTTC--AAACTATTCTTCTTCTGCAAAT
233965 TTCAATAATAGA-TAACCATTTCACTTAGATTGCTTATTAAATCAACCGAGAATCGCAACGCGAA
1 TTCAATAATAGATTAACCA--TCACTTAGATTGCTTATTAAATCAACCGAGAATCGCAACGCGAA
234029 ATGAAAATCGCAACGCGATTTTATTCTCTCGTTGCGATAGTCAAATTCGCGTTGCGATTGTCTTT
64 ATGAAAATCGCAACGCGATTTTATTCTCTCGTTGCGATAGTCAAATTCGCGTTGCGATTGTCTTT
234094 TGTGTTGCATTTTCATTTTCAAACTATTCTTCTTCTGCAAAT
129 TGTGTTGCATTTTCATTTTCAAACTATTCTTCTTCTGCAAAT
234136 T
1 T
234137 GAAACTTGAA
Statistics
Matches: 164, Mismatches: 0, Indels: 14
0.92 0.00 0.08
Matches are distributed among these distances:
168 6 0.04
169 12 0.07
170 71 0.43
171 24 0.15
172 8 0.05
173 21 0.13
174 22 0.13
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.36
Consensus pattern (170 bp):
TTCAATAATAGATTAACCATCACTTAGATTGCTTATTAAATCAACCGAGAATCGCAACGCGAAAT
GAAAATCGCAACGCGATTTTATTCTCTCGTTGCGATAGTCAAATTCGCGTTGCGATTGTCTTTTG
TGTTGCATTTTCATTTTCAAACTATTCTTCTTCTGCAAAT
Found at i:234299 original size:25 final size:24
Alignment explanation
Indices: 234243--234299 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
234233 TTATGTTTAT
*
234243 TATGTTTTTGGTATATCTTCACAG
1 TATGTTTTTGGTATATCTTAACAG
*
234267 TGTAGTTTTTGGTATATC-TAACTTAG
1 TAT-GTTTTTGGTATATCTTAAC--AG
234293 TATGTTT
1 TATGTTT
234300 ATTGTTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 5 0.19
25 18 0.67
26 4 0.15
ACGTcount: A:0.21, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TATGTTTTTGGTATATCTTAACAG
Found at i:235451 original size:18 final size:18
Alignment explanation
Indices: 235430--235477 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
235420 TCCACTTCGG
235430 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
235448 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
235466 GAGCCATCACCT
1 GAGCCATCACCT
235478 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:236066 original size:19 final size:20
Alignment explanation
Indices: 236023--236078 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
236013 TGCAACACGA
236023 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
236043 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
236062 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
236079 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:236105 original size:19 final size:19
Alignment explanation
Indices: 236031--236114 Score: 70
Period size: 19 Copynumber: 4.6 Consensus size: 19
236021 GAAAATGACT
***
236031 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGAAA
*
236051 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
236070 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
236084 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
236103 ATCGCAATGCGA
1 ATCGCAACGCGA
236115 TTTGTGTTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 27 0.52
20 9 0.17
ACGTcount: A:0.42, C:0.23, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:236126 original size:19 final size:19
Alignment explanation
Indices: 236121--236186 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
236111 GCGATTTGTG
*
236121 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
236140 TTTCGCATTGCGA-TTT--
1 TTTCGCATTGCGATTTTCA
*
236156 TGTCG--TTGCGATTTTCA
1 TTTCGCATTGCGATTTTCA
236173 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
236187 AGTCATTTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 6 0.15
15 3 0.08
16 4 0.10
17 4 0.10
18 3 0.08
19 19 0.49
ACGTcount: A:0.12, C:0.20, G:0.21, T:0.47
Consensus pattern (19 bp):
TTTCGCATTGCGATTTTCA
Found at i:236205 original size:20 final size:20
Alignment explanation
Indices: 236159--236225 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
236149 GCGATTTTGT
**
236159 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
*
236178 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
236198 TGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
236218 CGTTGCGA
1 CGTTGCGA
236226 AAGTAAGTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 14 0.35
20 26 0.65
ACGTcount: A:0.15, C:0.21, G:0.24, T:0.40
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:236236 original size:20 final size:20
Alignment explanation
Indices: 236199--236251 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
236189 TCATTTCCGT
* * *
236199 GTTGCGATAGTCATTTTCGC
1 GTTGCGAAAGTAAGTTTCGC
*
236219 GTTGCGAAAGTAAGTTTCGT
1 GTTGCGAAAGTAAGTTTCGC
*
236239 GTTACGAAAGTAA
1 GTTGCGAAAGTAA
236252 ACTATTCTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (20 bp):
GTTGCGAAAGTAAGTTTCGC
Found at i:236240 original size:40 final size:39
Alignment explanation
Indices: 236160--236241 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 39
236150 CGATTTTGTC
** * *
236160 GTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCGT
1 GTTGCGATAGTCATTTCGCATTGCGAAAGTAATTTCCGT
*
236199 GTTGCGATAGTCATTTTCGCGTTGCGAAAGTAAGTTT-CGT
1 GTTGCGATAGTCA-TTTCGCATTGCGAAAGTAA-TTTCCGT
236239 GTT
1 GTT
236242 ACGAAAGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 11 0.31
40 22 0.61
41 3 0.08
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.41
Consensus pattern (39 bp):
GTTGCGATAGTCATTTCGCATTGCGAAAGTAATTTCCGT
Found at i:236626 original size:21 final size:20
Alignment explanation
Indices: 236600--236667 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
236590 CTGTCATTCC
236600 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
236621 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
*
236642 TCAAGAGTCCCC-CCACCGT
1 TCAAGAGTCCCCTCCATCGT
236661 TCAAGAG
1 TCAAGAG
236668 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
19 10 0.27
21 26 0.70
22 1 0.03
ACGTcount: A:0.25, C:0.40, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:236679 original size:40 final size:42
Alignment explanation
Indices: 236590--236679 Score: 130
Period size: 40 Copynumber: 2.2 Consensus size: 42
236580 CCCGACTCAC
* * *
236590 CTGTCATTCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
*
236632 CTATCATCCCTCAAGAGTCCCC-CC-ACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
236672 CTGTCATC
1 CTGTCATC
236680 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 21 0.49
41 2 0.05
42 20 0.47
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:238122 original size:14 final size:14
Alignment explanation
Indices: 238088--238126 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
238078 TTGATTGTTT
238088 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
238102 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
238116 TGTTGATTTGT
1 AATTGATTTGT
238127 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:238272 original size:14 final size:14
Alignment explanation
Indices: 238253--238306 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
238243 GAAACTGACT
238253 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
*
238267 ATCGCAATGCAAAATGAAA
1 ATCGCAA--C--GA-GAAA
238286 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
238300 ATCGCAA
1 ATCGCAA
238307 TGCGATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 18 0.55
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.33
ACGTcount: A:0.50, C:0.20, G:0.19, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:238357 original size:34 final size:36
Alignment explanation
Indices: 238319--238408 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 36
238309 CGATTTTTCA
* *
238319 TTTCGCATTGCGATTT-TTT-AGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTATTTCAATTGCGATAGCCAT
238353 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA--TTT-ATTTC-AATTGCGATAGCCAT
238393 TTTCGCGTTGCGATTT
1 TTTCGCGTTGCGATTT
238409 CCCCGTTGCG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
34 12 0.25
36 3 0.06
38 6 0.12
40 27 0.56
ACGTcount: A:0.16, C:0.19, G:0.21, T:0.44
Consensus pattern (36 bp):
TTTCGCGTTGCGATTTATTTCAATTGCGATAGCCAT
Found at i:238362 original size:20 final size:20
Alignment explanation
Indices: 238339--238406 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
238329 CGATTTTTTA
238339 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
238359 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
*
238379 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
238399 GTTGCGAT
1 GTTGCGAT
238407 TTCCCCGTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 3 0.08
20 30 0.83
21 3 0.08
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.40
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:238645 original size:20 final size:20
Alignment explanation
Indices: 238620--238669 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
238610 TTGAAGATGA
238620 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
238640 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
238660 TTGCGATTTT
1 TTGCGATTTT
238670 GTATTATCTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:239560 original size:24 final size:24
Alignment explanation
Indices: 239533--239586 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
239523 GTATTCGAAA
*
239533 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
239557 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
239581 TTTGAT
1 TTTGAT
239587 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:239778 original size:12 final size:12
Alignment explanation
Indices: 239761--239787 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
239751 ATATAATCCT
239761 GAAGAAGAAAAA
1 GAAGAAGAAAAA
239773 GAAGAAGAAAAA
1 GAAGAAGAAAAA
239785 GAA
1 GAA
239788 AAAGTCCCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:241052 original size:21 final size:21
Alignment explanation
Indices: 241023--241103 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
241013 GAATGGTGGG
*
241023 AGGGACCTCTTCAACGATGAT
1 AGGGGCCTCTTCAACGATGAT
* * * **
241044 AGTGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTCAACGATGAT
* * *
241065 AGGGGACTC-TCGATGAATGAT
1 AGGGGCCTCTTCAACG-ATGAT
241086 AGGGGCCTCTTCAACGAT
1 AGGGGCCTCTTCAACGAT
241104 AGGAGTGGAC
Statistics
Matches: 41, Mismatches: 17, Indels: 4
0.66 0.27 0.06
Matches are distributed among these distances:
20 3 0.07
21 34 0.83
22 4 0.10
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (21 bp):
AGGGGCCTCTTCAACGATGAT
Found at i:241085 original size:42 final size:41
Alignment explanation
Indices: 241008--241116 Score: 112
Period size: 42 Copynumber: 2.6 Consensus size: 41
240998 GTGAATCGGG
* *
241008 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGATAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCAACGATGATAGGGGC
* *
241050 CTCTTGAACGGTGGGAGGGGACTCTCGATGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCAACG-ATGATAGGGGC
* * * *
241092 CTCTTCAACGATAGGAGTGGACTCT
1 CTCTTGAACGGTGGGAGGGGACTCT
241117 TGAGGGATGA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
41 4 0.07
42 49 0.86
43 4 0.07
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCAACGATGATAGGGGC
Found at i:241525 original size:91 final size:90
Alignment explanation
Indices: 241348--241532 Score: 273
Period size: 91 Copynumber: 2.0 Consensus size: 90
241338 ATTTCAAACT
* *
241348 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
*
241413 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGAAGCAACCGAATAAATTTAC
241441 TTCAACCAAAAGAAAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGAAAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
* *
241505 GTATTGGAAGCAACGGAATAAATTTAC
64 GAATTGGAAGCAACCGAATAAATTTAC
241532 T
1 T
241533 AAGCAATCTA
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
91 40 0.47
93 18 0.21
95 27 0.32
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGAAGCAACCGAATAAATTTAC
Found at i:243250 original size:20 final size:19
Alignment explanation
Indices: 243220--243406 Score: 126
Period size: 14 Copynumber: 10.8 Consensus size: 19
243210 CTTTTGGTTA
243220 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGAG
*
243239 ATAATGAGAATCGCAACGAGG
1 A-AATGAAAATCGCAACGA-G
**
243260 AAATGACTATCGCAACGAG
1 AAATGAAAATCGCAACGAG
*
243279 --A-G--AATCGCAACGCG
1 AAATGAAAATCGCAACGAG
**
243293 AAATGACTATCGCAACGAG
1 AAATGAAAATCGCAACGAG
*
243312 --A-G--AATCGCAACGCG
1 AAATGAAAATCGCAACGAG
243326 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGAG
*
243345 --A-G--AATCGCAACGCG
1 AAATGAAAATCGCAACGAG
*
243359 AAATGAAAATCACAACGAG
1 AAATGAAAATCGCAACGAG
*
243378 --A-G--AATCGCAACGCG
1 AAATGAAAATCGCAACGAG
243392 AAATGAAAATCGCAA
1 AAATGAAAATCGCAA
243407 TGCGATTTTG
Statistics
Matches: 131, Mismatches: 15, Indels: 44
0.69 0.08 0.23
Matches are distributed among these distances:
14 41 0.31
16 8 0.06
17 8 0.06
19 41 0.31
20 31 0.24
21 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.11
Consensus pattern (19 bp):
AAATGAAAATCGCAACGAG
Found at i:243301 original size:33 final size:33
Alignment explanation
Indices: 243244--243406 Score: 263
Period size: 33 Copynumber: 4.9 Consensus size: 33
243234 ACGAGATAAT
* **
243244 GAGAATCGCAACGAGGAAATGACTATCGCAACGA
1 GAGAATCGCAACG-CGAAATGAAAATCGCAACGA
**
243278 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
243311 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
*
243344 GAGAATCGCAACGCGAAATGAAAATCACAACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCAACGA
243377 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA
243407 TGCGATTTTG
Statistics
Matches: 124, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 111 0.90
34 13 0.10
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:243374 original size:19 final size:19
Alignment explanation
Indices: 243220--243411 Score: 109
Period size: 19 Copynumber: 11.1 Consensus size: 19
243210 CTTTTGGTTA
*
243220 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
* *
243239 ATAATGAGAATCGCAACGAGG
1 A-AATGAAAATCGCAACG-CG
**
243260 AAATGACTATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
243277 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
**
243293 AAATGACTATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
243310 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
243326 AAATGAAAATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
243343 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
*
243359 AAATGAAAATCACAA--CG
1 AAATGAAAATCGCAACGCG
*
243376 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
*
243392 AAATGAAAATCGCAATGCG
1 AAATGAAAATCGCAACGCG
243411 A
1 A
243412 TTTTGGTTTC
Statistics
Matches: 132, Mismatches: 19, Indels: 44
0.68 0.10 0.23
Matches are distributed among these distances:
14 37 0.28
15 4 0.03
16 8 0.06
17 7 0.05
18 4 0.03
19 43 0.33
20 27 0.20
21 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.11
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:244034 original size:20 final size:20
Alignment explanation
Indices: 244025--244077 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
244015 CGATAGTAAG
*
244025 ATTCGCATTGCAATTTACGT
1 ATTCGCATTGCGATTTACGT
244045 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
244065 ATTCGCATTGCGA
1 ATTCGCATTGCGA
244078 ATTATGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:244098 original size:21 final size:21
Alignment explanation
Indices: 244074--244129 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
244064 TATTCGCATT
*
244074 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* * *
244095 GCGAA-TACGTAAATCGTAAT
1 GCGAATTACGAAAATCGCAAC
*
244115 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
244130 TGCATTGCGA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:244138 original size:21 final size:21
Alignment explanation
Indices: 244067--244139 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
244057 ATTTACGTAT
* *
244067 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
244088 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
* *
244108 TCGTAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
244129 TTGCATTGCGA
1 TCGCAATGCGA
244140 TAGTCAGTAT
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 16 0.40
21 24 0.60
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:244159 original size:41 final size:41
Alignment explanation
Indices: 244004--244203 Score: 105
Period size: 41 Copynumber: 4.9 Consensus size: 41
243994 GGATCTATGT
244004 AAATTGCATTGCGATAGTAAG-ATTCGCATTGC-AATTTACG-
1 AAATTGCATTGCGATAGT-AGTATTCGCATTGCGAA-TTACGA
* * *
244044 -TATTCGCATTGCGAT-TTACGTATTCGCATTGCGAATTATGA
1 AAATT-GCATTGCGATAGTA-GTATTCGCATTGCGAATTACGA
* ** * * * *
244085 AAATCGCAACGCGA-A-TACGTAAATCGTAATGCGAATTAGGA
1 AAATTGCATTGCGATAGTA-GT-ATTCGCATTGCGAATTACGA
* * *
244126 AAATTGCATTGCGATAGTCAGTA-TCGCATTGCGATTTTC-C
1 AAATTGCATTGCGATAGT-AGTATTCGCATTGCGAATTACGA
* * *
244166 AAATTCGCATTGCGAT-TTACTTATTCTCATTGCGAATT
1 AAATT-GCATTGCGATAGTA-GTATTCGCATTGCGAATT
244204 GGGAAAATCG
Statistics
Matches: 122, Mismatches: 24, Indels: 27
0.71 0.14 0.16
Matches are distributed among these distances:
38 1 0.01
39 6 0.05
40 38 0.31
41 69 0.57
42 4 0.03
43 3 0.02
44 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (41 bp):
AAATTGCATTGCGATAGTAGTATTCGCATTGCGAATTACGA
Found at i:244215 original size:41 final size:40
Alignment explanation
Indices: 244047--244215 Score: 115
Period size: 41 Copynumber: 4.1 Consensus size: 40
244037 ATTTACGTAT
* *
244047 TCGCATTGCGATTTACGTATTCGCATTGCGAATTATGAAAA
1 TCGCATTGCGA-TTACTTATTCGCATTGCGAATTAGGAAAA
** * * * * *
244088 TCGCAACGCGAATACGTAAATCGTAATGCGAATTAGGAAAA
1 TCGCATTGCGATTAC-TTATTCGCATTGCGAATTAGGAAAA
* * * * *** *
244129 TTGCATTGCGA-TAGTCAGTATCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTACTTA-T-TCGCATTGCGAATTAGGAAAA
* *
244170 TCGCATTGCGATTTACTTATTCTCATTGCGAATTGGGAAAA
1 TCGCATTGCGA-TTACTTATTCGCATTGCGAATTAGGAAAA
244211 TCGCA
1 TCGCA
244216 ACGCGAAATT
Statistics
Matches: 92, Mismatches: 31, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
39 2 0.02
40 5 0.05
41 80 0.87
42 1 0.01
43 4 0.04
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (40 bp):
TCGCATTGCGATTACTTATTCGCATTGCGAATTAGGAAAA
Found at i:244242 original size:21 final size:22
Alignment explanation
Indices: 244193--244242 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
244183 TACTTATTCT
244193 CATTGCG-AATTGGGAAAATCG
1 CATTGCGAAATTGGGAAAATCG
**
244214 CAACGCGAAATT-GGAAAATCG
1 CATTGCGAAATTGGGAAAATCG
244235 CATTGCGA
1 CATTGCGA
244243 TAGTCATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.20
Consensus pattern (22 bp):
CATTGCGAAATTGGGAAAATCG
Found at i:247608 original size:36 final size:36
Alignment explanation
Indices: 247561--247655 Score: 163
Period size: 36 Copynumber: 2.6 Consensus size: 36
247551 AGATGAATAA
247561 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
*
247597 TTGAATCGAAAGTGTCGATGATTCCTTCCGTTCACT
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
* *
247633 TTGAATCGAAAGTGCCAATGCTT
1 TTGAATCGAAAGTGTCGATGCTT
247656 TCGTTCTTCT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (36 bp):
TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCACT
Found at i:249046 original size:20 final size:20
Alignment explanation
Indices: 249002--249046 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
248992 ACAGACTTTG
*
249002 TAACTACACATTAACAACCT
1 TAACTAAACATTAACAACCT
* *
249022 CAACTAAACATTAACAACTT
1 TAACTAAACATTAACAACCT
249042 TAACT
1 TAACT
249047 GCTAGCAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (20 bp):
TAACTAAACATTAACAACCT
Found at i:251416 original size:36 final size:35
Alignment explanation
Indices: 251336--251474 Score: 199
Period size: 36 Copynumber: 3.9 Consensus size: 35
251326 GAACAAGAAT
251336 AACGGAAGGAAGCATCGCACTTCCGATTCAAGT-G
1 AACGGAAGGAAGCATCGCACTTCCGATTCAAGTCG
251370 AACGGAAGGAAGCATCGACACTTCCGATTCAAGTCG
1 AACGGAAGGAAGCATCG-CACTTCCGATTCAAGTCG
*
251406 AACGGAAGGAAGCATCGGCACTTCCGATTCAAGTCT
1 AACGGAAGGAAGCATC-GCACTTCCGATTCAAGTCG
* * * **
251442 AACGGAATGAGGCGTCGCACTTTTGATTCAAGT
1 AACGGAAGGAAGCATCGCACTTCCGATTCAAGT
251475 GTTCATTTTT
Statistics
Matches: 96, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
34 17 0.18
35 31 0.32
36 47 0.49
37 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (35 bp):
AACGGAAGGAAGCATCGCACTTCCGATTCAAGTCG
Found at i:251439 original size:71 final size:70
Alignment explanation
Indices: 251336--251474 Score: 199
Period size: 71 Copynumber: 2.0 Consensus size: 70
251326 GAACAAGAAT
251336 AACGGAAGGAAGCATCGCACTTCCGATTCAAGT-GAACGGAAGGAAGCATCGACACTTCCGATTC
1 AACGGAAGGAAGCATCGCACTTCCGATTCAAGTCGAACGGAAGGAAGCATCG-CACTTCCGATTC
251400 AAGTCG
65 AAGTCG
* * * * **
251406 AACGGAAGGAAGCATCGGCACTTCCGATTCAAGTCTAACGGAATGAGGCGTCGCACTTTTGATTC
1 AACGGAAGGAAGCATC-GCACTTCCGATTCAAGTCGAACGGAAGGAAGCATCGCACTTCCGATTC
251471 AAGT
65 AAGT
251475 GTTCATTTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
70 16 0.26
71 31 0.51
72 14 0.23
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (70 bp):
AACGGAAGGAAGCATCGCACTTCCGATTCAAGTCGAACGGAAGGAAGCATCGCACTTCCGATTCA
AGTCG
Found at i:256261 original size:31 final size:31
Alignment explanation
Indices: 256213--256278 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
256203 GTTAACGACC
*
256213 TAGGGACTAAAATCAAATAGATCGATAATAT
1 TAGGAACTAAAATCAAATAGATCGATAATAT
* * * *
256244 TAGGAACTACAATCAAATGGATTGATAATGT
1 TAGGAACTAAAATCAAATAGATCGATAATAT
256275 TAGG
1 TAGG
256279 GATCATTTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (31 bp):
TAGGAACTAAAATCAAATAGATCGATAATAT
Found at i:257146 original size:5 final size:5
Alignment explanation
Indices: 257136--257166 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
257126 TTTCGCAAAG
*
257136 ATAAA ATAAA ATAAA ATAAA ACAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
257167 GTGAAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (5 bp):
ATAAA
Found at i:261146 original size:23 final size:23
Alignment explanation
Indices: 261119--261184 Score: 96
Period size: 23 Copynumber: 2.9 Consensus size: 23
261109 TTTTATATGG
261119 CACTTCGGTGCATTTCTACGCGA
1 CACTTCGGTGCATTTCTACGCGA
* * *
261142 CACTTAGGTGCAATTCTACGTGA
1 CACTTCGGTGCATTTCTACGCGA
*
261165 CACTTCGGTGCATTTATACG
1 CACTTCGGTGCATTTCTACG
261185 AGCTGTGGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (23 bp):
CACTTCGGTGCATTTCTACGCGA
Found at i:261307 original size:15 final size:14
Alignment explanation
Indices: 261277--261315 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
261267 ATTAATATAA
* *
261277 ATATATTATATGTG
1 ATATGTTATGTGTG
261291 ATATGTGTATGTGTG
1 ATATGT-TATGTGTG
261306 ATATGTTATG
1 ATATGTTATG
261316 GAAAATGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (14 bp):
ATATGTTATGTGTG
Found at i:261991 original size:21 final size:21
Alignment explanation
Indices: 261946--262018 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
261936 GGTTGAAATT
* *
261946 ACTGTAGCAGAGTATTGATAT
1 ACTGTAGCAGAGTATCGATAC
261967 ACTGTAGCAGAGTATC-AGTAC
1 ACTGTAGCAGAGTATCGA-TAC
* *
261988 ACTGTAGCAGGGTATCGTTACC
1 ACTGTAGCAGAGTATCGATA-C
262010 ACTGTAGCA
1 ACTGTAGCA
262019 TTTTGGATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
20 1 0.02
21 34 0.76
22 10 0.22
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (21 bp):
ACTGTAGCAGAGTATCGATAC
Found at i:262107 original size:19 final size:20
Alignment explanation
Indices: 262061--262107 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
262051 ACTGTTCACG
* *
262061 GTACTATTTGTACAGTATCA
1 GTACTATTTATACAATATCA
262081 GTACTATTTATACAATAT-A
1 GTACTATTTATACAATATCA
*
262100 GTATTATT
1 GTACTATT
262108 CAGAAAAACG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (20 bp):
GTACTATTTATACAATATCA
Found at i:262862 original size:60 final size:60
Alignment explanation
Indices: 262692--262868 Score: 178
Period size: 60 Copynumber: 2.9 Consensus size: 60
262682 GCTTGAGAAG
* * *
262692 AAATTGGAATGTTCAAAAAAGTTTAGGGATCAATTTAGAATGAAGATCATAGTTTGGGGATTA
1 AAATTGAAATATTC-AAAAA-TTTAGGGATCAATTTAGAAT-AAGATCATAGTTTAGGGATTA
* * * *
262755 AAATTGAAATATTCAAAAGTTT-GAGGATTAAATTAGAATAATAATCATAGTTTAGGGA-TA
1 AAATTGAAATATTCAAAAATTTAG-GGATCAATTTAGAATAA-GATCATAGTTTAGGGATTA
* * * * *
262815 TAATTTAAATATTTAAAAATTTAGGGATCAATTTAAAATAAGGATCATACTTTA
1 AAATTGAAATATTCAAAAATTTAGGGATCAATTTAGAATAA-GATCATAGTTTA
262869 AAGATTTGTG
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
60 47 0.50
61 31 0.33
62 4 0.04
63 12 0.13
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.34
Consensus pattern (60 bp):
AAATTGAAATATTCAAAAATTTAGGGATCAATTTAGAATAAGATCATAGTTTAGGGATTA
Found at i:265905 original size:42 final size:44
Alignment explanation
Indices: 265800--265947 Score: 149
Period size: 45 Copynumber: 3.4 Consensus size: 44
265790 GAACAAACCC
* * *
265800 CTTTCCTTCCAAAACTGTATCATTATTTGATGCAATATCAATGCT
1 CTTTTCTTCCAAAACAGTATCATTATTTGATGCAAGATCAAT-CT
* * * *
265845 ATTTTCTCCCGAAACAGTATCGTTATTTGATGCAAGATC-AT-T
1 CTTTTCTTCCAAAACAGTATCATTATTTGATGCAAGATCAATCT
* * *
265887 CTTTTCTTCCAAAACAGTATCATT-TTCAGATACAAGAACAATCTT
1 CTTTTCTTCCAAAACAGTATCATTATT-TGATGCAAGATCAATC-T
*
265932 CTTTCCTTCCAAAACA
1 CTTTTCTTCCAAAACA
265948 ACCTTATCTC
Statistics
Matches: 84, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.02
42 30 0.36
43 2 0.02
44 2 0.02
45 48 0.57
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (44 bp):
CTTTTCTTCCAAAACAGTATCATTATTTGATGCAAGATCAATCT
Found at i:269201 original size:16 final size:17
Alignment explanation
Indices: 269175--269206 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
269165 ATCGCCGACT
269175 GAAATTTCACTATTCAC
1 GAAATTTCACTATTCAC
269192 GAAA-TTCACTATTCA
1 GAAATTTCACTATTCA
269207 TGTGAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (17 bp):
GAAATTTCACTATTCAC
Found at i:269679 original size:15 final size:16
Alignment explanation
Indices: 269661--269693 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
269651 GTGGCAGATC
269661 AAAAACCAG-ACGGGA
1 AAAAACCAGAACGGGA
*
269676 AAAATCCAGAACGGGA
1 AAAAACCAGAACGGGA
269692 AA
1 AA
269694 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.55, C:0.18, G:0.24, T:0.03
Consensus pattern (16 bp):
AAAAACCAGAACGGGA
Found at i:273706 original size:24 final size:25
Alignment explanation
Indices: 273653--273708 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
273643 ATGATAATGA
273653 TTATTT-AATTTAATTTAATTAATT
1 TTATTTAAATTTAATTTAATTAATT
* *
273677 AT-TTTAAATTTAATTTTA-TAATT
1 TTATTTAAATTTAATTTAATTAATT
273700 TTATTTAAA
1 TTATTTAAA
273709 AGATCTAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTATTTAAATTTAATTTAATTAATT
Found at i:278283 original size:35 final size:35
Alignment explanation
Indices: 278232--278302 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
278222 CCAATACATG
278232 TTGCAGACATTCCATTTTCTGAATTTTTGCAGTGC
1 TTGCAGACATTCCATTTTCTGAATTTTTGCAGTGC
*
278267 TTGCGGACATTCCATTTTCTGAATTTTTGCAGTGC
1 TTGCAGACATTCCATTTTCTGAATTTTTGCAGTGC
278302 T
1 T
278303 ACTAGTTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (35 bp):
TTGCAGACATTCCATTTTCTGAATTTTTGCAGTGC
Found at i:282702 original size:20 final size:21
Alignment explanation
Indices: 282666--282705 Score: 64
Period size: 20 Copynumber: 1.9 Consensus size: 21
282656 TCACTCAACC
282666 CAACAGATTCAACAAACTAACT
1 CAACAGATT-AACAAACTAACT
282688 CAACAGATT-ACAAACTAA
1 CAACAGATTAACAAACTAA
282706 TTCAGATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.53, C:0.25, G:0.05, T:0.17
Consensus pattern (21 bp):
CAACAGATTAACAAACTAACT
Found at i:283206 original size:64 final size:62
Alignment explanation
Indices: 283131--283249 Score: 184
Period size: 64 Copynumber: 1.9 Consensus size: 62
283121 TGAGTACATG
* *
283131 CATGTTAACAACATAAAACTTTTAAATTATGTGAGCACAAATAATATTTCAGGGTGGACACACA
1 CATGTTAACAACATAAAACTTTTAAATGATGTG-G-ACAAATAATATTTCAGAGTGGACACACA
* *
283195 CATGTTAACAACATAAAATTTTTAAATGATGTGGACACATAATATTTCAGAGTGG
1 CATGTTAACAACATAAAACTTTTAAATGATGTGGACAAATAATATTTCAGAGTGG
283250 GCACCATCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
62 19 0.37
63 1 0.02
64 31 0.61
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (62 bp):
CATGTTAACAACATAAAACTTTTAAATGATGTGGACAAATAATATTTCAGAGTGGACACACA
Found at i:292503 original size:15 final size:15
Alignment explanation
Indices: 292479--292557 Score: 81
Period size: 15 Copynumber: 5.2 Consensus size: 15
292469 CTATCATTAA
*
292479 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
*
292494 ATTAAATTATAAAGT
1 ATTAAATTATAAAAT
*
292509 ATTAAATGTAT-AATT
1 ATTAAAT-TATAAAAT
292524 A-TAAATTAATTAAAAT
1 ATTAAATT-A-TAAAAT
*
292540 TTTAAATTATAAAAT
1 ATTAAATTATAAAAT
292555 ATT
1 ATT
292558 TGTTTTTAGG
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
13 1 0.02
14 6 0.11
15 33 0.62
16 7 0.13
17 6 0.11
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:301165 original size:2 final size:2
Alignment explanation
Indices: 301158--301185 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
301148 GAGTGATTGA
301158 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
301186 GTTACTATCG
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:301531 original size:8 final size:8
Alignment explanation
Indices: 301518--301562 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
301508 TAAATCCGAA
301518 ATTAATAT
1 ATTAATAT
301526 ATTAATA-
1 ATTAATAT
*
301533 AATAATAT
1 ATTAATAT
*
301541 ATTCAT-T
1 ATTAATAT
301548 ATTAATAT
1 ATTAATAT
301556 ATTAATA
1 ATTAATA
301563 AATAATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 12 0.39
8 19 0.61
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (8 bp):
ATTAATAT
Found at i:301540 original size:15 final size:15
Alignment explanation
Indices: 301520--301569 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
301510 AATCCGAAAT
301520 TAATATATTAATAAA
1 TAATATATTAATAAA
* * *
301535 TAATATATTCATTAT
1 TAATATATTAATAAA
301550 TAATATATTAATAAA
1 TAATATATTAATAAA
301565 TAATA
1 TAATA
301570 AATAATGAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATATATTAATAAA
Found at i:303457 original size:15 final size:15
Alignment explanation
Indices: 303437--303466 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
303427 CAGATTTCTT
303437 CTTCTATTCCCCTTG
1 CTTCTATTCCCCTTG
303452 CTTCTATTCCCCTTG
1 CTTCTATTCCCCTTG
303467 TGAGTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.40, G:0.07, T:0.47
Consensus pattern (15 bp):
CTTCTATTCCCCTTG
Found at i:303548 original size:2 final size:2
Alignment explanation
Indices: 303541--303572 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
303531 CTGTTTGCAC
303541 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
303573 TCGCTATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:307758 original size:22 final size:22
Alignment explanation
Indices: 307731--307787 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
307721 ATTTGTCTCT
*
307731 AATGACCTATGAATATCTCCCG
1 AATGACCTATGAATATCTCCCA
*
307753 AATGACCTATGAATATGTCCCA
1 AATGACCTATGAATATCTCCCA
*
307775 AAGGACCTATGAA
1 AATGACCTATGAA
307788 GCCCTCGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.25
Consensus pattern (22 bp):
AATGACCTATGAATATCTCCCA
Found at i:308480 original size:36 final size:35
Alignment explanation
Indices: 308411--308482 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
308401 GTTTCAAAGA
** * *
308411 TGGTATCGATATTGTCCTTAAGGTATCGGTACCCT
1 TGGTATCGATATTACCCTCAAGGTATCGATACCCT
*
308446 TGGTATCGATATTACCCTCCAAGGTATTGATACCCT
1 TGGTATCGATATTACCCT-CAAGGTATCGATACCCT
308482 T
1 T
308483 TAAATGCCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
35 16 0.52
36 15 0.48
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (35 bp):
TGGTATCGATATTACCCTCAAGGTATCGATACCCT
Found at i:308617 original size:16 final size:18
Alignment explanation
Indices: 308598--308630 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
308588 CAACTTAAAT
308598 CCTTT-ATA-TCTTAACC
1 CCTTTAATACTCTTAACC
308614 CCTTTAATACTCTTAAC
1 CCTTTAATACTCTTAAC
308631 TCAAATATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.42
Consensus pattern (18 bp):
CCTTTAATACTCTTAACC
Found at i:308829 original size:17 final size:18
Alignment explanation
Indices: 308807--308840 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
308797 CATTCAGAAA
*
308807 CTCCTAA-TCTTTAATCT
1 CTCCTAACTCCTTAATCT
308824 CTCCTAACTCCTTAATC
1 CTCCTAACTCCTTAATC
308841 ATTCAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (18 bp):
CTCCTAACTCCTTAATCT
Found at i:309406 original size:2 final size:2
Alignment explanation
Indices: 309399--309437 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
309389 ATTTTACATT
309399 TA TA TA 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
309438 TTCAAAAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:309602 original size:20 final size:22
Alignment explanation
Indices: 309563--309602 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
309553 ATTGAAAAAT
309563 AAAATTAAAAAGAATATTTAAG
1 AAAATTAAAAAGAATATTTAAG
*
309585 AAAA-TAAAATGAAT-TTTA
1 AAAATTAAAAAGAATATTTA
309603 TAATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
AAAATTAAAAAGAATATTTAAG
Found at i:311942 original size:60 final size:60
Alignment explanation
Indices: 311877--312050 Score: 196
Period size: 60 Copynumber: 2.9 Consensus size: 60
311867 CAACATACAT
* * * * *
311877 ACCTAAACTATG-CCACTTATTTTAAATTTA-TCCCTAAATTTTTGAATATTTTAATTTCA
1 ACCTAAACTATGACCACTTATTTTAAA-TTAGTCCCTAAACTTTTGAACATTTCAAATGCA
* * *
311936 TCCCTAAACTATGACTCAC--ATTTTAAATTATTCCCTAAACTTTTGAACATTCCAAATGCA
1 -ACCTAAACTATGAC-CACTTATTTTAAATTAGTCCCTAAACTTTTGAACATTTCAAATGCA
*
311996 ACCTCAAACTATGACC-CTTATTTTAAATTAGCCCCTAAACTTTTGAACATTTCAA
1 ACCT-AAACTATGACCACTTATTTTAAATTAGTCCCTAAACTTTTGAACATTTCAA
312051 TAATATCACC
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
58 1 0.01
59 7 0.07
60 85 0.88
61 1 0.01
62 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (60 bp):
ACCTAAACTATGACCACTTATTTTAAATTAGTCCCTAAACTTTTGAACATTTCAAATGCA
Found at i:326102 original size:13 final size:13
Alignment explanation
Indices: 326084--326119 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
326074 CGTTTAAATG
326084 ATAAACGAACACA
1 ATAAACGAACACA
326097 ATAAACGAACACA
1 ATAAACGAACACA
326110 ATAAACGAAC
1 ATAAACGAAC
326120 GTAAACGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.61, C:0.22, G:0.08, T:0.08
Consensus pattern (13 bp):
ATAAACGAACACA
Found at i:326149 original size:24 final size:24
Alignment explanation
Indices: 326122--326171 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
326112 AAACGAACGT
* *
326122 AAACGAACGGATGT-AAATAAACAC
1 AAACGAACGAACGTAAAAT-AACAC
326146 AAACGAACGAACGTAAAATAACAC
1 AAACGAACGAACGTAAAATAACAC
326170 AA
1 AA
326172 TAAATAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.58, C:0.18, G:0.14, T:0.10
Consensus pattern (24 bp):
AAACGAACGAACGTAAAATAACAC
Found at i:326421 original size:14 final size:14
Alignment explanation
Indices: 326401--326438 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
326391 CACATAAGCA
326401 AACGAACATAAATG
1 AACGAACATAAATG
*
326415 AATGAACATAAATG
1 AACGAACATAAATG
326429 AACGAACATA
1 AACGAACATA
326439 TTATCGAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.58, C:0.13, G:0.13, T:0.16
Consensus pattern (14 bp):
AACGAACATAAATG
Found at i:347762 original size:18 final size:18
Alignment explanation
Indices: 347732--347766 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
347722 TTATCATTAC
347732 TTGCATAAACCTTATTCT
1 TTGCATAAACCTTATTCT
347750 TTGCA-AAATCCTTATTC
1 TTGCATAAA-CCTTATTC
347767 GGATCACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.43
Consensus pattern (18 bp):
TTGCATAAACCTTATTCT
Found at i:350068 original size:31 final size:33
Alignment explanation
Indices: 350006--350070 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
349996 ATCTATGTTC
*
350006 ATTCATTTAATCTCTTATGTGCATATATCATAT
1 ATTCATATAATCTCTTATGTGCATATATCATAT
350039 ATTCATATAAT-TCATTATGT-CA-ATATCATAT
1 ATTCATATAATCTC-TTATGTGCATATATCATAT
350070 A
1 A
350071 ACTTATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 10 0.33
32 4 0.13
33 16 0.53
ACGTcount: A:0.35, C:0.14, G:0.05, T:0.46
Consensus pattern (33 bp):
ATTCATATAATCTCTTATGTGCATATATCATAT
Found at i:350560 original size:21 final size:20
Alignment explanation
Indices: 350505--350567 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 20
350495 GCTAGGATAC
350505 CGATACCCTATCCAT--GTAT
1 CGATACCC-ATCCATAGGTAT
350524 CGATACCC-TCCACATAGGTAT
1 CGATACCCAT-C-CATAGGTAT
350545 CGATACCTCATCCATAAGGTAT
1 CGATACC-CATCCAT-AGGTAT
350567 C
1 C
350568 AATATTGTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 11 0.30
21 14 0.38
22 9 0.24
23 1 0.03
ACGTcount: A:0.29, C:0.32, G:0.13, T:0.27
Consensus pattern (20 bp):
CGATACCCATCCATAGGTAT
Found at i:359257 original size:21 final size:20
Alignment explanation
Indices: 359230--359328 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 20
359220 AATCAGTTTC
359230 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
359251 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
359272 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
359292 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
359313 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
359329 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
20 17 0.28
21 44 0.72
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:359357 original size:20 final size:20
Alignment explanation
Indices: 359296--359524 Score: 212
Period size: 20 Copynumber: 11.4 Consensus size: 20
359286 GATTTTCAAG
* ** *
359296 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
359316 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
359336 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
359356 AACCGTAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
359376 AATAGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
359396 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
359416 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
359436 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
359456 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
359476 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
359496 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
359516 AATCACAAC
1 AATCGCAAC
359525 ACTGAAATTT
Statistics
Matches: 173, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.01
20 169 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:360262 original size:24 final size:24
Alignment explanation
Indices: 360223--360269 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
360213 AAATTTGGTC
360223 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
360247 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
360270 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:362800 original size:33 final size:34
Alignment explanation
Indices: 362749--362999 Score: 187
Period size: 33 Copynumber: 7.2 Consensus size: 34
362739 CGGAAATTAC
* *
362749 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
*
362782 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGC-GAAATGAA
* * *
362816 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C--AATGAAAATCGCAATGCGA-AAT-GAA
*
362855 AAT-GCGGA-AATGAAAATCGCAATGCGAAATGAA
1 AATCGC-AACAATGAAAATCGCAATGCGAAATGAA
* *
362888 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
* * *
362921 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C--AATGAAAATCGCAATGCGA-AAT-GAA
*
362960 AAT-GCGGA-AATGAAAATCGCAATGCGAAATGAA
1 AATCGC-AACAATGAAAATCGCAATGCGAAATGAA
362993 AATCGCA
1 AATCGCA
363000 TTGCGATTCT
Statistics
Matches: 172, Mismatches: 23, Indels: 46
0.71 0.10 0.19
Matches are distributed among these distances:
32 3 0.02
33 63 0.37
34 54 0.31
35 1 0.01
36 1 0.01
37 1 0.01
38 19 0.11
39 28 0.16
40 2 0.01
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (34 bp):
AATCGCAACAATGAAAATCGCAATGCGAAATGAA
Found at i:362826 original size:53 final size:53
Alignment explanation
Indices: 362763--362999 Score: 433
Period size: 53 Copynumber: 4.5 Consensus size: 53
362753 GCAACGAGAG
* *
362763 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAA
362816 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
362869 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
362921 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
362974 AATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
363000 TTGCGATTCT
Statistics
Matches: 180, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
52 52 0.29
53 127 0.71
54 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:362832 original size:19 final size:19
Alignment explanation
Indices: 362763--363005 Score: 274
Period size: 19 Copynumber: 13.7 Consensus size: 19
362753 GCAACGAGAG
362763 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
362782 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
362796 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
362816 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
362835 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
362849 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
362869 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
362888 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
362902 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
362921 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
362940 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
362954 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
362974 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
362993 AATCGCATTGCGA
1 AATCGCAATGCGA
363006 TTCTCTCGTT
Statistics
Matches: 192, Mismatches: 9, Indels: 46
0.78 0.04 0.19
Matches are distributed among these distances:
14 42 0.22
15 3 0.02
16 5 0.03
17 9 0.05
18 1 0.01
19 90 0.47
20 42 0.22
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:362906 original size:86 final size:84
Alignment explanation
Indices: 362749--362928 Score: 242
Period size: 86 Copynumber: 2.1 Consensus size: 84
362739 CGGAAATTAC
362749 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATG
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAA-GCGG-AATG
362814 AAAATCGCAATGCGAAATGAA
64 AAAATCGCAATGCGAAATGAA
*
362835 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-C-G
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C---ATGAAAATCGCAAGCGG
*
362898 -A-GAGAATCGCAATGCGAAATGAA
60 AATGAAAATCGCAATGCGAAATGAA
362921 AATCGCAA
1 AATCGCAA
362929 TGCGAAATGA
Statistics
Matches: 86, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
86 54 0.63
87 16 0.19
89 2 0.02
90 1 0.01
92 13 0.15
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (84 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAAGCGGAATGAA
AATCGCAATGCGAAATGAA
Found at i:362949 original size:105 final size:106
Alignment explanation
Indices: 362763--362999 Score: 433
Period size: 105 Copynumber: 2.2 Consensus size: 106
362753 GCAACGAGAG
*
362763 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCGCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
362828 AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
66 AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
*
362869 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGC-GAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
362932 GAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
65 GAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
362974 AATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
363000 TTGCGATTCT
Statistics
Matches: 128, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
105 87 0.68
106 40 0.31
107 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (106 bp):
AATCGCAATGCGAAATGAAAATCGCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:363063 original size:54 final size:52
Alignment explanation
Indices: 362995--363112 Score: 218
Period size: 54 Copynumber: 2.2 Consensus size: 52
362985 GAAATGAAAA
362995 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
363048 TCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 T-CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
363101 TCGCATTGCGAT
1 TCGCATTGCGAT
363113 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
52 11 0.17
53 20 0.31
54 33 0.52
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:363120 original size:19 final size:19
Alignment explanation
Indices: 363014--363112 Score: 136
Period size: 19 Copynumber: 5.4 Consensus size: 19
363004 GATTCTCTCG
363014 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
363034 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
363054 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
363068 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
363087 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
363106 TTGCGAT
1 TTGCGAT
363113 AGTCATTTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 5 0.07
17 6 0.08
18 3 0.04
19 26 0.36
20 26 0.36
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:363238 original size:14 final size:14
Alignment explanation
Indices: 363219--363255 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
363209 CATCAATTAC
363219 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
363233 ACAAATCATCTTTT
1 ACAAATCAACTTTT
363247 ACAAATCAA
1 ACAAATCAA
363256 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:365220 original size:19 final size:19
Alignment explanation
Indices: 365178--365350 Score: 159
Period size: 19 Copynumber: 9.6 Consensus size: 19
365168 TAGTTTACTT
* *
365178 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
365198 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
365217 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
365236 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
365255 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
365274 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
365288 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
365307 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATGAAAA
365321 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
365340 TCGCAATGCGA
1 TCGCAACGCGA
365351 TTTTGGTTTC
Statistics
Matches: 128, Mismatches: 15, Indels: 21
0.78 0.09 0.13
Matches are distributed among these distances:
14 18 0.14
15 1 0.01
16 7 0.05
17 7 0.05
18 1 0.01
19 82 0.64
20 12 0.09
ACGTcount: A:0.46, C:0.24, G:0.20, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:365291 original size:14 final size:14
Alignment explanation
Indices: 365272--365328 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
365262 GCGAAATGAA
*
365272 AATCGCAACGACAG
1 AATCGCAACGAAAG
365286 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
365303 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
365319 AATCGCAACG
1 AATCGCAACG
365329 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:365299 original size:33 final size:33
Alignment explanation
Indices: 365253--365345 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
365243 GCGAAACCAA
365253 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
365286 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
365319 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
365346 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:365342 original size:52 final size:52
Alignment explanation
Indices: 365212--365350 Score: 147
Period size: 52 Copynumber: 2.7 Consensus size: 52
365202 AACGCGAAAT
* * * *
365212 GAGAATCGCAACGAGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGC
1 GAGAATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGA
* ** * **
365264 GA-AAT-GAAAATCGCAACGACAGAATCGCAATGCGAAATGAAAATCGCAACGA
1 GAGAATCGCAACGCGAAACGA-A-AATCGCAATGCGAAACCAAAATCGCAACGA
*
365316 GAGAATCGCAACGCGAAATGAAAATCGCAATGCGA
1 GAGAATCGCAACGCGAAACGAAAATCGCAATGCGA
365351 TTTTGGTTTC
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
50 8 0.12
51 4 0.06
52 43 0.63
53 4 0.06
54 9 0.13
ACGTcount: A:0.46, C:0.23, G:0.22, T:0.09
Consensus pattern (52 bp):
GAGAATCGCAACGCGAAACGAAAATCGCAATGCGAAACCAAAATCGCAACGA
Found at i:365372 original size:19 final size:19
Alignment explanation
Indices: 365350--365400 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 19
365340 TCGCAATGCG
365350 ATTTTGGTTTCGCGTTGCA
1 ATTTTGGTTTCGCGTTGCA
*
365369 ATTTT-G--T--CGTTGCG
1 ATTTTGGTTTCGCGTTGCA
365383 ATTTTGGTTTCGCGTTGC
1 ATTTTGGTTTCGCGTTGC
365401 GATTCTGTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 10
0.70 0.03 0.27
Matches are distributed among these distances:
14 11 0.42
15 1 0.04
16 1 0.04
17 1 0.04
18 1 0.04
19 11 0.42
ACGTcount: A:0.08, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
ATTTTGGTTTCGCGTTGCA
Found at i:365388 original size:33 final size:33
Alignment explanation
Indices: 365346--365469 Score: 176
Period size: 33 Copynumber: 3.7 Consensus size: 33
365336 AAAATCGCAA
* *
365346 TGCGATTTTGGTTTCGCGTTGCAATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
365379 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
365412 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
365445 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
365470 AAGTAAACTA
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
33 70 0.85
34 12 0.15
ACGTcount: A:0.10, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:365401 original size:19 final size:18
Alignment explanation
Indices: 365346--365437 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 18
365336 AAAATCGCAA
365346 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
365365 TGCAATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
365379 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
365398 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
365412 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
365431 TGCGATT
1 TGCGATT
365438 CTCTCGTTGC
Statistics
Matches: 58, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 22 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 29 0.50
ACGTcount: A:0.09, C:0.17, G:0.27, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:365414 original size:14 final size:14
Alignment explanation
Indices: 365395--365451 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
365385 TTTGGTTTCG
*
365395 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
365409 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
365428 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
365442 CGTTGCGATT
1 CGTTGCGATT
365452 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:365869 original size:92 final size:93
Alignment explanation
Indices: 365567--365881 Score: 605
Period size: 93 Copynumber: 3.4 Consensus size: 93
365557 TCAGGGTATT
*
365567 AGTTTAGCAGAATTGGCAGCAGCCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
365632 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
365660 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
365725 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
365753 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
365817 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
365845 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
365882 AAGCAATCTA
Statistics
Matches: 220, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 77 0.35
93 143 0.65
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:367573 original size:20 final size:20
Alignment explanation
Indices: 367548--367654 Score: 113
Period size: 19 Copynumber: 5.7 Consensus size: 20
367538 TTTTGGTTGA
367548 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
**
367568 AATGAATGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
367588 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
367607 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
*
367622 AATGAAAATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
367641 AATGAAAATCGCAA
1 AATGAAAATCGCAA
367655 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 30 0.39
20 18 0.24
21 13 0.17
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:367594 original size:21 final size:21
Alignment explanation
Indices: 367546--367610 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
367536 TCTTTTGGTT
367546 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
**
367567 G-AATGAATGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
367587 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
367608 GAA
1 GAA
367611 TCGCAACGCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.49, C:0.14, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:367690 original size:14 final size:14
Alignment explanation
Indices: 367671--367727 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
367661 TTTGGTTTCG
367671 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
367685 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
367704 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
367718 CGTTGCGATT
1 CGTTGCGATT
367728 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:367703 original size:33 final size:33
Alignment explanation
Indices: 367655--367734 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
367645 AAAATCGCAA
**
367655 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
367688 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
367721 TGCGATTTTCATTT
1 TGCGATTTTCATTT
367735 TTCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:367740 original size:21 final size:21
Alignment explanation
Indices: 367715--367788 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
367705 GTTGCGATTC
367715 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
367736 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
367757 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
367778 TCTCGTTGCGA
1 TCTCGTTGCGA
367789 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:367910 original size:33 final size:33
Alignment explanation
Indices: 367868--367938 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
367858 AATACTAACT
367868 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
367901 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
367934 TGAAA
1 TGAAA
367939 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:368343 original size:20 final size:20
Alignment explanation
Indices: 368318--368510 Score: 228
Period size: 20 Copynumber: 9.6 Consensus size: 20
368308 CTTTAAAAAT
368318 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
368338 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* *
368358 TGTCGTTGCGATTTACGAATA
1 CG-CGTTGCGATTTACGGATA
* *
368379 CGCGTTGCGATATACAGATA
1 CGCGTTGCGATTTACGGATA
*
368399 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
368419 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
368439 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
368459 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
368479 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
368499 CGCGTTGCGATT
1 CGCGTTGCGATT
368511 CTGGAAAATC
Statistics
Matches: 149, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
20 131 0.88
21 18 0.12
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:370482 original size:10 final size:10
Alignment explanation
Indices: 370467--370525 Score: 66
Period size: 10 Copynumber: 5.8 Consensus size: 10
370457 TTTACTTTTT
370467 TAAAAATAAA
1 TAAAAATAAA
370477 TAAAAATACAA
1 TAAAAATA-AA
*
370488 T-AAAATGAAT
1 TAAAAAT-AAA
370498 TAAAAATAAA
1 TAAAAATAAA
* *
370508 TAAAATTCAA
1 TAAAAATAAA
370518 TAAAAATA
1 TAAAAATA
370526 TAATGTAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
10 31 0.77
11 9 0.22
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:370965 original size:36 final size:34
Alignment explanation
Indices: 370925--370991 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 34
370915 TTAACAACAG
*
370925 TTAATA-ATATTTATTTATTTTTAATAAAATTAAAAT
1 TTAATATATATTTA-ATATTTTT--TAAAATTAAAAT
*
370961 TTAATATTTATTTAATATTTTTTAAAATTAA
1 TTAATATATATTTAATATTTTTTAAAATTAA
370992 TACTAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 9 0.32
36 13 0.46
37 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (34 bp):
TTAATATATATTTAATATTTTTTAAAATTAAAAT
Found at i:371091 original size:10 final size:10
Alignment explanation
Indices: 371045--371102 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
371035 TTTACATTAT
*
371045 ATTTTTATTG
1 ATTTTTATTC
*
371055 AATTTTATTC
1 ATTTTTATTC
371065 ATTTTTAATTC
1 ATTTTT-ATTC
371076 ATTTTTATTGC
1 ATTTTTATT-C
* *
371087 ATTTTTCTTT
1 ATTTTTATTC
371097 ATTTTT
1 ATTTTT
371103 TAAAAAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
10 22 0.54
11 19 0.46
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:371363 original size:39 final size:39
Alignment explanation
Indices: 371320--371405 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 39
371310 CAACAGTTAG
*
371320 TAATATTTA-TTCAT-TTTTAATAAAATTAAAATTAAAATT
1 TAATATTTATTTCATATTTT-ATAAAATTAAAATTAAAA-A
* * *
371359 TAATATTTATTTTATATTTTTTAAAATTAATATTAAAAA
1 TAATATTTATTTCATATTTTATAAAATTAAAATTAAAAA
371398 TAATATTT
1 TAATATTT
371406 TAAATAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
39 17 0.41
40 20 0.49
41 4 0.10
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (39 bp):
TAATATTTATTTCATATTTTATAAAATTAAAATTAAAAA
Found at i:371561 original size:395 final size:392
Alignment explanation
Indices: 370803--371588 Score: 1319
Period size: 395 Copynumber: 2.0 Consensus size: 392
370793 GTCTAAATGC
370803 TGTCTAAATATCAACTCAATTGTACCACGAATAAACATCCGATCAAAGAGTTGATCTTTTATGCT
1 TGTCTAAATATCAACTCAATTGTACCACGAATAAACATCCGATCAAAGAGTTGATCTTTTATGCT
370868 CAATCTTCACACAAAAAATGTTTTGTCTCATCATTAATTATTATTTTTTAACAACAGTTAATAAT
66 CAATCTT-ACACAAAAAATGTTTTGTCTCATCATTAATTATTATTTTTTAACAACAGTTAATAAT
* *
370933 ATTTATTTATTTTTAATAAAATTAAAATTTAATATTTATTTAATATTTTTTAAAATTAATACTAG
130 ATTTATTCATTTTTAATAAAATTAAAATTTAATATTTATTTAATATTTTTTAAAATTAATACTAA
*
370998 AAATAATATTTTAAATAAAAAGGTGATATTTGTTAGCTTTACATTATATTTTTATTGAATTTTAT
195 AAATAATATTTTAAATAAAAAGGTGATATTTGTTAGCTTTACATTATATTTTTATTGAAATTTAT
371063 TCATTTTTAATTCATTTTTATTGCATTTTTCTTTATTTTTTAAAAAATAAATAATAATTAATTTG
260 TCATTTTTAATTCATTTTTATTGCATTTTTCTTTATTTTTTAAAAAATAAATAATAATTAATTTG
*
371128 ATCTATCAATTGTAATTAAAAGTTTATTTTAATATTTTTAAATAATTAATTTTAAAAGTCAATAA
325 ATCTATCAATTGTAATTAAAAGTTTATTTTAATATTTTTAAACAATTAATTTTAAAAGTCAATAA
371193 AGT
390 AGT
* *
371196 TGTCTAAATATCAACTCAATTGTACCACGAATAAACATCCGATCAAAGAGTTTATCTTTTCTGCT
1 TGTCTAAATATCAACTCAATTGTACCACGAATAAACATCCGATCAAAGAGTTGATCTTTTATGCT
* * *
371261 CAATCTT-CACAAAAACTGTTTTGTCTCGTCATTAATTATTATTTTTTAACAACAGTTAGTAATA
66 CAATCTTACACAAAAAATGTTTTGTCTCATCATTAATTATTATTTTTTAACAACAGTTAATAATA
*
371325 TTTATTCATTTTTAATAAAATTAAAATTAAAATTTAATATTTATTTTATATTTTTTAAAATTAAT
131 TTTATTCA-TTTT--T--AA-TAAAATTAAAATTTAATATTTATTTAATATTTTTTAAAATTAAT
* * * *
371390 ATTAAAAATAATATTTTAAATAAAGATGTGATATTT-TTATCTTTACATTATATTTTTATTGAAA
190 ACTAAAAATAATATTTTAAATAAAAAGGTGATATTTGTTAGCTTTACATTATATTTTTATTGAAA
* *
371454 TTTATTCATTTTTAATTCA-TTTTATTGCATTTTTCTTTATTTTTTAAAAAATTAATAATAATTC
255 TTTATTCATTTTTAATTCATTTTTATTGCATTTTTCTTTATTTTTTAAAAAATAAATAATAATTA
*
371518 ATTTGATCTCTCAATTGTAATTAAAAGTTT-TTTTAAATATTTTTAAACAATTAATTTTAAAAGT
320 ATTTGATCTATCAATTGTAATTAAAAGTTTATTTT-AATATTTTTAAACAATTAATTTTAAAAGT
371582 CAATAAA
384 CAATAAA
371589 CATTATTAAT
Statistics
Matches: 369, Mismatches: 17, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
391 61 0.17
392 4 0.01
393 70 0.19
394 5 0.01
395 107 0.29
396 47 0.13
397 75 0.20
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (392 bp):
TGTCTAAATATCAACTCAATTGTACCACGAATAAACATCCGATCAAAGAGTTGATCTTTTATGCT
CAATCTTACACAAAAAATGTTTTGTCTCATCATTAATTATTATTTTTTAACAACAGTTAATAATA
TTTATTCATTTTTAATAAAATTAAAATTTAATATTTATTTAATATTTTTTAAAATTAATACTAAA
AATAATATTTTAAATAAAAAGGTGATATTTGTTAGCTTTACATTATATTTTTATTGAAATTTATT
CATTTTTAATTCATTTTTATTGCATTTTTCTTTATTTTTTAAAAAATAAATAATAATTAATTTGA
TCTATCAATTGTAATTAAAAGTTTATTTTAATATTTTTAAACAATTAATTTTAAAAGTCAATAAA
GT
Done.