Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007717.1 Hibiscus syriacus cultivar Beakdansim tig00109948_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: 900945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:229914 original size:6 final size:6
Alignment explanation
Indices: 229907--229946 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
229897 AAACATAGGC
*
229907 AAAGGC AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAG
1 AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAGGG AAAG
229947 AGAGTGATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.53, C:0.03, G:0.45, T:0.00
Consensus pattern (6 bp):
AAAGGG
Found at i:231263 original size:284 final size:281
Alignment explanation
Indices: 230712--231333 Score: 734
Period size: 284 Copynumber: 2.2 Consensus size: 281
230702 CACCATATCA
* * *
230712 AGCCACATAATTATTTATATTTTTAATTTACTCCAAACTTTATAAATCACATCATAAATTTCATT
1 AGCC-CATAATTATTTCTATTTTT-ATTTACTCCAAAC-CTATAAATTACATCATAAATTTCATT
* * * * ****
230777 TCAAATCTAATAAATTATATTATAATCTCCGAACCTGTAAACTTTAGTTTGTTGACTTTTTAAAT
63 TCAAACCTAATAAATTATATCATAATCTCCAAACCTATAAACTTTAGTTTACCAACTTTTTAAAT
230842 GGATGCAATTTAGTCCATTTTAATATTAATTTTAGCTTCACAATTTACAATTGTTTCGATTTGAT
128 GGATGCAATTTAGTCCATTTTAATATTAATTTTAGCTTCACAATTTACAATTGTTTCGATTTGAT
** * * *
230907 CTTTGCGTGTTGTTTAATTTATTTAAATTTCAGTTTTTAATTGCACTTTCGTTCAATTTAGTCCT
193 CCCTGCATGTTGTTTAATTTATTTAAATTTCAGTTTGTAATTGCACTTTCGTTCAATTTAATCCT
* *
230972 TAAAATTATATTTTCATTGA-AATT
258 AAAAATTATATTTTCA-TCACAATT
*
230996 AGCCCATAATTATTTCTATGTTGTTATTTACTCCAAGCCTATAAATTACATCATAAACTTT-ATT
1 AGCCCATAATTATTTCTAT-TT-TTATTTACTCCAAACCTATAAATTACATCATAAA-TTTCATT
* * *
231060 TCAAACCCT-ATAAATTATATCATAATCTCTAAATTCTATAAACTTTTGTTTACCAACTTTTTAA
63 TCAAA-CCTAATAAATTATATCATAATCTCCAAA-CCTATAAACTTTAGTTTACCAACTTTTTAA
** * * * *
231124 ATGGATGCAATTTAGTCTGTTTTTATATTAATTTTAGCTTCATATTTTACAATTGTTTCTATTTG
126 ATGGATGCAATTTAGTCCATTTTAATATTAATTTTAGCTTCACAATTTACAATTGTTTCGATTTG
* * *
231189 ATCCCTGCATGTTGTTTAATTTATTTAAATTTTAGTTTGTAATTTCA-TGTTTGCTT-AATTTAA
191 ATCCCTGCATGTTGTTTAATTTATTTAAATTTCAGTTTGTAATTGCACT-TTCG-TTCAATTTAA
* *
231252 TCCTAAAAATTATTTTTTTATCACAATT
254 TCCTAAAAATTATATTTTCATCACAATT
*
231280 -GACCTATAATTATTTCTATTTTTTGTAGTTTACTCCAAATCCTATACAATTACA
1 AG-CCCATAATTATTTCTA--TTTT-TA-TTTACTCCAAA-CCTATA-AATTACA
231334 AATTACAATT
Statistics
Matches: 288, Mismatches: 35, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
283 64 0.22
284 192 0.67
285 8 0.03
286 11 0.04
287 6 0.02
288 7 0.02
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.47
Consensus pattern (281 bp):
AGCCCATAATTATTTCTATTTTTATTTACTCCAAACCTATAAATTACATCATAAATTTCATTTCA
AACCTAATAAATTATATCATAATCTCCAAACCTATAAACTTTAGTTTACCAACTTTTTAAATGGA
TGCAATTTAGTCCATTTTAATATTAATTTTAGCTTCACAATTTACAATTGTTTCGATTTGATCCC
TGCATGTTGTTTAATTTATTTAAATTTCAGTTTGTAATTGCACTTTCGTTCAATTTAATCCTAAA
AATTATATTTTCATCACAATT
Found at i:231862 original size:34 final size:34
Alignment explanation
Indices: 231824--231889 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
231814 ACTCTATAAA
* *
231824 AAAATTATTATAATAAAATATTT-TTTAATAATTT
1 AAAATAATTATAAGAAAATATTTATTT-ATAATTT
*
231858 AAAATAATTATAAGATAATATTTATTTATAAT
1 AAAATAATTATAAGAAAATATTTATTTATAAT
231890 ATTTTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 25 0.89
35 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (34 bp):
AAAATAATTATAAGAAAATATTTATTTATAATTT
Found at i:239505 original size:246 final size:248
Alignment explanation
Indices: 239071--239565 Score: 976
Period size: 246 Copynumber: 2.0 Consensus size: 248
239061 GGATTGTTAG
239071 TGATTAGATTAACTTGATGTGGTTACGTCATAGTGCTGAAATTGATGGGAATGTGGTTGCATTCT
1 TGATTAGATTAACTTGATGTGGTTACGTCATAGTGCTGAAATTGATGGGAATGTGGTTGCATTCT
239136 TTGTTACGACTACCTTTGATAGGTTGATTGTGCCTGTGTTGGTAATTGATTGTAAGATTGTTGCG
66 TTGTTACGACTACCTTTGATAGGTTGATTGTGCCTGTGTTGGTAATTGATTGTAAGATTGTTGCG
239201 TGTATTACTGTAAGAATTGCTGTTGTGGCCAACTATAACTATTTGGGCTTTGAACAATGCTACTC
131 TGTATTACTGTAAGAATTGCTGTTGTGGCCAACTATAACTATTTGGGCTTTGAACAATGCTACTC
239266 AAAGGTTGGCTCTCAAATCGTTA-GCATTAGATTGTTGCACAA-AGCTTGATT
196 AAAGGTTGGCTCTCAAATCGTTAGGCATTAGATTGTTGCACAAGAGCTTGATT
239317 TGATTAGATTAACTTGATGTGGTTACGTCATAGTGCTGAAATTGATGGGAATGTGGTTGCATTCT
1 TGATTAGATTAACTTGATGTGGTTACGTCATAGTGCTGAAATTGATGGGAATGTGGTTGCATTCT
239382 TTGTTACGACTACCTTTGATAGGTTGATTGTGCCTGTGTTGGTAATTGATTGTAAGATTGTTGCG
66 TTGTTACGACTACCTTTGATAGGTTGATTGTGCCTGTGTTGGTAATTGATTGTAAGATTGTTGCG
239447 TGTATTACTGTAAGAATTGCTGTTGTGGCCAACTATAACTATTTGGGCTTTGAACAATGCTACTC
131 TGTATTACTGTAAGAATTGCTGTTGTGGCCAACTATAACTATTTGGGCTTTGAACAATGCTACTC
239512 AAAGGTTGGCTCTCAAATCGTTAGGCATTAGATTGTTGCACAAGAGCTTGATT
196 AAAGGTTGGCTCTCAAATCGTTAGGCATTAGATTGTTGCACAAGAGCTTGATT
239565 T
1 T
239566 CACCAAGTAG
Statistics
Matches: 247, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
246 218 0.88
247 19 0.08
248 10 0.04
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (248 bp):
TGATTAGATTAACTTGATGTGGTTACGTCATAGTGCTGAAATTGATGGGAATGTGGTTGCATTCT
TTGTTACGACTACCTTTGATAGGTTGATTGTGCCTGTGTTGGTAATTGATTGTAAGATTGTTGCG
TGTATTACTGTAAGAATTGCTGTTGTGGCCAACTATAACTATTTGGGCTTTGAACAATGCTACTC
AAAGGTTGGCTCTCAAATCGTTAGGCATTAGATTGTTGCACAAGAGCTTGATT
Found at i:240671 original size:72 final size:72
Alignment explanation
Indices: 240552--240692 Score: 196
Period size: 72 Copynumber: 2.0 Consensus size: 72
240542 AAAATGTGCC
** * * *
240552 CCCACTAAATTATTATATTTTCGAGTTTTTTAAATAAAAAATAATGTTT-AAAATATTTTTTAAT
1 CCCACTAAATTACCATATTTTCAAGTATTTAAAATAAAAAATAATGTTTAAAAATA-TTTTTAAT
240616 TATTAGAA
65 TATTAGAA
*
240624 CCCACTAAATTACCATATTTTTAAGTATTTAAAATAAAAAA-ATATGTTTAAAAATATTTTTAAT
1 CCCACTAAATTACCATATTTTCAAGTATTTAAAATAAAAAATA-ATGTTTAAAAATATTTTTAAT
240688 TATTA
65 TATTA
240693 AATTTAAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
71 1 0.02
72 54 0.89
73 6 0.10
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (72 bp):
CCCACTAAATTACCATATTTTCAAGTATTTAAAATAAAAAATAATGTTTAAAAATATTTTTAATT
ATTAGAA
Found at i:240703 original size:38 final size:38
Alignment explanation
Indices: 240638--240716 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
240628 CTAAATTACC
240638 ATATTTTTAAGTATTTAAAATAAAAAAATATGTTTAAAA
1 ATATTTTTAAGTATTTAAAATAAAAAAATAT-TTTAAAA
* * *
240677 ATATTTTTAATTA-TTAAATTTAAAAAATATTTTAAAA
1 ATATTTTTAAGTATTTAAAATAAAAAAATATTTTAAAA
240714 ATA
1 ATA
240717 GGTCCCCTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 10 0.27
38 15 0.41
39 12 0.32
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (38 bp):
ATATTTTTAAGTATTTAAAATAAAAAAATATTTTAAAA
Found at i:245216 original size:158 final size:155
Alignment explanation
Indices: 244878--245230 Score: 440
Period size: 154 Copynumber: 2.3 Consensus size: 155
244868 TTCCTCCTCC
* * ** * *
244878 ATTTTAAGTCCATTTTTTTACCAAATTTGAACCACATACTTTTAAACCATAGTAGAATACATGTG
1 ATTTTAAGT-TATTTTTTTACCAAATTTGAACCACATGCTCCTAAACCATAATAGAATACATGAG
*
244943 TACCTTCAATTTCTCATTTTGATAACAATTTGTTTTTTCAATTTAGTCCTTCAATTTTTCATAAT
65 TACCTTCAATTCCTCATTTTGATAACAATTTGTTTTTTCAATTTAGTCCTTCAATTTTTCATAAT
* *
245008 CTCTTTATTTATTCAGTTCATCATGT
130 CTCTTTATTCATTCAATTCATCATGT
* * ** * *
245034 ATTTTAAG-TCTGTTTTTATGAAATTTGAGCTACATGCTCCTAAACCATAATAGAATACATGAGT
1 ATTTTAAGTTATTTTTTTACCAAATTTGAACCACATGCTCCTAAACCATAATAGAATACATGAGT
* * *
245098 ACTTTCAATTCCTCTTTTTGATAACAATTTTTTTTATTTTTCAATTTAGTCCTTCAATTTTTCAT
66 ACCTTCAATTCCTCATTTTGATAACAA---TTTGT-TTTTTCAATTTAGTCCTTCAATTTTTCAT
* ** * *
245163 AATCTC-TTATTCCTTCAATTTGTTATTT
127 AATCTCTTTATTCATTCAATTCATCATGT
245191 ATTTTAAGTTATTTTTTTACCAAATTTGAACCACATGCTC
1 ATTTTAAGTTATTTTTTTACCAAATTTGAACCACATGCTC
245231 ATATACCACA
Statistics
Matches: 163, Mismatches: 29, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
154 68 0.42
156 8 0.05
157 27 0.17
158 60 0.37
ACGTcount: A:0.28, C:0.17, G:0.07, T:0.48
Consensus pattern (155 bp):
ATTTTAAGTTATTTTTTTACCAAATTTGAACCACATGCTCCTAAACCATAATAGAATACATGAGT
ACCTTCAATTCCTCATTTTGATAACAATTTGTTTTTTCAATTTAGTCCTTCAATTTTTCATAATC
TCTTTATTCATTCAATTCATCATGT
Found at i:245264 original size:158 final size:155
Alignment explanation
Indices: 244878--245265 Score: 424
Period size: 158 Copynumber: 2.5 Consensus size: 155
244868 TTCCTCCTCC
* * ** * *
244878 ATTTTAAGTCCATTTTTTTACCAAATTTGAACCACATACTTTTAAACCATAGTAGAATACATGTG
1 ATTTTAAGT-TATTTTTTTACCAAATTTGAACCACATGCTCATAAACCATAATAGAATACATATG
* *
244943 TACCTTCAATTTCTCATTTTGATAACAATTTGTTTTTTCAATTTAGTCCTTCAATTTTTCATAAT
65 TAACTTCAATTCCTCATTTTGATAACAATTTGTTTTTTCAATTTAGTCCTTCAATTTTTCATAAT
* *
245008 CTCTTTATTTATTCAGTTCATCATGT
130 CTCTTTATTCATTCAATTCATCATGT
* * ** * * *
245034 ATTTTAAG-TCTGTTTTTATGAAATTTGAGCTACATGCTCCTAAACCATAATAGAATACATGA-G
1 ATTTTAAGTTATTTTTTTACCAAATTTGAACCACATGCTCATAAACCATAATAGAATACAT-ATG
* *
245097 T-ACTTTCAATTCCTCTTTTTGATAACAATTTTTTTTATTTTTCAATTTAGTCCTTCAATTTTTC
65 TAAC-TTCAATTCCTCATTTTGATAACAA---TTTGT-TTTTTCAATTTAGTCCTTCAATTTTTC
* ** * *
245161 ATAATCTC-TTATTCCTTCAATTTGTTATTT
125 ATAATCTCTTTATTCATTCAATTCATCATGT
* * * * *
245191 ATTTTAAGTTATTTTTTTACCAAATTTGAACCACATGCTCATATACCACAATAAAATGCCTATGT
1 ATTTTAAGTTATTTTTTTACCAAATTTGAACCACATGCTCATAAACCATAATAGAATACATATGT
245256 AACTTCAATT
66 AACTTCAATT
245266 TTTTTTTATA
Statistics
Matches: 188, Mismatches: 35, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
153 1 0.01
154 65 0.35
156 8 0.04
157 28 0.15
158 84 0.45
159 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (155 bp):
ATTTTAAGTTATTTTTTTACCAAATTTGAACCACATGCTCATAAACCATAATAGAATACATATGT
AACTTCAATTCCTCATTTTGATAACAATTTGTTTTTTCAATTTAGTCCTTCAATTTTTCATAATC
TCTTTATTCATTCAATTCATCATGT
Found at i:250204 original size:35 final size:35
Alignment explanation
Indices: 250136--250218 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 35
250126 TTTTTACCCT
*
250136 AAACCCGACCCGACCGAACATGCATTTAAAAAAAA
1 AAACCCGACCCGACCGAACACGCATTTAAAAAAAA
* **
250171 AAACCCGACCCGACCGAACCCG-ATTTTTTAAAAAA
1 AAACCCGACCCGACCGAACACGCA-TTTAAAAAAAA
*
250206 AAATCCGACCCGA
1 AAACCCGACCCGA
250219 TCGGGTCGGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 1 0.02
35 41 0.98
ACGTcount: A:0.43, C:0.31, G:0.12, T:0.13
Consensus pattern (35 bp):
AAACCCGACCCGACCGAACACGCATTTAAAAAAAA
Found at i:251105 original size:31 final size:32
Alignment explanation
Indices: 251052--251138 Score: 79
Period size: 31 Copynumber: 2.7 Consensus size: 32
251042 ATATATATAG
* *
251052 TATATA-ATATATAGTTTTTTATAAAATTTTGAA
1 TATATATATATATA-TATTATAT-AAATTTTGAA
** *
251085 TATATATATATATATATTATATAGTTTTTTAA
1 TATATATATATATATATTATATAAATTTTGAA
* *
251117 -AAATATATTTATATATTATATA
1 TATATATATATATATATTATATA
251139 GTATAGTATT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 20 0.43
32 7 0.15
33 12 0.26
34 7 0.15
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (32 bp):
TATATATATATATATATTATATAAATTTTGAA
Found at i:251157 original size:29 final size:30
Alignment explanation
Indices: 251086--251166 Score: 83
Period size: 31 Copynumber: 2.7 Consensus size: 30
251076 AATTTTGAAT
* **
251086 ATATATATATATATATTATATAGTTTTTTAA
1 ATATATAT-TATATATTATATAGTATAGTAA
*
251117 AAATATATTTATATATTATATAGTATAGT-A
1 ATATATA-TTATATATTATATAGTATAGTAA
* *
251147 TTATATATTATTTATTATAT
1 ATATATATTATATATTATAT
251167 TTTATTCATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 12 0.29
30 6 0.14
31 23 0.55
32 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (30 bp):
ATATATATTATATATTATATAGTATAGTAA
Found at i:251171 original size:14 final size:14
Alignment explanation
Indices: 251087--251172 Score: 55
Period size: 15 Copynumber: 5.8 Consensus size: 14
251077 ATTTTGAATA
*
251087 TATATATATATATAT
1 TATATAT-TATTTAT
* *
251102 TATATAGTTTTTTAAA
1 TATATA-TTATTT-AT
* *
251118 AATATATTTATATAT
1 TATATA-TTATTTAT
* *
251133 TATATAGTATAGTAT
1 TATATATTAT-TTAT
251148 TATATATTATTTAT
1 TATATATTATTTAT
*
251162 TATATTTTATT
1 TATATATTATT
251173 CATTTTCATT
Statistics
Matches: 54, Mismatches: 14, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
14 16 0.30
15 27 0.50
16 11 0.20
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (14 bp):
TATATATTATTTAT
Found at i:251171 original size:43 final size:42
Alignment explanation
Indices: 251038--251170 Score: 146
Period size: 43 Copynumber: 3.1 Consensus size: 42
251028 TTGGGTTTTA
* *
251038 TTTAATA-TATATAGTATATAATATATAGTTTTTTATAAAAT
1 TTTAATATTATATAGTATATATTATATAGTTTTTTATAATAT
*
251079 TTTGAATATATATATA-TATATATTATATAGTTTTTTAAAAATAT
1 TTT-AATAT-TATATAGTATATATTATATAGTTTTTT-ATAATAT
* *
251123 ATTTATATATTATATAGTATAGTATTATATA-TTATTTATTATAT
1 -TTTA-ATATTATATAGTATA-TATTATATAGTTTTTTATAATAT
251167 TTTA
1 TTTA
251171 TTCATTTTCA
Statistics
Matches: 78, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
41 3 0.04
42 4 0.05
43 23 0.29
44 23 0.29
45 16 0.21
46 9 0.12
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (42 bp):
TTTAATATTATATAGTATATATTATATAGTTTTTTATAATAT
Found at i:251190 original size:21 final size:20
Alignment explanation
Indices: 251166--251210 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
251156 ATTTATTATA
251166 TTTTATTCATTTTCATTTTC-T
1 TTTTATTCA-TTT-ATTTTCAT
*
251187 TTTTATTTATTTATTTTCAT
1 TTTTATTCATTTATTTTCAT
251207 TTTT
1 TTTT
251211 CTTTCTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 8 0.36
21 8 0.36
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTATTCATTTATTTTCAT
Found at i:252232 original size:20 final size:20
Alignment explanation
Indices: 252209--252257 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
252199 TTTTATTATT
* *
252209 TTTTATTTCTTTTACTTTTG
1 TTTTATTTATTTAACTTTTG
* *
252229 TTTTAATTATTTAATTTTTG
1 TTTTATTTATTTAACTTTTG
252249 TCTTTATTT
1 T-TTTATTT
252258 GTACATGCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.73
Consensus pattern (20 bp):
TTTTATTTATTTAACTTTTG
Found at i:258876 original size:195 final size:195
Alignment explanation
Indices: 258544--258933 Score: 748
Period size: 195 Copynumber: 2.0 Consensus size: 195
258534 AGTAACTGAT
258544 TAAGCGGTAGAATGTTCATTCCATTCCTTAGAGTTTATGAATAACACATTTGTGGCTGAAGGAGG
1 TAAGCGGTAGAATGTTCATTCCATTCCTTAGAGTTTATGAATAACACATTTGTGGCTGAAGGAGG
258609 AAAGATTTCCAAACCACGGCTCTCCGAATGCACTAAAATGGAGATCAAGCAGACTTTGGGAGAGA
66 AAAGATTTCCAAACCACGGCTCTCCGAATGCACTAAAATGGAGATCAAGCAGACTTTGGGAGAGA
258674 GTGCCAAGTAGAAAAAGGATTTGAGAATCTGTTGCAAGGAAAGAATCAA-CCTGTTCTTCCTATA
131 GTGCCAAGTAGAAAAAGGATTTGAGAATCTGTTGCAAGG-AAGAATCAACCCTGTTCTTCCTATA
258738 A
195 A
258739 TAAGCGGTAGAATGTTCATTCCATTCCTTAGAGTTTATGAATAACACATTTGTGGCTGAAGGAGG
1 TAAGCGGTAGAATGTTCATTCCATTCCTTAGAGTTTATGAATAACACATTTGTGGCTGAAGGAGG
258804 AAAGATTTCCAAACCACGGCTCTCCGAATGCACTAAAATGGAGATCAAGCAGACTTTGGGA-AGA
66 AAAGATTTCCAAACCACGGCTCTCCGAATGCACTAAAATGGAGATCAAGCAGACTTTGGGAGAGA
258868 GGTGCCAAGTAGAAAAAGGATTTGAGAATCTGTTGCAAGGAAGAATCAACCCTGTTCTTCCTATA
131 -GTGCCAAGTAGAAAAAGGATTTGAGAATCTGTTGCAAGGAAGAATCAACCCTGTTCTTCCTATA
258933 A
195 A
258934 AAAAGCTAGA
Statistics
Matches: 193, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
194 12 0.06
195 181 0.94
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (195 bp):
TAAGCGGTAGAATGTTCATTCCATTCCTTAGAGTTTATGAATAACACATTTGTGGCTGAAGGAGG
AAAGATTTCCAAACCACGGCTCTCCGAATGCACTAAAATGGAGATCAAGCAGACTTTGGGAGAGA
GTGCCAAGTAGAAAAAGGATTTGAGAATCTGTTGCAAGGAAGAATCAACCCTGTTCTTCCTATAA
Found at i:264551 original size:7 final size:7
Alignment explanation
Indices: 264533--264585 Score: 61
Period size: 7 Copynumber: 7.3 Consensus size: 7
264523 TTTTAAAAAA
264533 ATATATTT
1 ATATA-TT
264541 ATATATT
1 ATATATT
*
264548 ATATAAT
1 ATATATT
264555 ATAGTATT
1 ATA-TATT
264563 ATATATT
1 ATATATT
*
264570 ATTTATT
1 ATATATT
*
264577 ATATTTT
1 ATATATT
264584 AT
1 AT
264586 TCATTTTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
7 28 0.72
8 11 0.28
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (7 bp):
ATATATT
Found at i:264564 original size:22 final size:20
Alignment explanation
Indices: 264532--264582 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 20
264522 GTTTTAAAAA
264532 AATATATTTATATATTATAT
1 AATATATTTATATATTATAT
*
264552 AATATAGTATTATATATTATTT
1 AATATA-T-TTATATATTATAT
*
264574 ATTATATTT
1 AATATATTT
264583 TATTCATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 2 0.07
22 17 0.63
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
AATATATTTATATATTATAT
Found at i:264585 original size:14 final size:14
Alignment explanation
Indices: 264559--264597 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
264549 TATAATATAG
*
264559 TATTATATATTATT
1 TATTATATTTTATT
264573 TATTATATTTTATT
1 TATTATATTTTATT
* *
264587 CATTTTATTTT
1 TATTATATTTT
264598 TTTTTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTATATTTTATT
Found at i:266415 original size:46 final size:47
Alignment explanation
Indices: 266348--266442 Score: 174
Period size: 46 Copynumber: 2.0 Consensus size: 47
266338 AATTCCGGGC
266348 TCATCCGAAAGACGGTTGCGACAATGTGATATAC-ATATCATACAAA
1 TCATCCGAAAGACGGTTGCGACAATGTGATATACAATATCATACAAA
266394 TCATCCGAAAGACGGTTGCGACAATGTGATATACATATATCATACAAA
1 TCATCCGAAAGACGGTTGCGACAATGTGATATACA-ATATCATACAAA
266442 T
1 T
266443 TTTACAACTC
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 34 0.72
48 13 0.28
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (47 bp):
TCATCCGAAAGACGGTTGCGACAATGTGATATACAATATCATACAAA
Found at i:279655 original size:117 final size:117
Alignment explanation
Indices: 279436--279656 Score: 266
Period size: 117 Copynumber: 1.9 Consensus size: 117
279426 TTTCAAATTA
* * * *
279436 AAATTTTCTTTTTCAATATTTTCAAATTTCATTTTTGAAAGTTCTAAATCCCTCTTCAAGAGTTC
1 AAATTTTCTTTTTCAATATTTTCAAATTTCAGTTTTGAAAGCTCTAAATCACTCTTCAACAGTTC
* *
279501 ATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGGTTAATTTG
66 ATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGGTTAATTTG
* * * * *
279553 AAATTTTCTTTTTCAA-AGTTTTCAAATTTTAGTTTTGAAAGCTCTAACTCATTTTTCAACATTT
1 AAATTTTCTTTTTCAATA-TTTTCAAATTTCAGTTTTGAAAGCTCTAAATCACTCTTCAACAGTT
* * * **
279617 CATTTTGTTTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAAG
65 CATTTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
279657 ATCATTTTTA
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
116 1 0.01
117 81 0.94
118 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (117 bp):
AAATTTTCTTTTTCAATATTTTCAAATTTCAGTTTTGAAAGCTCTAAATCACTCTTCAACAGTTC
ATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGGTTAATTTG
Found at i:281048 original size:20 final size:20
Alignment explanation
Indices: 281023--281076 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
281013 AATAGCCTGA
281023 GTGCATCGATGCATGGTCTT
1 GTGCATCGATGCATGGTCTT
281043 GTGCATCGATGCATGGTCTT
1 GTGCATCGATGCATGGTCTT
*
281063 TTGCATCGATGCAT
1 GTGCATCGATGCAT
281077 AAAATGCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (20 bp):
GTGCATCGATGCATGGTCTT
Found at i:281122 original size:85 final size:84
Alignment explanation
Indices: 280979--281141 Score: 206
Period size: 85 Copynumber: 1.9 Consensus size: 84
280969 GCACTAAGAG
* * * *
280979 TGCATCGATGCATGAAATGCATTCGATGTTTTGAAATAGCCTGAGTGCATCGATGCATGG-TCTT
1 TGCATCGATGCATAAAATGCATTCGATG-TTTCAAATAGCCTGAGTGCATCAATGCATGGAT-TG
281043 GTGCATCGATGCATGGTCTTT
64 GTGCATCGATGCATGGTCTTT
* *
281064 TGCATCGATGCATAAAATGCATTCGATG-TTCAATTCATTCCATGA-TGCATCAATGCATGGATT
1 TGCATCGATGCATAAAATGCATTCGATGTTTCAAAT-A-GCC-TGAGTGCATCAATGCATGGATT
281127 GGTGCATCGATGCAT
63 GGTGCATCGATGCAT
281142 CACTTTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
83 5 0.07
84 1 0.01
85 58 0.85
86 4 0.06
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (84 bp):
TGCATCGATGCATAAAATGCATTCGATGTTTCAAATAGCCTGAGTGCATCAATGCATGGATTGGT
GCATCGATGCATGGTCTTT
Found at i:281782 original size:18 final size:18
Alignment explanation
Indices: 281759--281801 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
281749 ACAGGTCGTG
*
281759 TCAAAGTTAATGGTTTGA
1 TCAAAGTTAACGGTTTGA
281777 TCAAAGTTAACGGTTTGA
1 TCAAAGTTAACGGTTTGA
281795 TCAAAGT
1 TCAAAGT
281802 CAACAAGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (18 bp):
TCAAAGTTAACGGTTTGA
Found at i:285395 original size:40 final size:40
Alignment explanation
Indices: 285281--285388 Score: 216
Period size: 40 Copynumber: 2.7 Consensus size: 40
285271 CTACCTCAAA
285281 TTATAAAAATGTTATAATAAAAAATATACGAACATTAATC
1 TTATAAAAATGTTATAATAAAAAATATACGAACATTAATC
285321 TTATAAAAATGTTATAATAAAAAATATACGAACATTAATC
1 TTATAAAAATGTTATAATAAAAAATATACGAACATTAATC
285361 TTATAAAAATGTTATAATAAAAAATATA
1 TTATAAAAATGTTATAATAAAAAATATA
285389 TAAACATCAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.56, C:0.06, G:0.05, T:0.33
Consensus pattern (40 bp):
TTATAAAAATGTTATAATAAAAAATATACGAACATTAATC
Found at i:285760 original size:32 final size:31
Alignment explanation
Indices: 285710--285769 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
285700 TTTACAAGTT
285710 TAATTTTTACAATGGTTAAGATGAAACCATTC
1 TAATTTTTACAATGGTTAA-ATGAAACCATTC
* *
285742 TAATTTTTTCTAAT-GTTAAATTAAACCA
1 TAATTTTTAC-AATGGTTAAATGAAACCA
285770 CTCTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 8 0.32
32 14 0.56
33 3 0.12
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (31 bp):
TAATTTTTACAATGGTTAAATGAAACCATTC
Found at i:286185 original size:21 final size:22
Alignment explanation
Indices: 286143--286185 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
286133 AGACTGATCA
* *
286143 TTTTTTTGACAAGAAATTAATC
1 TTTTTTTGAAAAGAAATCAATC
*
286165 TTTTTTTTAAAAG-AATCAATC
1 TTTTTTTGAAAAGAAATCAATC
286186 CCTTTCGGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
TTTTTTTGAAAAGAAATCAATC
Found at i:287836 original size:7 final size:7
Alignment explanation
Indices: 287824--287873 Score: 73
Period size: 7 Copynumber: 6.7 Consensus size: 7
287814 TGAAGACCCC
287824 CACGCCT
1 CACGCCT
287831 CACGCCT
1 CACGCCT
287838 CACGCCT
1 CACGCCT
287845 CACGCCGCCT
1 CA---CGCCT
287855 CACGCCT
1 CACGCCT
287862 CACGCCT
1 CACGCCT
287869 CACGC
1 CACGC
287874 AATCGCAACC
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
7 33 0.82
10 7 0.17
ACGTcount: A:0.14, C:0.58, G:0.16, T:0.12
Consensus pattern (7 bp):
CACGCCT
Found at i:287855 original size:17 final size:17
Alignment explanation
Indices: 287833--287867 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
287823 CCACGCCTCA
287833 CGCCTCACGCCTCACGC
1 CGCCTCACGCCTCACGC
287850 CGCCTCACGCCTCACGC
1 CGCCTCACGCCTCACGC
287867 C
1 C
287868 TCACGCAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.60, G:0.17, T:0.11
Consensus pattern (17 bp):
CGCCTCACGCCTCACGC
Found at i:287855 original size:24 final size:24
Alignment explanation
Indices: 287826--287873 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
287816 AAGACCCCCA
287826 CGCCTCACGCCTCACGCCTCACGC
1 CGCCTCACGCCTCACGCCTCACGC
287850 CGCCTCACGCCTCACGCCTCACGC
1 CGCCTCACGCCTCACGCCTCACGC
287874 AATCGCAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.58, G:0.17, T:0.12
Consensus pattern (24 bp):
CGCCTCACGCCTCACGCCTCACGC
Found at i:289094 original size:4 final size:4
Alignment explanation
Indices: 289070--289137 Score: 57
Period size: 4 Copynumber: 16.2 Consensus size: 4
289060 TTTTATAATG
* * * *
289070 TATT TATTT TACT TATC TATT TATT TATT TATT TATTT TATG TGTT TATT
1 TATT TA-TT TATT TATT TATT TATT TATT TATT TA-TT TATT TATT TATT
289120 CT-TT TATT TATTT TATT T
1 -TATT TATT TA-TT TATT T
289138 TTTTCATTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
3 1 0.02
4 37 0.73
5 13 0.25
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:289110 original size:25 final size:25
Alignment explanation
Indices: 289082--289135 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
289072 TTTATTTTAC
289082 TTATCTATTTATT-TATTTATTTATT
1 TTATCTATTTATTCT-TTTATTTATT
* *
289107 TTATGTGTTTATTCTTTTATTTATT
1 TTATCTATTTATTCTTTTATTTATT
289132 TTAT
1 TTAT
289136 TTTTTTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (25 bp):
TTATCTATTTATTCTTTTATTTATT
Found at i:289119 original size:29 final size:29
Alignment explanation
Indices: 289070--289138 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 29
289060 TTTTATAATG
289070 TATTTATTTTACTTATCTATT-TATTTATT
1 TATTTATTTTACTTATCTATTCT-TTTATT
* *
289099 TATTTATTTTA-TGTGTTTATTCTTTTATT
1 TATTTATTTTACT-TATCTATTCTTTTATT
289128 TATTTTATTTT
1 TA-TTTATTTT
289139 TTTCATTGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 1 0.03
29 25 0.71
30 9 0.26
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.72
Consensus pattern (29 bp):
TATTTATTTTACTTATCTATTCTTTTATT
Found at i:289126 original size:33 final size:33
Alignment explanation
Indices: 289082--289161 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 33
289072 TTTATTTTAC
289082 TTATCTATTTATTTA-TTTATTTATTTT-ATGTG-T
1 TTATCT-TTTATTTATTTTATTT-TTTTCAT-TGCT
289115 TTATTCTTTTATTTATTTTATTTTTTTCATTGCT
1 TTA-TCTTTTATTTATTTTATTTTTTTCATTGCT
289149 TTATCTTTT-TTTA
1 TTATCTTTTATTTA
289162 CTTTCTGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
32 4 0.09
33 23 0.53
34 16 0.37
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.72
Consensus pattern (33 bp):
TTATCTTTTATTTATTTTATTTTTTTCATTGCT
Found at i:289437 original size:16 final size:16
Alignment explanation
Indices: 289416--289453 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
289406 CATATCTTTG
*
289416 GTAAGATGCAGATCAT
1 GTAAGATGCAGATCAA
289432 GTAAGATGCAGATCAA
1 GTAAGATGCAGATCAA
289448 GTAAGA
1 GTAAGA
289454 AGTAAAGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (16 bp):
GTAAGATGCAGATCAA
Found at i:298383 original size:11 final size:11
Alignment explanation
Indices: 298361--298390 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
298351 AGAGCATCCT
298361 AAGAAGAAGAAA
1 AAGAA-AAGAAA
298373 AAGAAAAGAAA
1 AAGAAAAGAAA
298384 AAGAAAA
1 AAGAAAA
298391 AATATTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAGAAAAGAAA
Found at i:298434 original size:1 final size:1
Alignment explanation
Indices: 298428--298500 Score: 56
Period size: 1 Copynumber: 73.0 Consensus size: 1
298418 CTCCTAAATT
* * * * * * * * *
298428 AAAAAAAAGAAAAAGAAAAAGAAAAAAAAAAAAAAAGAAAAAGAAAAAAAGAGAAAAGAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
298493 AAAGAAAA
1 AAAAAAAA
298501 TAAGGAGGGT
Statistics
Matches: 52, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (1 bp):
A
Found at i:298442 original size:6 final size:6
Alignment explanation
Indices: 298431--298500 Score: 92
Period size: 6 Copynumber: 11.7 Consensus size: 6
298421 CTAAATTAAA
298431 AAAAAG AAAAAG AAAAAG AAAAA- AAAAA- AAAAAG AAAAAG AAAAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG --AAAAAG
298479 AGAAAAG AAAAAG -AAAAG AAAA
1 A-AAAAG AAAAAG AAAAAG AAAA
298501 TAAGGAGGGT
Statistics
Matches: 59, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
5 15 0.25
6 32 0.54
7 6 0.10
8 6 0.10
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:298456 original size:16 final size:16
Alignment explanation
Indices: 298431--298500 Score: 88
Period size: 16 Copynumber: 4.2 Consensus size: 16
298421 CTAAATTAAA
298431 AAAAAGAAAAAGAAAAAG
1 AAAAAG-AAAA-AAAAAG
*
298449 AAAAAAAAAAAAAAAG
1 AAAAAGAAAAAAAAAG
*
298465 AAAAAGAAAAAAAGAG
1 AAAAAGAAAAAAAAAG
298481 -AAAAGAAAAAGAAAAG
1 AAAAAGAAAAA-AAAAG
298497 AAAA
1 AAAA
298501 TAAGGAGGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
15 10 0.22
16 24 0.52
17 7 0.15
18 5 0.11
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAAAAG
Found at i:298456 original size:22 final size:22
Alignment explanation
Indices: 298428--298500 Score: 112
Period size: 22 Copynumber: 3.4 Consensus size: 22
298418 CTCCTAAATT
298428 AAAAAAAAGAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGAAAAAGA
*
298450 AAAAAAAAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGAAAAAGA
*
298472 AAAAAAGAG-AAAAGAAAAAGA
1 AAAAAAAAGAAAAAGAAAAAGA
*
298493 AAAGAAAA
1 AAAAAAAA
298501 TAAGGAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 18 0.39
22 28 0.61
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAAAAGAAAAAGAAAAAGA
Found at i:299345 original size:65 final size:65
Alignment explanation
Indices: 299241--299363 Score: 201
Period size: 65 Copynumber: 1.9 Consensus size: 65
299231 GTAACACCAT
* * * *
299241 TTACTCGAGATTGGATTTTAACTTCACAACGAAGGATATCCAACTCAAAGCCAATTTGGCTAAAC
1 TTACTCAAGATTGGATATCAACTTCACAACGAAGGATATCCAACTCAAAACCAATTTGGCTAAAC
*
299306 TTACTCAAGATTGGATATCAACTTCACGACGAAGGATATCCAACTCAAAACCAATTTG
1 TTACTCAAGATTGGATATCAACTTCACAACGAAGGATATCCAACTCAAAACCAATTTG
299364 TTGAAACAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (65 bp):
TTACTCAAGATTGGATATCAACTTCACAACGAAGGATATCCAACTCAAAACCAATTTGGCTAAAC
Found at i:300132 original size:14 final size:14
Alignment explanation
Indices: 300112--300167 Score: 103
Period size: 14 Copynumber: 4.0 Consensus size: 14
300102 GAAGCTGAAG
300112 ACACCTAATTTCGT
1 ACACCTAATTTCGT
*
300126 CCACCTAATTTCGT
1 ACACCTAATTTCGT
300140 ACACCTAATTTCGT
1 ACACCTAATTTCGT
300154 ACACCTAATTTCGT
1 ACACCTAATTTCGT
300168 CCATTCCCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 40 1.00
ACGTcount: A:0.27, C:0.30, G:0.07, T:0.36
Consensus pattern (14 bp):
ACACCTAATTTCGT
Found at i:301282 original size:22 final size:21
Alignment explanation
Indices: 301239--301282 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
301229 ATTTTTTCTC
* *
301239 TTATTTTTATTTATTTAAATA
1 TTATTTTTATTAATATAAATA
*
301260 TTATATTTTATTAATATATATA
1 TTAT-TTTTATTAATATAAATA
301282 T
1 T
301283 ACATATGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTATTTTTATTAATATAAATA
Found at i:301388 original size:2 final size:2
Alignment explanation
Indices: 301381--301411 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
301371 TCTTTATGTT
301381 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 T
301412 CTTAATCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:301489 original size:18 final size:18
Alignment explanation
Indices: 301456--301501 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
301446 TATGTACATA
*
301456 TATTTTATTACTCTTTTTT
1 TATTTAATTACTC-TTTTT
301475 TATTTAATTAC-CTTTTT
1 TATTTAATTACTCTTTTT
301492 TATTTTAATT
1 TA-TTTAATT
301502 TTTTAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 7 0.28
18 8 0.32
19 10 0.40
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.70
Consensus pattern (18 bp):
TATTTAATTACTCTTTTT
Found at i:301558 original size:17 final size:17
Alignment explanation
Indices: 301538--301582 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
301528 TTTTATAATG
*
301538 TATTTATTTTACTTATA
1 TATTTATTTTAATTATA
*
301555 TATTT-TATTTAATTATT
1 TATTTAT-TTTAATTATA
301572 TATTTATTTTA
1 TATTTATTTTA
301583 TGTGTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 1 0.04
17 22 0.92
18 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTATTTTAATTATA
Found at i:301571 original size:13 final size:12
Alignment explanation
Indices: 301541--301602 Score: 56
Period size: 13 Copynumber: 5.0 Consensus size: 12
301531 TATAATGTAT
*
301541 TTATTTTACTTA
1 TTATTTTATTTA
301553 TATATTTTATTTAA
1 T-TATTTTATTT-A
301567 TTA-TTTATTTA
1 TTATTTTATTTA
*
301578 TT-TTATGTGTTTA
1 TTATT-T-TATTTA
301591 TTATTTTATTTA
1 TTATTTTATTTA
301603 ATTTTTTCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
11 4 0.10
12 14 0.34
13 19 0.46
14 4 0.10
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (12 bp):
TTATTTTATTTA
Found at i:302990 original size:30 final size:30
Alignment explanation
Indices: 302888--302990 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 30
302878 AAATATATTC
* * ** * *
302888 CATTTTATGTGAAACATTTTTCAGACAAAT
1 CATTTTACGTAAAACAACTTTCAGATAATT
*
302918 CATTTTACGTAAAACAACTTTCATATAATT
1 CATTTTACGTAAAACAACTTTCAGATAATT
* * * *
302948 CACTTTACGTAAAACAATTTTTAGGTAATT
1 CATTTTACGTAAAACAACTTTCAGATAATT
* *
302978 TATTTTATGTAAA
1 CATTTTACGTAAA
302991 TTGTTTTTTA
Statistics
Matches: 58, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.42
Consensus pattern (30 bp):
CATTTTACGTAAAACAACTTTCAGATAATT
Found at i:315980 original size:32 final size:31
Alignment explanation
Indices: 315919--316209 Score: 147
Period size: 32 Copynumber: 9.1 Consensus size: 31
315909 TTGTATATGT
* * *
315919 TATACATTATCTAAATGCAATATTGACTCTAC
1 TATACATTATCTGAATGTAATACTGA-TCTAC
* * **
315951 TATACATTATCTGAATGAAATACTAACTCTTT
1 TATACATTATCTGAATGTAATACTGA-TCTAC
* * * * ** * *
315983 TGTGA-ATGATTTGCATACAATACTAACTCTTC
1 TAT-ACATTATCTGAATGTAATACTGA-TCTAC
*
316015 TATGCATTATCTGAATGTAATACTGATTCTAC
1 TATACATTATCTGAATGTAATACTGA-TCTAC
* ** * *
316047 TGTGTATTATTTGAATGTAATACTGATACTAA
1 TATACATTATCTGAATGTAATACTGAT-CTAC
* * *
316079 TGTACATTATCTGGATGCAATACTGATACTAC
1 TATACATTATCTGAATGTAATACTGAT-CTAC
* *
316111 TGTGCATTATCTGAATGTAATACAT-ATACTAC
1 TATACATTATCTGAATGTAATAC-TGAT-CTAC
* * *
316143 TATGCATTATCT-AGATGCAATACTGATACTAT
1 TATACATTATCTGA-ATGTAATACTGAT-CTAC
* * * * *
316175 TGTGCATTATCTAAATGCAATACTAATACTAC
1 TATACATTATCTGAATGTAATACTGAT-CTAC
316207 TAT
1 TAT
316210 GTAACAATCA
Statistics
Matches: 209, Mismatches: 43, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
31 3 0.01
32 203 0.97
33 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (31 bp):
TATACATTATCTGAATGTAATACTGATCTAC
Found at i:316100 original size:96 final size:96
Alignment explanation
Indices: 316000--316210 Score: 266
Period size: 96 Copynumber: 2.2 Consensus size: 96
315990 GATTTGCATA
* * * * *
316000 CAATACTAACT-CTTCTATGCATTATCTGAATGTAATAC-TGATTCTACTGTGTATTAT-TTGAA
1 CAATACTAA-TACTACTATGCATTATCTGAATGTAATACAT-ATACTACTATGCATTATCTAG-A
* **
316062 TGTAATACTGATACTAATGTACATTATCTGGATG
63 TGCAATACTGATACTAATGTACATTATCTAAATG
* *
316096 CAATACTGATACTACTGTGCATTATCTGAATGTAATACATATACTACTATGCATTATCTAGATGC
1 CAATACTAATACTACTATGCATTATCTGAATGTAATACATATACTACTATGCATTATCTAGATGC
* *
316161 AATACTGATACTATTGTGCATTATCTAAATG
66 AATACTGATACTAATGTACATTATCTAAATG
316192 CAATACTAATACTACTATG
1 CAATACTAATACTACTATG
316211 TAACAATCAA
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
95 1 0.01
96 94 0.96
97 3 0.03
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (96 bp):
CAATACTAATACTACTATGCATTATCTGAATGTAATACATATACTACTATGCATTATCTAGATGC
AATACTGATACTAATGTACATTATCTAAATG
Found at i:316205 original size:64 final size:63
Alignment explanation
Indices: 316000--316210 Score: 246
Period size: 64 Copynumber: 3.3 Consensus size: 63
315990 GATTTGCATA
* * * * *
316000 CAATACTAACT-CTTCTATGCATTATCTGAATGTAATACTGATTCTACTGTGTATTATTTGAATG
1 CAATACTAA-TACTACTATGCATTATCTG-ATGCAATACTGATACTACTGTGCATTATCTGAATG
* * * * *
316064 TAATACTGATACTAATGTACATTATCTGGATGCAATACTGATACTACTGTGCATTATCTGAATG
1 CAATACTAATACTACTATGCATTATCT-GATGCAATACTGATACTACTGTGCATTATCTGAATG
* * *
316128 TAATAC-ATATACTACTATGCATTATCTAGATGCAATACTGATACTATTGTGCATTATCTAAATG
1 CAATACTA-ATACTACTATGCATTATCT-GATGCAATACTGATACTACTGTGCATTATCTGAATG
316192 CAATACTAATACTACTATG
1 CAATACTAATACTACTATG
316211 TAACAATCAA
Statistics
Matches: 125, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
63 1 0.01
64 122 0.98
65 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (63 bp):
CAATACTAATACTACTATGCATTATCTGATGCAATACTGATACTACTGTGCATTATCTGAATG
Found at i:317272 original size:14 final size:14
Alignment explanation
Indices: 317253--317284 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
317243 TTAAGGTGCC
*
317253 TTAAAAACATATTT
1 TTAAAAACATATTA
317267 TTAAAAACATATTA
1 TTAAAAACATATTA
317281 TTAA
1 TTAA
317285 CACCTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAAAAACATATTA
Found at i:328841 original size:29 final size:29
Alignment explanation
Indices: 328753--328841 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
328743 TAAAATATAT
* * *
328753 AACTTTTAAAAATTAAATTTTTAGTCCCTA
1 AACTTTCAAAAATTATA-TTTTAGTCACTA
* *
328783 AACTTTTCAAAATTTATACTTTAG-CTACTA
1 AAC-TTTCAAAAATTATATTTTAGTC-ACTA
* *
328813 AACTTTCAAAACTTATATTTTGGTCACTA
1 AACTTTCAAAAATTATATTTTAGTCACTA
328842 CTAAAAAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
29 22 0.46
30 15 0.31
31 11 0.23
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.43
Consensus pattern (29 bp):
AACTTTCAAAAATTATATTTTAGTCACTA
Found at i:337719 original size:37 final size:37
Alignment explanation
Indices: 337665--337746 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
337655 AGACAAAAAT
*
337665 TTTCAATGGAAAATATCTCAA-TGGAGATGAAATTTTG
1 TTTCAATGGAAAATATCTCAAGT-GAGACGAAATTTTG
* *
337702 TTTCAA-GAGAAACTATCTCGAGTGAGACGAAA-TTT-
1 TTTCAATG-GAAAATATCTCAAGTGAGACGAAATTTTG
337737 TTTCAATGGA
1 TTTCAATGGA
337747 GATGAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
35 8 0.21
36 5 0.13
37 25 0.64
38 1 0.03
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (37 bp):
TTTCAATGGAAAATATCTCAAGTGAGACGAAATTTTG
Found at i:337735 original size:70 final size:68
Alignment explanation
Indices: 337564--337746 Score: 188
Period size: 70 Copynumber: 2.6 Consensus size: 68
337554 TTGAGTCATG
* *
337564 TCAAGAAAA-TATATCGAGTGAGACAAAAAATTTTCAAGGGAAAGTATCTCAAGGGAGATGAAAT
1 TCAAGAAAACTATATCGAGTGAGAC-AAAAATTTTCAATGGAAAATATCTCAAGGGAGATGAAAT
337628 ATGT
65 ATGT
* * * * * *
337632 TCGGAGAAAAACTATTTCAAATAAGACAAAAATTTTCAATGGAAAATATCTCAATGGAGATGAAA
1 TC-AAG-AAAACTATATCGAGTGAGACAAAAATTTTCAATGGAAAATATCTCAAGGGAGATGAAA
*
337697 TTTTGTT
64 -TATG-T
* **
337704 TCAAGAGAAACTATCTCGAGTGAGACGAAATTTTTTCAATGGA
1 TCAAGA-AAACTATATCGAGTGAGAC-AAAAATTTTCAATGGA
337747 GATGAAATTT
Statistics
Matches: 92, Mismatches: 16, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
68 2 0.02
69 2 0.02
70 40 0.43
71 31 0.34
72 17 0.18
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.27
Consensus pattern (68 bp):
TCAAGAAAACTATATCGAGTGAGACAAAAATTTTCAATGGAAAATATCTCAAGGGAGATGAAATA
TGT
Found at i:337750 original size:57 final size:58
Alignment explanation
Indices: 337682--337797 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 58
337672 GGAAAATATC
* * * *
337682 TCAATGGAGATGAAA-TTTTGTTTCAAGAGAAACTATCTCGAGTGAGACGAAATTTTT
1 TCAATGGAGATGAAATTTTTGCTTCAAGAGAAACTATCACGACTGAGACAAAATTTTT
337739 TCAATGGAGATGAAATTTTTGCTTCAAGAGAAACTATCACGACTGAGACAAAATTTTT
1 TCAATGGAGATGAAATTTTTGCTTCAAGAGAAACTATCACGACTGAGACAAAATTTTT
337797 T
1 T
337798 GAAGGGAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
57 15 0.28
58 39 0.72
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (58 bp):
TCAATGGAGATGAAATTTTTGCTTCAAGAGAAACTATCACGACTGAGACAAAATTTTT
Found at i:337872 original size:74 final size:73
Alignment explanation
Indices: 337739--337943 Score: 227
Period size: 73 Copynumber: 2.8 Consensus size: 73
337729 CGAAATTTTT
* * * * * *
337739 TCAATGGAGATGAAATTTTTGCTTCAAGAGAAACTATCACGACTGAGACA-AAATTTTTTGAAGG
1 TCAAGGGAGATGAAATTTTTGTTTCAAGAGAAACTGTCTCGAGTGAGACAGAAA-GTTTTGAAGG
337803 GAAAAAAACC
65 G-AAAAAACC
* * *
337813 TTAAGGGAGATGAAGTTTTTGTTTCAAGAGAAACTGTCTCGAGTAAGACAGAAAGTTTTGAAGGG
1 TCAAGGGAGATGAAATTTTTGTTTCAAGAGAAACTGTCTCGAGTGAGACAGAAAGTTTTGAAGGG
*
337878 AAAACACC
66 AAAAAACC
* * * *
337886 TCAAGGGAGA-CACAATTTTCGTTTTAAGAAAAACTGTCTCGAGTGAGA-AGAAAAGTTT
1 TCAAGGGAGATGA-AATTTTTGTTTCAAGAGAAACTGTCTCGAGTGAGACAG-AAAGTTT
337944 CAAGGAGAAA
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
72 3 0.03
73 53 0.48
74 52 0.47
75 3 0.03
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.26
Consensus pattern (73 bp):
TCAAGGGAGATGAAATTTTTGTTTCAAGAGAAACTGTCTCGAGTGAGACAGAAAGTTTTGAAGGG
AAAAAACC
Found at i:338117 original size:37 final size:35
Alignment explanation
Indices: 338017--338123 Score: 94
Period size: 38 Copynumber: 3.0 Consensus size: 35
338007 AAACTTTCAA
*
338017 GAAAAA-TATCTCAAGTGAGATAAAATTTTGTTTT
1 GAAAAACTATCTCAAGTGAGATAAAATTTTGTTTG
* * *
338051 GAATGAAACTGTCTAAAGTGAGACGAAAATTATT-TTTGGG
1 GAA--AAACTATCTCAAGTGAGA-TAAAATT-TTGTTT--G
*
338091 GAAAAACTATCTCCAGTGAGATAAAA-TTTGTTT
1 GAAAAACTATCTCAAGTGAGATAAAATTTTGTTT
338124 AGAGAGAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
34 3 0.05
35 2 0.04
36 7 0.12
37 16 0.28
38 24 0.42
39 2 0.04
40 3 0.05
ACGTcount: A:0.39, C:0.08, G:0.19, T:0.34
Consensus pattern (35 bp):
GAAAAACTATCTCAAGTGAGATAAAATTTTGTTTG
Found at i:338147 original size:74 final size:74
Alignment explanation
Indices: 338017--338155 Score: 192
Period size: 74 Copynumber: 1.9 Consensus size: 74
338007 AAACTTTCAA
*
338017 GAAAAATATCTCAAGTGAGATAAAATTTTGTTTTGAATGAAACTGTCTAAAGTGAGACGAAAATT
1 GAAAAATATCTCAAGTGAGATAAAATTTTGTTTAGAATGAAACTGTCTAAAGTGAGACGAAAATT
338082 ATTTTTGGG
66 ATTTTTGGG
* * ** *
338091 GAAAAACTATCTCCAGTGAGATAAAA-TTTGTTTAGAGA-GAAATTGTCTCGATTGAGACGAAAA
1 GAAAAA-TATCTCAAGTGAGATAAAATTTTGTTTAGA-ATGAAACTGTCTAAAGTGAGACGAAAA
338154 TT
64 TT
338156 GAAGTGAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
74 38 0.67
75 19 0.33
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.32
Consensus pattern (74 bp):
GAAAAATATCTCAAGTGAGATAAAATTTTGTTTAGAATGAAACTGTCTAAAGTGAGACGAAAATT
ATTTTTGGG
Found at i:341734 original size:13 final size:13
Alignment explanation
Indices: 341716--341742 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
341706 GGTGAAAAGT
341716 AAAATAAATGCAA
1 AAAATAAATGCAA
341729 AAAATAAATGCAA
1 AAAATAAATGCAA
341742 A
1 A
341743 GTAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (13 bp):
AAAATAAATGCAA
Found at i:354145 original size:18 final size:19
Alignment explanation
Indices: 354122--354159 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
354112 CGGTTGTGCT
*
354122 GGAACTGGTGCTGGG-CTG
1 GGAACTGCTGCTGGGACTG
354140 GGAACTGCTGCTGGGACTG
1 GGAACTGCTGCTGGGACTG
354159 G
1 G
354160 CGTTGCTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.13, C:0.18, G:0.47, T:0.21
Consensus pattern (19 bp):
GGAACTGCTGCTGGGACTG
Found at i:361536 original size:24 final size:24
Alignment explanation
Indices: 361509--361561 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
361499 ACCTTTGTCT
*
361509 GAATGATTGTTCAACTTCAGGGTC
1 GAATGATTGCTCAACTTCAGGGTC
* *
361533 GAATTATTGCTCAACTTTAGGGTC
1 GAATGATTGCTCAACTTCAGGGTC
361557 GAATG
1 GAATG
361562 GTTCCAAAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (24 bp):
GAATGATTGCTCAACTTCAGGGTC
Found at i:368380 original size:54 final size:54
Alignment explanation
Indices: 368099--368372 Score: 316
Period size: 54 Copynumber: 5.1 Consensus size: 54
368089 TACTATAGGA
* * *
368099 ACTATGTGTACAACTCACGAAATTCATCATGTGTTGATGAACAATCGTACAGGC
1 ACTATGTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGC
* * * * * * *
368153 ACTATGTGTACAACTCACAGAATTCATCATGTGTTGATAAATAACTGTACAAGA
1 ACTATGTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGC
* * * * * * **
368207 ACTTTATGTGCAACTCACTGAATTCATCATATGTTGATGAATAACCATACAAAC
1 ACTATGTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGC
* * *
368261 ACTATGTGTGGAACTCATGGAATTCATCATGTGTTGATGAACAACCGTA-ATGAC
1 ACTATGTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACA-GGC
* * *
368315 ACTATGTGTGCAACTCACGGAATTCATCATGTGTTAATGAACGACCGTATAGGC
1 ACTATGTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGC
368369 ACTA
1 ACTA
368373 CATGTGCATC
Statistics
Matches: 186, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 184 0.99
55 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (54 bp):
ACTATGTGTGCAACTCACGGAATTCATCATGTGTTGATGAACAACCGTACAGGC
Found at i:373295 original size:13 final size:13
Alignment explanation
Indices: 373277--373328 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
373267 TGTATCATAA
373277 ATTTATGACGCGC
1 ATTTATGACGCGC
**
373290 ATTTATGACATGC
1 ATTTATGACGCGC
* *
373303 ATTTATGACTCAC
1 ATTTATGACGCGC
373316 ATTTATGACGCGC
1 ATTTATGACGCGC
373329 GTTGAGGGTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:384128 original size:18 final size:18
Alignment explanation
Indices: 384082--384136 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
384072 TTTTATTTAG
* *
384082 TTTTACTCTATTTTCTTT
1 TTTTACTTTTTTTTCTTT
384100 TTTTACTTTTTTTTCTTT
1 TTTTACTTTTTTTTCTTT
384118 TTTT-CTATTTTTTTGCTTT
1 TTTTACT-TTTTTTT-CTTT
384137 CATTTTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 2 0.06
18 27 0.82
19 4 0.12
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTACTTTTTTTTCTTT
Found at i:384142 original size:24 final size:24
Alignment explanation
Indices: 384111--384164 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
384101 TTTACTTTTT
384111 TTTCTTTTTTTCTATTT-TTTTGC
1 TTTCTTTTTTTCTATTTATTTTGC
*
384134 TTTCATTTTTTTCTCTTTATTTT-C
1 TTTC-TTTTTTTCTATTTATTTTGC
*
384158 TTCCTTT
1 TTTCTTT
384165 AGGCAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.26
24 16 0.59
25 4 0.15
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTCTTTTTTTCTATTTATTTTGC
Found at i:384146 original size:9 final size:8
Alignment explanation
Indices: 384092--384130 Score: 51
Period size: 8 Copynumber: 4.5 Consensus size: 8
384082 TTTTACTCTA
384092 TTTTCTTT
1 TTTTCTTT
384100 TTTTACTTTT
1 TTTT-C-TTT
384110 TTTTCTTT
1 TTTTCTTT
384118 TTTTCTATT
1 TTTTCT-TT
384127 TTTT
1 TTTT
384131 TGCTTTCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 13 0.46
9 8 0.29
10 7 0.25
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTCTTT
Found at i:398568 original size:18 final size:18
Alignment explanation
Indices: 398545--398582 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
398535 TAATTAATAG
*
398545 AATGTAATGCGAAAGGTA
1 AATGTAATGCGAAAAGTA
398563 AATGTAATGCGAAAAGTA
1 AATGTAATGCGAAAAGTA
398581 AA
1 AA
398583 ATGAAGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.24, T:0.21
Consensus pattern (18 bp):
AATGTAATGCGAAAAGTA
Found at i:399832 original size:29 final size:30
Alignment explanation
Indices: 399790--399855 Score: 116
Period size: 29 Copynumber: 2.2 Consensus size: 30
399780 CCCGAATGAG
399790 CTATCCAGAGGTCACAAAG-ACCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
*
399819 CTATCCAGAGGTCATAAAGAACCTCGGCAA
1 CTATCCAGAGGTCACAAAGAACCTCGGCAA
399849 CTATCCA
1 CTATCCA
399856 TATATCCCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 18 0.51
30 17 0.49
ACGTcount: A:0.35, C:0.30, G:0.18, T:0.17
Consensus pattern (30 bp):
CTATCCAGAGGTCACAAAGAACCTCGGCAA
Found at i:399970 original size:32 final size:32
Alignment explanation
Indices: 399887--399974 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 32
399877 AAATTGTCAT
* * * *
399887 ATATGTTCCTTAGAACATAGGT-ATACGGTTC
1 ATATGTTCCGTAGAACATAGGTAAAACAGTCC
* *
399918 ATATG-TCTCG-AAAGATATAGGTAAAACAGTCC
1 ATATGTTC-CGTAGA-ACATAGGTAAAACAGTCC
399950 ATATGTTCCGTAGAACATAGGTAAA
1 ATATGTTCCGTAGAACATAGGTAAA
399975 CCCTCGACTC
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
30 4 0.09
31 13 0.30
32 23 0.52
33 4 0.09
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (32 bp):
ATATGTTCCGTAGAACATAGGTAAAACAGTCC
Found at i:400914 original size:24 final size:20
Alignment explanation
Indices: 400841--400918 Score: 102
Period size: 20 Copynumber: 3.7 Consensus size: 20
400831 TTCCCCTTGA
* *
400841 AGTGCATCGATACATGCTAC
1 AGTGCATCGATGCATTCTAC
400861 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
400881 AGTGCATCGATGCATTCTTTATC
1 AGTGCATCGATGCATTC--TA-C
400904 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
400919 CTATCCATGC
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
20 35 0.67
22 2 0.04
23 2 0.04
24 13 0.25
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:401019 original size:64 final size:62
Alignment explanation
Indices: 400906--401066 Score: 146
Period size: 64 Copynumber: 2.5 Consensus size: 62
400896 TCTTTATCAT
* *
400906 GTGCATCGATGCACTATCCATGCATCGATACACAAATTACCTTCCATGTTTTCAT-TTTAAAGG
1 GTGCATCGATGCAC-ATCCATGCATCGATACACAAATTACATTCCATG-TTTCATCTTTAAAGA
* * * * * *
400969 GATGCATCGATGCAC-TCCTTATGCATCGATGCACCATTTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACATCC--ATGCATCGATACACAAATTACATTCCATGTTTCATCTTTAAAGA
* **
401033 GTGCACCGATGCACATTGATGTGCATCGATACAC
1 GTGCATCGATGCACATCCA--TGCATCGATACAC
401067 CTAGCCCAGA
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
62 4 0.05
63 18 0.23
64 57 0.72
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.32
Consensus pattern (62 bp):
GTGCATCGATGCACATCCATGCATCGATACACAAATTACATTCCATGTTTCATCTTTAAAGA
Found at i:405177 original size:24 final size:20
Alignment explanation
Indices: 405120--405177 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
405110 TTCCCCTTGA
405120 AGTGCATCGATGCATGCTAC
1 AGTGCATCGATGCATGCTAC
* *
405140 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATGC--T-AC
405163 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
405178 CTACCCATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATGCTAC
Found at i:405268 original size:19 final size:19
Alignment explanation
Indices: 405229--405268 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
405219 TTTTAAAGGG
*
405229 ATGCATCGATGCACTCCTT
1 ATGCATCGATGCACTACTT
*
405248 ATGCATCGATGCACTATTT
1 ATGCATCGATGCACTACTT
405267 AT
1 AT
405269 ATTCGAGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (19 bp):
ATGCATCGATGCACTACTT
Found at i:410115 original size:17 final size:17
Alignment explanation
Indices: 410090--410131 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
410080 ATGACCAAAT
*
410090 TGAAGAAAATTAAAAAA
1 TGAACAAAATTAAAAAA
*
410107 TGAACAAAATTAAACAA
1 TGAACAAAATTAAAAAA
*
410124 TTAACAAA
1 TGAACAAA
410132 TATAAAGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (17 bp):
TGAACAAAATTAAAAAA
Found at i:410475 original size:31 final size:31
Alignment explanation
Indices: 410440--410517 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
410430 GGTTCGAAAG
410440 TAAATATAA-AAAGTTAGCGGTTAGTGGTTAA
1 TAAAT-TAACAAAGTTAGCGGTTAGTGGTTAA
**
410471 TAAATTAACAAAGTTAGTTGTTAGTGGTTAA
1 TAAATTAACAAAGTTAGCGGTTAGTGGTTAA
*
410502 TAAATTAGCAAAGTTA
1 TAAATTAACAAAGTTA
410518 ATGGTTAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 3 0.07
31 40 0.93
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (31 bp):
TAAATTAACAAAGTTAGCGGTTAGTGGTTAA
Found at i:418285 original size:15 final size:16
Alignment explanation
Indices: 418265--418295 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
418255 AATTTTAATT
418265 AAAAAAC-AAATAAGG
1 AAAAAACAAAATAAGG
418280 AAAAAACAAAATAAGG
1 AAAAAACAAAATAAGG
418296 TAAGTCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.74, C:0.06, G:0.13, T:0.06
Consensus pattern (16 bp):
AAAAAACAAAATAAGG
Found at i:420103 original size:168 final size:168
Alignment explanation
Indices: 419825--420160 Score: 672
Period size: 168 Copynumber: 2.0 Consensus size: 168
419815 CAACCATTGG
419825 ATTGTATCATTTGTATTTATTGAATATGTATAATTAAATAAAGATCATCATTACTCCTACTTACT
1 ATTGTATCATTTGTATTTATTGAATATGTATAATTAAATAAAGATCATCATTACTCCTACTTACT
419890 AGCAATATAGATTCTAAAAATTAGTACTATTGATAACTACAATAGATAACTTGGGAATAAAATAT
66 AGCAATATAGATTCTAAAAATTAGTACTATTGATAACTACAATAGATAACTTGGGAATAAAATAT
419955 TGTCATGTATACTATGATAACTTGGTACTTGGCATAGC
131 TGTCATGTATACTATGATAACTTGGTACTTGGCATAGC
419993 ATTGTATCATTTGTATTTATTGAATATGTATAATTAAATAAAGATCATCATTACTCCTACTTACT
1 ATTGTATCATTTGTATTTATTGAATATGTATAATTAAATAAAGATCATCATTACTCCTACTTACT
420058 AGCAATATAGATTCTAAAAATTAGTACTATTGATAACTACAATAGATAACTTGGGAATAAAATAT
66 AGCAATATAGATTCTAAAAATTAGTACTATTGATAACTACAATAGATAACTTGGGAATAAAATAT
420123 TGTCATGTATACTATGATAACTTGGTACTTGGCATAGC
131 TGTCATGTATACTATGATAACTTGGTACTTGGCATAGC
420161 TAGTTCTTGG
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (168 bp):
ATTGTATCATTTGTATTTATTGAATATGTATAATTAAATAAAGATCATCATTACTCCTACTTACT
AGCAATATAGATTCTAAAAATTAGTACTATTGATAACTACAATAGATAACTTGGGAATAAAATAT
TGTCATGTATACTATGATAACTTGGTACTTGGCATAGC
Found at i:423195 original size:18 final size:18
Alignment explanation
Indices: 423145--423195 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
423135 ACCCCATCTG
* * *
423145 CTAGTCCATTACAATCTC
1 CTAGTCCTTTACCATATC
*
423163 CTAG-CCATTTTCCATATC
1 CTAGTCC-TTTACCATATC
423181 CTAGTCCTTTACCAT
1 CTAGTCCTTTACCAT
423196 TGAAGATACT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (18 bp):
CTAGTCCTTTACCATATC
Found at i:424561 original size:11 final size:11
Alignment explanation
Indices: 424535--424633 Score: 74
Period size: 11 Copynumber: 8.5 Consensus size: 11
424525 TATATTTTAG
*
424535 TTATTTGCAATA
1 TTATTT-CATTA
424547 TTATTTCATTA
1 TTATTTCATTA
*
424558 TTATTT-TTTA
1 TTATTTCATTA
* *
424568 TAAATGTTTAAATTA
1 T---TATTTCA-TTA
424583 TTATGTTCATTA
1 TTAT-TTCATTA
424595 TTATGTTCATTA
1 TTAT-TTCATTA
*
424607 TTATTTTATTA
1 TTATTTCATTA
*
424618 TTATTTTATTA
1 TTATTTCATTA
424629 TTATT
1 TTATT
424634 ACTTAGTCAT
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
10 4 0.05
11 32 0.43
12 27 0.36
13 7 0.09
15 4 0.05
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (11 bp):
TTATTTCATTA
Found at i:424597 original size:15 final size:12
Alignment explanation
Indices: 424579--424632 Score: 76
Period size: 11 Copynumber: 4.7 Consensus size: 12
424569 AAATGTTTAA
424579 ATTATTATGTTC
1 ATTATTATGTTC
424591 ATTATTATGTTC
1 ATTATTATGTTC
*
424603 ATTATTAT-TTT
1 ATTATTATGTTC
*
424614 ATTATTAT-TTT
1 ATTATTATGTTC
424625 ATTATTAT
1 ATTATTAT
424633 TACTTAGTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
11 21 0.51
12 20 0.49
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.65
Consensus pattern (12 bp):
ATTATTATGTTC
Found at i:424609 original size:3 final size:3
Alignment explanation
Indices: 424603--424634 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
424593 TATTATGTTC
424603 ATT ATT ATT -TT ATT ATT ATT -TT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
424635 CTTAGTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:424617 original size:8 final size:9
Alignment explanation
Indices: 424603--424634 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
424593 TATTATGTTC
424603 ATTATTATT
1 ATTATTATT
424612 -TTATTATT
1 ATTATTATT
424620 ATT-TTATT
1 ATTATTATT
424628 ATTATTA
1 ATTATTA
424635 CTTAGTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTATTATT
Found at i:432589 original size:9 final size:9
Alignment explanation
Indices: 432575--432604 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
432565 AAATGTAAAT
432575 CATTTTTTA
1 CATTTTTTA
432584 CA-TTTTTA
1 CATTTTTTA
432592 CATTTTTTA
1 CATTTTTTA
432601 CATT
1 CATT
432605 CATTATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.63
Consensus pattern (9 bp):
CATTTTTTA
Found at i:436156 original size:13 final size:13
Alignment explanation
Indices: 436138--436171 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
436128 ATATTATGCT
436138 TGAAGAAAAAAAA
1 TGAAGAAAAAAAA
436151 TGAAG-AAAAAAA
1 TGAAGAAAAAAAA
436163 TGAA-AAAAA
1 TGAAGAAAAA
436172 TGAAAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (13 bp):
TGAAGAAAAAAAA
Found at i:436199 original size:2 final size:2
Alignment explanation
Indices: 436192--436216 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
436182 AAATGATGAA
436192 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
436217 GAAAAGGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:436574 original size:21 final size:19
Alignment explanation
Indices: 436550--436608 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
436540 TATTATTTAT
436550 TTCAAGATTATTTTTTTGAAA
1 TTCAA-ATTATTTTTTT-AAA
*
436571 TTCAAATTCTTTTGTTCTAAA
1 TTCAAATTATTTT-TT-TAAA
*
436592 TTCAATTTATTTTTTTA
1 TTCAAATTATTTTTTTA
436609 CATAAACATC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 9 0.27
21 21 0.64
22 1 0.03
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (19 bp):
TTCAAATTATTTTTTTAAA
Found at i:437912 original size:114 final size:114
Alignment explanation
Indices: 437706--438380 Score: 848
Period size: 114 Copynumber: 6.1 Consensus size: 114
437696 TAGAAAAGAT
* * *
437706 TTGAATTCATCATTCGATGGATCAAC--ATTTCCAGAAG-TGTTCATAATGTGAAGAACTCATCT
1 TTGAATTCATCATTCGATGGATCAACTGA-TTCCAGAGGAAGTTCATAATGAGAAGAACTCATCT
* *
437768 GAAGAAGGAAGAAGAAGTTCATCATAAGAAGAACTTGTTTAACCTTTTGC
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
* * *
437818 TTGAATTCATCATTCGATGAATCAACTGATTCCAGAGGAAGTTCCTAATGAGAACAACTCATCTG
1 TTGAATTCATCATTCGATGGATCAACTGATTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTG
*
437883 AAGAAGGAAAAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTG-
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
*
437931 TGTGAATTCATCATTCGATGGATCAACTGATTCTAGAGGAAGTTCATAATGAGAAGAACTCATCT
1 T-TGAATTCATCATTCGATGGATCAACTGATTCCAGAGGAAGTTCATAATGAGAAGAACTCATCT
*
437996 GAAGAAGGAAGAAGAAGTTCATAATGAGAAAAACTTGTTTAACCTTTTGC
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
* *
438046 TTGAATTCATCATTCGATGGATCAACTGATTCCAGAGGAAGTTCATAATGGGAAGAACTCATATG
1 TTGAATTCATCATTCGATGGATCAACTGATTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTG
*
438111 AAG-AGGAAGAAGAAG-TCATAATGAGAAGAACTTGTTTAAACCTTTTTC
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT-AACCTTTTGC
* * *
438159 TTGAATTCATCACTCGATGGATC-AC-CATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCATC
1 TTGAATTCATCATTCGATGGATCAACTGATT-CCAGAGGA-AGTTCATAATGAGAAGAACTCATC
* * *
438221 TGAAGAATG-AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC-TTAGC
64 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
* * *
438270 TTG-A-T-A--A----ATGGATCAAC--ATTTCCAGAAG-TGTTCATAATAAGAAGAACTCATCT
1 TTGAATTCATCATTCGATGGATCAACTGA-TTCCAGAGGAAGTTCATAATGAGAAGAACTCATCT
* * * *
438323 ---GAA-GAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGC
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
438369 TTG-ATTACATCA
1 TTGAATT-CATCA
438381 CAGAAGGAGA
Statistics
Matches: 506, Mismatches: 37, Indels: 48
0.86 0.06 0.08
Matches are distributed among these distances:
97 1 0.00
98 35 0.07
99 8 0.02
100 1 0.00
101 23 0.05
102 13 0.03
103 4 0.01
104 1 0.00
106 1 0.00
108 1 0.00
109 1 0.00
110 1 0.00
111 11 0.02
112 91 0.18
113 75 0.15
114 238 0.47
115 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (114 bp):
TTGAATTCATCATTCGATGGATCAACTGATTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGC
Found at i:438313 original size:101 final size:99
Alignment explanation
Indices: 438175--438361 Score: 277
Period size: 98 Copynumber: 1.9 Consensus size: 99
438165 TCATCACTCG
* * *
438175 ATGGATCACCATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAATGAGAAGAAGTT
1 ATGGATCAACATTGCCAGGAAGAGTTCATAATAAGAAGAACTCATCTGAAG-A--AGAAGAAGTT
438240 CATAATGAGAAGAACTTGTTCAACCTTAGCTTGATAA
63 CATAATGAGAAGAACTTGTTCAACCTTAGCTTGATAA
* * *
438277 ATGGATCAACATTTCCA-GAAGTGTTCATAATAAGAAGAACTCATCTGAAGAAGAATAAGTTCAT
1 ATGGATCAACATTGCCAGGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGAAGAAGTTCAT
*
438341 AATGAGAAGAATTTGTTCAAC
66 AATGAGAAGAACTTGTTCAAC
438362 TTTTTGCTTG
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 32 0.41
100 1 0.01
101 30 0.38
102 15 0.19
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (99 bp):
ATGGATCAACATTGCCAGGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTAGCTTGATAA
Found at i:438598 original size:10 final size:10
Alignment explanation
Indices: 438583--438615 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
438573 TTTTCAATTG
438583 ATTATTATAT
1 ATTATTATAT
438593 ATTATTATAT
1 ATTATTATAT
438603 ATTATTAT-T
1 ATTATTATAT
438612 ATTA
1 ATTA
438616 ATAAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.22
10 18 0.78
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTATTATAT
Found at i:438608 original size:13 final size:14
Alignment explanation
Indices: 438583--438615 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
438573 TTTTCAATTG
438583 ATTATTATA-TATT
1 ATTATTATATTATT
438596 ATTA-TATATTATT
1 ATTATTATATTATT
438609 ATTATTA
1 ATTATTA
438616 ATAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 12 0.67
14 2 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTATTATATTATT
Found at i:438624 original size:20 final size:20
Alignment explanation
Indices: 438583--438628 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
438573 TTTTCAATTG
* *
438583 ATTATTATATATTATTATAT
1 ATTATTATATATTATAAAAT
438603 ATTATTAT-TATTAATAAAAT
1 ATTATTATATATT-ATAAAAT
438623 ATTATT
1 ATTATT
438629 TACAAACAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTATTATATATTATAAAAT
Found at i:439743 original size:66 final size:65
Alignment explanation
Indices: 439622--439748 Score: 152
Period size: 66 Copynumber: 1.9 Consensus size: 65
439612 TATTTATATA
* * *
439622 AATAATTTAGGTAAAATATGTATTTAGTCCTTACACTTTTAATAATATTTATTTTAATCCCGACT
1 AATAATTTAGGTAAAATATGTATTTAATCCTTAAACTTTTAATAAAATTTATTTTAATCCCGACT
* *
439687 AATAATTTAGGT-AAATAT-TATAATTAATCCCTTATAAC-TTTATTAAAATTTATTTTAGTCCC
1 AATAATTTAGGTAAAATATGTAT--TTAAT-CCTTA-AACTTTTAATAAAATTTATTTTAATCCC
439749 ATATTAATAT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
63 3 0.06
64 6 0.11
65 16 0.30
66 26 0.49
67 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (65 bp):
AATAATTTAGGTAAAATATGTATTTAATCCTTAAACTTTTAATAAAATTTATTTTAATCCCGACT
Found at i:440071 original size:29 final size:28
Alignment explanation
Indices: 440021--440076 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
440011 ATATATATAT
*
440021 ATATATATAATATTTATTTATTTATTTTC
1 ATATATATAATATTTATATA-TTATTTTC
*
440050 ATATTTATAA-ATTTAATATATTATTTT
1 ATATATATAATATTT-ATATATTATTTT
440077 TAAATCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (28 bp):
ATATATATAATATTTATATATTATTTTC
Found at i:440897 original size:2 final size:2
Alignment explanation
Indices: 440885--440914 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
440875 TGTTTTGTTT
*
440885 TA TA TA CA 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
440915 ATCCTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:441041 original size:9 final size:9
Alignment explanation
Indices: 441029--441092 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
441019 ATAATATATA
441029 ATTATTTTT
1 ATTATTTTT
441038 ATTATTTGTT
1 ATTATTT-TT
*
441048 TTTATTTTT
1 ATTATTTTT
441057 ATT-TTTATT
1 ATTATTT-TT
**
441066 ATTCGTTTT
1 ATTATTTTT
441075 ATT-TATTTT
1 ATTAT-TTTT
441084 ATTTATTTT
1 A-TTATTTT
441093 GTTTTTTCAG
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
8 3 0.07
9 26 0.58
10 15 0.33
11 1 0.02
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.77
Consensus pattern (9 bp):
ATTATTTTT
Found at i:441051 original size:13 final size:13
Alignment explanation
Indices: 441033--441098 Score: 61
Period size: 13 Copynumber: 5.4 Consensus size: 13
441023 TATATAATTA
441033 TTTTTATTATTTG
1 TTTTTATTATTTG
*
441046 TTTTTATT-TTTA
1 TTTTTATTATTTG
*
441058 TTTTTATTATTCG
1 TTTTTATTATTTG
441071 -TTTTATTTATTT-
1 TTTTTA-TTATTTG
*
441083 TATTTA-T-TTTG
1 TTTTTATTATTTG
441094 TTTTT
1 TTTTT
441099 TCAGGTCCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
10 3 0.07
11 5 0.12
12 16 0.37
13 19 0.44
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.79
Consensus pattern (13 bp):
TTTTTATTATTTG
Found at i:441064 original size:25 final size:23
Alignment explanation
Indices: 441030--441098 Score: 79
Period size: 25 Copynumber: 2.9 Consensus size: 23
441020 TAATATATAA
441030 TTATTTTTATTATTTGTTTTTATTT
1 TTATTTTTATTATTTGTTTTTA--T
*
441055 TTATTTTTATTATTCG-TTTTAT
1 TTATTTTTATTATTTGTTTTTAT
441077 TTA-TTTTATTTATTTTGTTTTT
1 TTATTTTTA-TTA-TTTGTTTTT
441099 TCAGGTCCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 5 0.13
22 7 0.18
23 3 0.08
24 9 0.23
25 15 0.38
ACGTcount: A:0.16, C:0.01, G:0.04, T:0.78
Consensus pattern (23 bp):
TTATTTTTATTATTTGTTTTTAT
Found at i:442584 original size:12 final size:12
Alignment explanation
Indices: 442567--442591 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
442557 TCGAATCGGG
442567 TAATTTAAATTT
1 TAATTTAAATTT
442579 TAATTTAAATTT
1 TAATTTAAATTT
442591 T
1 T
442592 CTAATTTTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAATTTAAATTT
Found at i:445649 original size:25 final size:25
Alignment explanation
Indices: 445600--445646 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
445590 TAATAATTAT
* *
445600 TTTTTTTTATAATTTTTATATTTAA
1 TTTTTTCTATAATTTGTATATTTAA
445625 TTTTTTCTAT-ATTTGTATATTT
1 TTTTTTCTATAATTTGTATATTT
445647 TAAATTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (25 bp):
TTTTTTCTATAATTTGTATATTTAA
Found at i:447849 original size:28 final size:28
Alignment explanation
Indices: 447809--447889 Score: 126
Period size: 28 Copynumber: 2.9 Consensus size: 28
447799 AAAGGACCAC
*
447809 TATGTCCCGAAGGACCACATAGAACACG
1 TATGTCCCGAAGGACCACATAGAACACA
*
447837 TATGTCCCAAAGGACCACATAGAACACA
1 TATGTCCCGAAGGACCACATAGAACACA
* *
447865 TATGTCCCGAAGGACTACGTAGAAC
1 TATGTCCCGAAGGACCACATAGAAC
447890 CCTCGACTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.16
Consensus pattern (28 bp):
TATGTCCCGAAGGACCACATAGAACACA
Found at i:451970 original size:15 final size:15
Alignment explanation
Indices: 451950--451979 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
451940 CACATACACA
451950 CTCATTCATATTATC
1 CTCATTCATATTATC
*
451965 CTCATTCCTATTATC
1 CTCATTCATATTATC
451980 ATATGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (15 bp):
CTCATTCATATTATC
Found at i:452241 original size:28 final size:28
Alignment explanation
Indices: 452201--452281 Score: 117
Period size: 28 Copynumber: 2.9 Consensus size: 28
452191 GAAGGACCAC
* *
452201 TATGTCCTGAAGGACCACATAGAATACA
1 TATGTCCTAAAGGACCACATAGAACACA
* *
452229 TATGTCCCAAAGGACCACATAGAACATA
1 TATGTCCTAAAGGACCACATAGAACACA
*
452257 TATGTCCTAAAGGACCACGTAGAAC
1 TATGTCCTAAAGGACCACATAGAAC
452282 CCTCGACTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (28 bp):
TATGTCCTAAAGGACCACATAGAACACA
Found at i:452469 original size:21 final size:21
Alignment explanation
Indices: 452429--452469 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
452419 ACGTATCACA
*
452429 TATTTTTTTCACATTTACTCG
1 TATTTTTTTCACATTAACTCG
452450 TATTCTTTTTCACA-TAACTC
1 TATT-TTTTTCACATTAACTC
452470 ATAGTCATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.22, C:0.22, G:0.02, T:0.54
Consensus pattern (21 bp):
TATTTTTTTCACATTAACTCG
Found at i:452518 original size:25 final size:24
Alignment explanation
Indices: 452490--452537 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 24
452480 GTCTTATCTC
452490 ATAA-CATATACATGTTCTTATATAT
1 ATAATCATA-ACAT-TTCTTATATAT
452515 ATAATTCATAACATTTCTTATAT
1 ATAA-TCATAACATTTCTTATAT
452538 CATCACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 13 0.62
26 4 0.19
27 4 0.19
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (24 bp):
ATAATCATAACATTTCTTATATAT
Found at i:454869 original size:22 final size:21
Alignment explanation
Indices: 454838--454959 Score: 55
Period size: 22 Copynumber: 5.5 Consensus size: 21
454828 TGCATATGGG
*
454838 TGCATTATTGGCATGAAATGA
1 TGCATAATTGGCATGAAATGA
** * *
454859 TGCCATAATTGAAATGCATATGGG
1 TG-CATAATTGGCATG-AAAT-GA
* *
454883 TGCATTATTGGCATGAAAGGA
1 TGCATAATTGGCATGAAATGA
*** * *
454904 TGTCATAATTTAAATGCATATGGG
1 TG-CATAATTGGCATG-AAAT-GA
* *
454928 TGCATTATTGGCATTAAATGA
1 TGCATAATTGGCATGAAATGA
454949 TGCCATAATTG
1 TG-CATAATTG
454960 AAATGCATAT
Statistics
Matches: 68, Mismatches: 26, Indels: 13
0.64 0.24 0.12
Matches are distributed among these distances:
21 8 0.12
22 31 0.46
23 23 0.34
24 6 0.09
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (21 bp):
TGCATAATTGGCATGAAATGA
Found at i:454890 original size:45 final size:45
Alignment explanation
Indices: 454826--454996 Score: 261
Period size: 45 Copynumber: 3.8 Consensus size: 45
454816 TGATTAAAAT
*
454826 AATGCATATGGGTGCATTATTGGCATGAAATGATGCCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* *
454871 AATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAATTTA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* *
454916 AATGCATATGGGTGCATTATTGGCATTAAATGATGCCATAATTGA
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
* * **
454961 AATGCATATTGGTGTATTATTATCATGAAAGGATGC
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGC
454997 TGTTCGGATT
Statistics
Matches: 113, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 113 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAATTGA
Found at i:454892 original size:23 final size:23
Alignment explanation
Indices: 454826--454937 Score: 79
Period size: 22 Copynumber: 5.0 Consensus size: 23
454816 TGATTAAAAT
*
454826 AATGCATATGGGTGCATTATTGG
1 AATGCATATGGGTGCATTATTGA
* * * *
454849 CATG-AAAT-GATGCCATAATTGA
1 AATGCATATGGGTG-CATTATTGA
*
454871 AATGCATATGGGTGCATTATTGG
1 AATGCATATGGGTGCATTATTGA
* * * * *
454894 CATG-A-AAGGATGTCATAATTTA
1 AATGCATATGGGTG-CATTATTGA
454916 AATGCATATGGGTGCATTATTG
1 AATGCATATGGGTGCATTATTG
454938 GCATTAAATG
Statistics
Matches: 62, Mismatches: 21, Indels: 12
0.65 0.22 0.13
Matches are distributed among these distances:
21 8 0.13
22 23 0.37
23 23 0.37
24 8 0.13
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (23 bp):
AATGCATATGGGTGCATTATTGA
Found at i:454980 original size:90 final size:90
Alignment explanation
Indices: 454826--454995 Score: 295
Period size: 90 Copynumber: 1.9 Consensus size: 90
454816 TGATTAAAAT
454826 AATGCATATGGGTGCATTATTGGCATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTATTGGCATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTAT
*
454891 TGGCATGAAAGGATGTCATAATTTA
66 TAGCATGAAAGGATGTCATAATTTA
* * *
454916 AATGCATATGGGTGCATTATTGGCATTAAATGATGCCATAATTGAAATGCATATTGGTGTATTAT
1 AATGCATATGGGTGCATTATTGGCATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTAT
*
454981 TATCATGAAAGGATG
66 TAGCATGAAAGGATG
454996 CTGTTCGGAT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 75 1.00
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.34
Consensus pattern (90 bp):
AATGCATATGGGTGCATTATTGGCATGAAATGATGCCATAATTGAAATGCATATGGGTGCATTAT
TAGCATGAAAGGATGTCATAATTTA
Found at i:455613 original size:21 final size:21
Alignment explanation
Indices: 455588--455628 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
455578 CCATAACAGG
455588 GGGTATCGGTACCCCTTCATA
1 GGGTATCGGTACCCCTTCATA
*
455609 GGGTATCGGTACTCCTTCAT
1 GGGTATCGGTACCCCTTCAT
455629 TAAATTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (21 bp):
GGGTATCGGTACCCCTTCATA
Found at i:455802 original size:36 final size:37
Alignment explanation
Indices: 455734--455805 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
455724 AGCAGTCATA
*
455734 GATGTATGGATACACCTGCATGGGGTATCGATACACC
1 GATGTATGAATACACCTGCATGGGGTATCGATACACC
455771 GATGTATGAATACA-CT-CATAGGGGTATCGATACAC
1 GATGTATGAATACACCTGCAT-GGGGTATCGATACAC
455806 ATTTGCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 3 0.09
36 17 0.52
37 13 0.39
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (37 bp):
GATGTATGAATACACCTGCATGGGGTATCGATACACC
Found at i:456042 original size:21 final size:19
Alignment explanation
Indices: 456018--456075 Score: 82
Period size: 21 Copynumber: 3.0 Consensus size: 19
456008 ATGTTTAATG
456018 AAAAAGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
456037 ACAAAATGATATCAATTGTT-
1 A-AAAA-GATATCAATTGTTA
*
456057 AAAAAGATACCAATTGTTA
1 AAAAAGATATCAATTGTTA
456076 CCAATTGTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 12 0.34
19 5 0.14
20 5 0.14
21 13 0.37
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (19 bp):
AAAAAGATATCAATTGTTA
Found at i:456065 original size:18 final size:18
Alignment explanation
Indices: 456018--456075 Score: 80
Period size: 18 Copynumber: 3.1 Consensus size: 18
456008 ATGTTTAATG
456018 AAAAAGATATCAATTGTT
1 AAAAAGATATCAATTGTT
456036 AACAAAATGATATCAATTGTT
1 -A-AAAA-GATATCAATTGTT
*
456057 AAAAAGATACCAATTGTT
1 AAAAAGATATCAATTGTT
456075 A
1 A
456076 CCAATTGTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 13 0.36
19 5 0.14
20 5 0.14
21 13 0.36
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (18 bp):
AAAAAGATATCAATTGTT
Found at i:463188 original size:24 final size:22
Alignment explanation
Indices: 463161--463206 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
463151 TGACCGTTAA
*
463161 AATAAGATAGATATGATATAATTT
1 AATAAAATA-ATAT-ATATAATTT
*
463185 AATAAAATAATATATTTAATTT
1 AATAAAATAATATATATAATTT
463207 TTTAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 4 0.20
24 8 0.40
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (22 bp):
AATAAAATAATATATATAATTT
Found at i:463261 original size:14 final size:15
Alignment explanation
Indices: 463234--463262 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
463224 TGTCAAGCTG
463234 ACATTAATTTAAAAT
1 ACATTAATTTAAAAT
463249 ACATTAA-TTAAAAT
1 ACATTAATTTAAAAT
463263 TTAGAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
ACATTAATTTAAAAT
Found at i:464235 original size:37 final size:36
Alignment explanation
Indices: 464202--464274 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
464192 TTTTTATATT
464202 TTTAATTTTGTAAAAAAAATTACATAAATTTTATCAA
1 TTTAATTTTGTAAAAAAAA-TACATAAATTTTATCAA
* * *
464239 TTTAATTTTTTAAAGAAAATATATAAATATTT-TCAA
1 TTTAATTTTGTAAAAAAAATACATAAAT-TTTATCAA
464275 CTTGTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 12 0.38
37 20 0.62
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAAATACATAAATTTTATCAA
Found at i:464420 original size:15 final size:15
Alignment explanation
Indices: 464400--464455 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
464390 CAAAATACAA
464400 CATTCCCAGTAATCT
1 CATTCCCAGTAATCT
464415 CATTCCCAGTAATC-
1 CATTCCCAGTAATCT
*
464429 CTATTCCCTGGTAATCTT
1 C-ATTCCC-AGTAATC-T
464447 ACATTCCCA
1 -CATTCCCA
464456 TTGGTAATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 1 0.03
15 20 0.59
16 6 0.18
18 6 0.18
19 1 0.03
ACGTcount: A:0.25, C:0.34, G:0.07, T:0.34
Consensus pattern (15 bp):
CATTCCCAGTAATCT
Found at i:464454 original size:18 final size:19
Alignment explanation
Indices: 464431--464468 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
464421 CAGTAATCCT
464431 ATTCCC-TGGTAATCTTAC
1 ATTCCCATGGTAATCTTAC
464449 ATTCCCATTGGTAATCTTAC
1 ATTCCCA-TGGTAATCTTAC
464469 GTTCTGTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (19 bp):
ATTCCCATGGTAATCTTAC
Found at i:464762 original size:16 final size:16
Alignment explanation
Indices: 464741--464773 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
464731 TCACCATTAC
*
464741 TAGGGATGGCAATGGG
1 TAGGGATGGCAACGGG
464757 TAGGGATGGCAACGGG
1 TAGGGATGGCAACGGG
464773 T
1 T
464774 TGGGTATTGG
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:0.24, C:0.09, G:0.48, T:0.18
Consensus pattern (16 bp):
TAGGGATGGCAACGGG
Found at i:464961 original size:17 final size:17
Alignment explanation
Indices: 464939--464995 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
464929 CGGGCCGGGT
464939 ATATATATTTAAATTAA
1 ATATATATTTAAATTAA
* *
464956 ATATATAAATATTATATATAT
1 ATATAT--AT-TTAAAT-TAA
*
464977 ATATATATTTAATTTAA
1 ATATATATTTAAATTAA
464994 AT
1 AT
464996 TAAATTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
17 10 0.32
18 4 0.13
19 4 0.13
20 5 0.16
21 8 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATATTTAAATTAA
Done.