Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008559.1 Hibiscus syriacus cultivar Beakdansim tig00111466_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: 490547
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 2 of 3
Found at i:177038 original size:199 final size:195
Alignment explanation
Indices: 176609--177112 Score: 577
Period size: 198 Copynumber: 2.5 Consensus size: 195
176599 GTATTTTTGA
* *
176609 ATCGATATAATTTTAAATATATCGACACTTTATGCTTGCACCTCGTTGGGCATTCCTAATTCATT
1 ATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTT-GG---T--T-ATTCATT
* * * *
176674 TTGGAAAAAAATATCAACACAAACTATAAAGGTGTCGATACATTATTTAGACCTATTTTCTCATA
59 TTGGAAAAAAGTATCGACACAAA-T-TAAAAGTGTCGATACTTTATTTAGACCTATTTTCTCATA
* * * * * * *
176739 AAACATATATATTTATACCATGTACATTGTAAATTTACCTATAACATTGTAATTTTCGTTTCAAT
122 AAACAGATAAATTTAAACCATGTACATTATAAATTGACCTATAACATTATAATTATCGTTTCAAT
176804 GTTTTTGGG
187 GTTTTTGGG
* * *
176813 ATCGATACAATTTTAAATGTATCGACACGTTATTCTTGCACCTCGTTGGTTATTCATTATGGACA
1 ATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGTTATTCATTTTGGA-A
* *
176878 AAATGTATCGACACAAATTACACAAGTGTCGATACTTTATTCT-GACCTATTTTCTCATAAAACC
65 AAAAGTATCGACACAAATTA-A-AAGTGTCGATACTTTATT-TAGACCTATTTTCTCATAAAACA
* * *
176942 GGTAAATTTAAACCGAT-TACATTATAAATTGACCTATTACATTATAATTATCGGTTTCGATGTT
127 GATAAATTTAAACC-ATGTACATTATAAATTGACCTATAACATTATAATTATC-GTTTCAATGTT
*
177006 TTTGTG
190 TTTGGG
* * *
177012 ATCGATACAATTTTAAATGTATCGACACTTTATGCGTGAACCT-GCTTGTGCT-TTC-TTTTGGA
1 ATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCG-TTG-GTTATTCATTTTGGA
177074 AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACTTT
64 AAAAAGTATCGACACAAA-TT-AAAAGTGTCGATACTTT
177113 CTGTTGACTT
Statistics
Matches: 261, Mismatches: 29, Indels: 27
0.82 0.09 0.09
Matches are distributed among these distances:
196 2 0.01
197 45 0.17
198 102 0.39
199 64 0.25
200 3 0.01
203 2 0.01
204 43 0.16
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (195 bp):
ATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACCTCGTTGGTTATTCATTTTGGAAA
AAAGTATCGACACAAATTAAAAGTGTCGATACTTTATTTAGACCTATTTTCTCATAAAACAGATA
AATTTAAACCATGTACATTATAAATTGACCTATAACATTATAATTATCGTTTCAATGTTTTTGGG
Found at i:177229 original size:197 final size:199
Alignment explanation
Indices: 176609--177236 Score: 544
Period size: 198 Copynumber: 3.1 Consensus size: 199
176599 GTATTTTTGA
* * * * *
176609 ATCGATATAATTTTAAATATATCGACACTTTATGCTTGCACCTCGTTGGGCATTCCTAATTCATT
1 ATCGATACAATTTTAAATGTATCGACACGTTATGCGTGAACCTCGTT-GG-----CT-ATTCATT
* * * * * * * * *
176674 TTGGA-AAAAAATATCAACACAAACTATAAAGGTGTCGATACATTATT-TAGACCTATTTTCTCA
59 ATGGACAAAAAGTATCGACACAAATTACAAAAGTGTCGATACTTTATTCT-GACCTATTTTATAA
*** * * * * *
176737 TAAAACATATATATTTATACC-ATGTACATTGTAAATTTACCTATAACATTGTAATT-TTCGTTT
123 TAAAACCGGTAAATGTAAACCGAT-TACATTGTAAATTTACCTATTACATTATAATTATTCGTTT
176800 CAATGTTTTTGGG
187 CAATGTTTTTGGG
* * * *
176813 ATCGATACAATTTTAAATGTATCGACACGTTATTCTTGCACCTCGTTGGTTATTCATTATGGACA
1 ATCGATACAATTTTAAATGTATCGACACGTTATGCGTGAACCTCGTTGGCTATTCATTATGGACA
* * * *
176878 AAATGTATCGACACAAATTACACAAGTGTCGATACTTTATTCTGACCTATTTTCTCATAAAACCG
66 AAAAGTATCGACACAAATTACAAAAGTGTCGATACTTTATTCTGACCTATTTTATAATAAAACCG
* * * *
176943 GTAAATTTAAACCGATTACATTATAAATTGACCTATTACATTATAATTA-TCGGTTTCGATGTTT
131 GTAAATGTAAACCGATTACATTGTAAATTTACCTATTACATTATAATTATTC-GTTTCAATGTTT
*
177007 TTGTG
195 TTGGG
* *
177012 ATCGATACAATTTTAAATGTATCGACACTTTATGCGTGAACCT-GCTTGTGCT-TTC-TTTTGGA
1 ATCGATACAATTTTAAATGTATCGACACGTTATGCGTGAACCTCG-TTG-GCTATTCATTATGGA
* * * *
177074 -AAAAAGTATCGACACAAACTTA-AAAAGTGTCGATACTTTCTGT-TGACTTGTTTTATAAT-TA
64 CAAAAAGTATCGACACAAA-TTACAAAAGTGTCGATACTTTAT-TCTGACCTATTTTATAATAAA
* * * * * ** *
177135 ACCGGTATATGTATACTGGTTACATTGTTAATTTAAATATTACATTATAATTATTTGTTTCAATG
127 ACCGGTAAATGTAAACCGATTACATTGTAAATTTACCTATTACATTATAATTATTCGTTTCAATG
*
177200 CTTTTGGG
192 TTTTTGGG
* **
177208 GTCGATA-TTTTTTAAAAATGTATCGACAC
1 ATCGATACAATTTT--AAATGTATCGACAC
177237 ATATTCTTAC
Statistics
Matches: 356, Mismatches: 56, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
195 4 0.01
196 64 0.18
197 72 0.20
198 106 0.30
199 63 0.18
200 2 0.01
203 2 0.01
204 43 0.12
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (199 bp):
ATCGATACAATTTTAAATGTATCGACACGTTATGCGTGAACCTCGTTGGCTATTCATTATGGACA
AAAAGTATCGACACAAATTACAAAAGTGTCGATACTTTATTCTGACCTATTTTATAATAAAACCG
GTAAATGTAAACCGATTACATTGTAAATTTACCTATTACATTATAATTATTCGTTTCAATGTTTT
TGGG
Found at i:177993 original size:18 final size:18
Alignment explanation
Indices: 177970--178005 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
177960 TGATATCGAT
177970 GAGGCAACAACATTGAAA
1 GAGGCAACAACATTGAAA
*
177988 GAGGCAACAGCATTGAAA
1 GAGGCAACAACATTGAAA
178006 TAGGACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.25, T:0.11
Consensus pattern (18 bp):
GAGGCAACAACATTGAAA
Found at i:178989 original size:199 final size:199
Alignment explanation
Indices: 178629--179423 Score: 1055
Period size: 199 Copynumber: 4.0 Consensus size: 199
178619 AGACATTTGG
* *
178629 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACAATTGTTATAAATGTATCGAAACTTTATT-
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT-TTA
* * * * *
178693 GTGCACTTGGTTTTTAAAATATAGTCTGGACAAAAATGTATCGAAACTTGATGTATTTGTGTCGA
65 GTGCACTTGG-TTTTGAAATACAGTCTGGACAAAAA-GTATCGACACTTGTTATATTTGTGTCGA
** * * * * * * *
178758 TACTTCATGTATACCTATTTTCTCATAAACCGGTACATTTAGACTGGTTACATTGTTAATTTTAC
128 TACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTGATAA-TTTAC
178823 CTATTACA
192 CTATTACA
*
178831 TTATAATTATAG-TTTTCAATGTTTTTGGGATCGACACTTGTTAT-AATGTATCGACACTTTTTA
1 TTATAATTAT-GTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA
* * * *
178894 GTGCACTTGGTTTTGAAATACATTATGGAGAAAAAGTATCGGCACTTGTTATATTTGTGTCGATA
65 GTGCACTTGGTTTTGAAATACAGTCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATA
* *
178959 CTTTTTGTATACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACA-TGAATAATTTACCT
130 CTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTG-ATAATTTACCT
179023 ATTACA
194 ATTACA
* * * *
179029 TTAGAATTATGTTTTTCGATGTTTTCGGGATCGACACTTATTTTAAATGTATCGACAC-TTTTAT
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA-
* * * *
179093 GTGCACTTGGTTCTGAAATACATTCTGGACCAAAAGTATCGACACTTGTTAAATTTGTGTCGATA
65 GTGCACTTGGTTTTGAAATACAGTCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATA
* *
179158 -TTGTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCT
130 CTT-TTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTGATAATTTACCT
179222 ATTACA
194 ATTACA
** * *
179228 TTATAATTATGGGTTTCGATGTTTTTGGGATTGACACTTGTTATATATGTATCGACACTTTTTAG
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
* * *
179293 TGCACTTGGTTTTGAAATACAGTCTAGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCGATAC
66 TGCACTTGGTTTTGAAATACAGTCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATAC
* * * **
179358 TTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTATATCTTTTACA-TGAATAATTTACCTA
131 TTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTG-ATAATTTACCTA
179422 TT
195 TT
179424 GATGTTTTCG
Statistics
Matches: 525, Mismatches: 57, Indels: 25
0.86 0.09 0.04
Matches are distributed among these distances:
197 1 0.00
198 61 0.12
199 366 0.70
200 31 0.06
201 25 0.05
202 40 0.08
203 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (199 bp):
TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
TGCACTTGGTTTTGAAATACAGTCTGGACAAAAAGTATCGACACTTGTTATATTTGTGTCGATAC
TTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATTGATAATTTACCTAT
TACA
Found at i:179376 original size:398 final size:400
Alignment explanation
Indices: 178633--179423 Score: 1178
Period size: 398 Copynumber: 2.0 Consensus size: 400
178623 ATTTGGTTAT
* *
178633 AATTATGTTTTTCGATGTTTTTGGGATCGACAATTGTTATAAATGTATCGAAACTTTATTGTGCA
1 AATTATGTTTTTCGATGTTTTCGGGATCGACAATTATTATAAATGTATCGAAACTTTATTGTGCA
* * **
178698 CTTGGTTTTTAAAATATAGTCTGGACAAAAATGTATCGAAACTTGATGTATTTGTGTCGATACTT
66 CTTGGTTTCTAAAATACAGTCTGGACAAAAATGTATCGAAACTTGATAAATTTGTGTCGATACTT
* * * * *
178763 CATGTATACCTATTTTCTCATAAACCGGTACATTTAGACTGGTTACATTGTTAATTTTACCTATT
131 CATGTACACATATTTTCTCAAAAACCGGTACATTTAGACCGGTTACATTGCTAATTTTACCTATT
*
178828 ACATTATAATTATAGTTTTCAATGTTTTTGGGATCGACACTTGTTATAATGTATCGACACTTTTT
196 ACATTATAATTATAGGTTTCAATGTTTTTGGGATCGACACTTGTTATAATGTATCGACACTTTTT
* * * *
178893 AGTGCACTTGGTTTTGAAATACATTATGGAGAAAAAGTATCGGCACTTGTTATATTTGTGTCGAT
261 AGTGCACTTGGTTTTGAAATACAGTATAGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCGAT
*
178958 ACTTTTTGTATACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCT
326 ACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCT
179023 ATTACATTAG
391 ATTACATTAG
* * *
179033 AATTATGTTTTTCGATGTTTTCGGGATCGACACTTATTTTAAATGTATCGACACTTT-TATGTGC
1 AATTATGTTTTTCGATGTTTTCGGGATCGACAATTATTATAAATGTATCGAAACTTTAT-TGTGC
* * * * *
179097 ACTTGG-TTCTGAAATACATTCTGGACCAAAA-GTATCGACACTTGTTAAATTTGTGTCGATA-T
65 ACTTGGTTTCTAAAATACAGTCTGGACAAAAATGTATCGAAACTTGATAAATTTGTGTCGATACT
** * * *
179159 TGTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAA-TTTACCTA
130 T-CATGTACACATATTTTCTCAAAAACCGGTACATTTAGACCGGTTACATTGCTAATTTTACCTA
* * *
179223 TTACATTATAATTATGGGTTTCGATGTTTTTGGGATTGACACTTGTTATATATGTATCGACACTT
194 TTACATTATAATTATAGGTTTCAATGTTTTTGGGATCGACACTTGTTATA-ATGTATCGACACTT
*
179288 TTTAGTGCACTTGGTTTTGAAATACAGTCTAGAGAAAAAGTATCGACACTTGTTAGATTTGTGTC
258 TTTAGTGCACTTGGTTTTGAAATACAGTATAGAGAAAAAGTATCGACACTTGTTAGATTTGTGTC
* * * *
179353 GATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTATATCTTTTACATGAATAATTTA
323 GATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTA
179418 CCTATT
388 CCTATT
179424 GATGTTTTCG
Statistics
Matches: 350, Mismatches: 38, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
397 56 0.16
398 210 0.60
399 21 0.06
400 63 0.18
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (400 bp):
AATTATGTTTTTCGATGTTTTCGGGATCGACAATTATTATAAATGTATCGAAACTTTATTGTGCA
CTTGGTTTCTAAAATACAGTCTGGACAAAAATGTATCGAAACTTGATAAATTTGTGTCGATACTT
CATGTACACATATTTTCTCAAAAACCGGTACATTTAGACCGGTTACATTGCTAATTTTACCTATT
ACATTATAATTATAGGTTTCAATGTTTTTGGGATCGACACTTGTTATAATGTATCGACACTTTTT
AGTGCACTTGGTTTTGAAATACAGTATAGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCGAT
ACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCT
ATTACATTAG
Found at i:185120 original size:19 final size:19
Alignment explanation
Indices: 185086--185122 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
185076 GTGCTTCCAA
185086 CTTTTCTTTCTTTTCTTTG
1 CTTTTCTTTCTTTTCTTTG
185105 CTTTT-TTTCTTCTTCTTT
1 CTTTTCTTTCTT-TTCTTT
185123 TCAAGTGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.00, C:0.22, G:0.03, T:0.76
Consensus pattern (19 bp):
CTTTTCTTTCTTTTCTTTG
Found at i:187537 original size:15 final size:14
Alignment explanation
Indices: 187517--187558 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
187507 AGGAGGTTGT
187517 GGTTGAGAAGAGCTA
1 GGTTGAGAAGAG-TA
*
187532 GGTTGAGAAGATGTG
1 GGTTGAGAAGA-GTA
187547 GGTTGAGAAGAG
1 GGTTGAGAAGAG
187559 ATTTGAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.45, T:0.21
Consensus pattern (14 bp):
GGTTGAGAAGAGTA
Found at i:187868 original size:21 final size:21
Alignment explanation
Indices: 187844--187889 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
187834 AACGAGTAAT
187844 TTAAAAAGGTATCGACACAAG
1 TTAAAAAGGTATCGACACAAG
* * * *
187865 TTAATAATGTGTCGATACAAG
1 TTAAAAAGGTATCGACACAAG
187886 TTAA
1 TTAA
187890 TAGTGTGTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.28
Consensus pattern (21 bp):
TTAAAAAGGTATCGACACAAG
Found at i:187890 original size:21 final size:21
Alignment explanation
Indices: 187855--187904 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
187845 TAAAAAGGTA
*
187855 TCGACACAAGTTAATAATGTG
1 TCGATACAAGTTAATAATGTG
*
187876 TCGATACAAGTTAATAGTGTG
1 TCGATACAAGTTAATAATGTG
187897 TCGATACA
1 TCGATACA
187905 TTATGATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (21 bp):
TCGATACAAGTTAATAATGTG
Found at i:188214 original size:181 final size:180
Alignment explanation
Indices: 187993--188471 Score: 733
Period size: 181 Copynumber: 2.6 Consensus size: 180
187983 TAATTCTGGA
* * *
187993 TCAACATATCCGGTATCTATTTACCGGTTTTGTCATTTTGATACTGGTTTTATCATATTTTTACC
1 TCAACATATCCGGTAACT-TTTTCCGGTTTTGTCATTTTGAGACT-GTTTTATCATATTTTTACC
* * * *
188058 TGTTATATTGTTCTGAATCGATACATTTTTATAAAGTGTCGACACTTTTTAAGCGTTATAACTTC
64 TGTTATATTGTTATGGATCGATACATTTTAATAAAGTGTCGACACTTTTTAAGCGCTATAACTTC
* * *
188123 TTCTCTTTTAAATTCATAAAGTGTCTATACTTATATTAAATTATCGACACTT
129 TTCTCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTT
*
188175 TCAACATATCCGGTAACTTTTTCCGGTTTTTTCATTTTGAGACATGTTTTATCATATTTTTACCT
1 TCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTGAGAC-TGTTTTATCATATTTTTACCT
* * *
188240 GTTATATTGGTAAGGATCGATACATTTTAATAAAGTGTCGACACTTTTTAAGTGCTATAACTTCT
65 GTTATATTGTTATGGATCGATACATTTTAATAAAGTGTCGACACTTTTTAAGCGCTATAACTTCT
*
188305 TCTCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAGTTATCGACACTT
130 TCTCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTT
* * *
188356 TCAATATATCCAGTAACTTTTTCCGGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACC
1 TCAACATATCCGGTAACTTTTTCCGGTTTTGTCA-TTTTGAGA-CTGTTTTATCATATTTTTACC
* *
188421 TGTTATATTGTTATGGATTGATACATTTTCATAAAGTGTCGACACTTTTTA
64 TGTTATATTGTTATGGATCGATACATTTTAATAAAGTGTCGACACTTTTTA
188472 GTTTAATTTC
Statistics
Matches: 271, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
181 178 0.66
182 92 0.34
183 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (180 bp):
TCAACATATCCGGTAACTTTTTCCGGTTTTGTCATTTTGAGACTGTTTTATCATATTTTTACCTG
TTATATTGTTATGGATCGATACATTTTAATAAAGTGTCGACACTTTTTAAGCGCTATAACTTCTT
CTCTTTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTT
Found at i:188597 original size:158 final size:159
Alignment explanation
Indices: 188310--188626 Score: 431
Period size: 158 Copynumber: 2.0 Consensus size: 159
188300 CTTCTTCTCT
* *
188310 TTTAAATTCAGAAAGTGTCGATACTAATATTAAGTTATCGACACTTTCAATATATCCAGTAACTT
1 TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCAGTAAC--
* *
188375 TTTCCGGTTTTGTCATTTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGATT
64 -TT-CAGTTTTGTCAATTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGATT
*
188440 GATACATTTTCATAAAGTGTCGACACTTTTTAG
127 GATACATTTTCATAAAGTATCGACACTTTTTAG
* * * *
188473 TTTAATTTCATAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTATAC-
1 TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCAGTA-ACT
* * * *
188537 T-AGTTTTGTCAATTTTGGGACCTGTTTTATCATATTTTTGCCTGTTATATTGTTGTGGATTGAT
65 TCAGTTTTGTCAATTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGATTGAT
* **
188601 ATATTTTTTTAAAGTATCGACACTTT
130 ACATTTTCATAAAGTATCGACACTTT
188627 ATAGGCGCTA
Statistics
Matches: 137, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
158 79 0.58
160 1 0.01
163 55 0.40
164 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (159 bp):
TTTAAATTCAGAAAGTGTCGATACTAATATTAAATTATCGACACTTTCAACATATCCAGTAACTT
CAGTTTTGTCAATTTTGAGACCAGTTTTATCATATTTTTACCTGTTATATTGTTATGGATTGATA
CATTTTCATAAAGTATCGACACTTTTTAG
Found at i:188839 original size:182 final size:181
Alignment explanation
Indices: 188473--189333 Score: 1001
Period size: 181 Copynumber: 4.8 Consensus size: 181
188463 CACTTTTTAG
* * *
188473 TTTAATTTCATAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTA----
1 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTATTTT
** * * * *
188534 TACTAGTTTTGTCAATTTTGGGACCTGTTTTATCATATTTTTGCCTGTTATATTGTTGTGGATTG
66 TACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCG
* ** * *
188599 ATATATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTATCT
131 ATACATTTTCATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCT
* * * *
188650 TTTAAATTTAGAAAGTTTCGATACTTATATAAAATTATCGACACTTTCAATATATCTGGTATCGT
1 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAT--T
* * *
188715 TTTACTGGTTTTGTCAATTTTGAGACCTGCTTTATCACA-TTTTACCTGTTATATTGTTATGGAT
64 TTTACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* * * * * *
188779 CAATACATTTTCATAAAGTGTCGACACTTTTTAAGAGCAATAACTTTTTCTCT
129 CGATACATTTTCATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCT
* * * * *
188832 ATTAAATTCAGAAAGTGTCGATACTTATATTAAATTATTGACACTTTTAACATATCTGGTAACTT
1 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGT-A-TT
* * * * *
188897 TTT-TCGGTTTTGTC-ATTTTTAGACCTATTTTATCATATTTTTACCTGTTATATTGGTAAGGAT
64 TTTACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* *
188960 TGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCT
129 CGATACATTTTCATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCT
* * *
189013 TTTAAATTCAGAAAGTGTT-GATACTAATATTAAATTATCGACACTTTCAATATATCCGATAATT
1 TTTAAATTCAGAAAGT-TTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGT-ATT
* * ** *
189077 TTTTCCGGTTTTGTCATTTTTGAGACCAATTTTATCATATTTTTACCTGTTATATTGTTGTGGAT
64 TTTACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGAT
* **
189142 CGATA-TTTTTTTTAAAGTATCGACA-TTTTATAGGCGCTATAACTTCTTCTCT
129 CGATACATTTTCATAAAGTATCGACACTTTT-TAGGCGCTATAACTTCTTCTCT
*
189194 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACAC--TCGACACATATCCGTTAGT
1 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTC-A-ACATATCCGGTA-T
* * * * * *
189257 GTTTTACCGGTTTTGTC-ATTTTGGGACCGGTTTTGTCATATTTGTACCTGTAATATTGCTATGG
63 -TTTTACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGG
* *
189321 AGCGATCCATTTT
127 ATCGATACATTTT
189334 TCATTTGTAT
Statistics
Matches: 583, Mismatches: 82, Indels: 33
0.84 0.12 0.05
Matches are distributed among these distances:
177 54 0.09
179 2 0.00
180 32 0.05
181 272 0.47
182 188 0.32
183 34 0.06
184 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.45
Consensus pattern (181 bp):
TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACACTTTCAACATATCCGGTATTTT
TACCGGTTTTGTCAATTTTGAGACCTGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCG
ATACATTTTCATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCT
Found at i:189270 original size:363 final size:361
Alignment explanation
Indices: 188473--189314 Score: 1024
Period size: 363 Copynumber: 2.3 Consensus size: 361
188463 CACTTTTTAG
* *
188473 TTTAATTTCATAAAGTGTCGATACTTATATTAAATTATCGACACTTTCAACATATCC---G-G-T
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACAC-TTCAACATATCCGTAGTGTT
* ** * * **
188533 ATACTAGTTTTGTCAATTTTGGGACCTGTTTTATCATATTTTTGCCTGTTATATTGTTGTGGATT
65 TTACCGGTTTTGTC-ATTTTGGGACCTGTTTTATCATATTTTTACCTGTTATATTGGTAAGGATT
* ** *
188598 GATATATTTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTATCTTTTAAATTTAGAA
129 GATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTATCTTTTAAATTCAGAA
* * * *
188663 AGTTTCGATACTTATATAAAATTATCGACACTTTCAATATATCTGGTATCGTTTTACTGGTTTTG
194 AGTTTCGATACTAATATAAAATTATCGACACTTTCAATATATCCGATATC-TTTTACCGGTTTTG
**
188728 TCAATTTTGAGACCTGCTTTATCACATTTTACCTGTTATATTGTTATGGATCAATACATTTTCAT
258 TCAATTTTGAGACCAACTTTATCACATTTTACCTGTTATATTGTTATGGATCAATACATTTTCAT
* *
188793 AAAGTGTCGACACTTTTTAAGAGCAATAACTTTTTCTCT
323 AAAGTATCGACACTTTTTAAGAGCAATAACTTCTTCTCT
* * * * *
188832 ATTAAATTCAGAAAGTGTCGATACTTATATTAAATTATTGACACTTTTAACATATCTGGTAACT-
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACAC-TTCAACATATC-CGT-AGTG
* ** *
188896 TTTT-TCGGTTTTGTCATTTTTAGACCTATTTTATCATATTTTTACCTGTTATATTGGTAAGGAT
63 TTTTACCGGTTTTGTCATTTTGGGACCTGTTTTATCATATTTTTACCTGTTATATTGGTAAGGAT
* * *
188960 TGATACATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGA
128 TGATACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTATCTTTTAAATTCAGA
* *
189025 AAGTGTT-GATACTAATATTAAATTATCGACACTTTCAATATATCCGATAAT-TTTTTCCGGTTT
193 AAGT-TTCGATACTAATATAAAATTATCGACACTTTCAATATATCCGAT-ATCTTTTACCGGTTT
* * * * * *
189088 TGTCATTTTTGAGACCAATTTTATCATATTTTTACCTGTTATATTGTTGTGGATCGATA-TTTTT
256 TGTCAATTTTGAGACCAACTTTATCACA-TTTTACCTGTTATATTGTTATGGATCAATACATTTT
** * * *
189152 TTTAAAGTATCGACA-TTTTATAGGCGCTATAACTTCTTCTCT
320 CATAAAGTATCGACACTTTT-TAAGAGCAATAACTTCTTCTCT
*
189194 TTTAAATTCAGAAAGTTTCGATACTTATATTAAATTATCGACAC-TCGACACATATCCGTTAGTG
1 TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTC-A-ACATATCCG-TAGTG
* * * *
189258 TTTTACCGGTTTTGTCATTTTGGGACCGGTTTTGTCATATTTGTACCTGTAATATTG
63 TTTTACCGGTTTTGTCATTTTGGGACCTGTTTTATCATATTTTTACCTGTTATATTG
189315 CTATGGAGCG
Statistics
Matches: 407, Mismatches: 60, Indels: 28
0.82 0.12 0.06
Matches are distributed among these distances:
359 51 0.13
360 1 0.00
361 8 0.02
362 120 0.29
363 213 0.52
364 12 0.03
365 2 0.00
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.45
Consensus pattern (361 bp):
TTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTCAACATATCCGTAGTGTTT
TACCGGTTTTGTCATTTTGGGACCTGTTTTATCATATTTTTACCTGTTATATTGGTAAGGATTGA
TACATTTTCATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTATCTTTTAAATTCAGAAAG
TTTCGATACTAATATAAAATTATCGACACTTTCAATATATCCGATATCTTTTACCGGTTTTGTCA
ATTTTGAGACCAACTTTATCACATTTTACCTGTTATATTGTTATGGATCAATACATTTTCATAAA
GTATCGACACTTTTTAAGAGCAATAACTTCTTCTCT
Found at i:189287 original size:20 final size:21
Alignment explanation
Indices: 189262--189300 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
189252 TTAGTGTTTT
189262 ACCGGTTTTGTCAT-TTTGGG
1 ACCGGTTTTGTCATATTTGGG
189282 ACCGGTTTTGTCATATTTG
1 ACCGGTTTTGTCATATTTG
189301 TACCTGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.13, C:0.15, G:0.26, T:0.46
Consensus pattern (21 bp):
ACCGGTTTTGTCATATTTGGG
Found at i:193498 original size:28 final size:29
Alignment explanation
Indices: 193461--193530 Score: 124
Period size: 28 Copynumber: 2.4 Consensus size: 29
193451 AACCCATGTT
*
193461 AATATGAGTTTTTATTTATGTACC-AAAA
1 AATATTAGTTTTTATTTATGTACCAAAAA
193489 AATATTAGTTTTTATTTATGTACCAAAAA
1 AATATTAGTTTTTATTTATGTACCAAAAA
193518 AATATTAGTTTTT
1 AATATTAGTTTTT
193531 TTATTTAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 23 0.57
29 17 0.43
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.47
Consensus pattern (29 bp):
AATATTAGTTTTTATTTATGTACCAAAAA
Found at i:194324 original size:16 final size:16
Alignment explanation
Indices: 194303--194335 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
194293 AATTATATAC
194303 TACATAATTCATCGAG
1 TACATAATTCATCGAG
194319 TACATAATTCATCGAG
1 TACATAATTCATCGAG
194335 T
1 T
194336 GACTTCAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (16 bp):
TACATAATTCATCGAG
Found at i:196233 original size:14 final size:14
Alignment explanation
Indices: 196211--196256 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
196201 CGTTCGTGAA
196211 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
*
196225 CGTTTGGTTATGTT
1 CGTTCGGTTATGTT
* *
196239 TGTTCGATTATGTT
1 CGTTCGGTTATGTT
196253 CGTT
1 CGTT
196257 TATGTTCATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.09, C:0.11, G:0.26, T:0.54
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:197015 original size:10 final size:10
Alignment explanation
Indices: 197000--197058 Score: 62
Period size: 10 Copynumber: 6.7 Consensus size: 10
196990 GGGTCTCCAA
197000 CGTTTATGTT
1 CGTTTATGTT
197010 CGTTTATGTT
1 CGTTTATGTT
197020 CG----TGTT
1 CGTTTATGTT
197026 CGTTTATGTT
1 CGTTTATGTT
197036 CG----TGTT
1 CGTTTATGTT
197042 CGTTTATGTT
1 CGTTTATGTT
197052 CGTTTAT
1 CGTTTAT
197059 TTATTAAATG
Statistics
Matches: 41, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
6 12 0.29
10 29 0.71
ACGTcount: A:0.08, C:0.12, G:0.22, T:0.58
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:197027 original size:16 final size:16
Alignment explanation
Indices: 197006--197054 Score: 98
Period size: 16 Copynumber: 3.1 Consensus size: 16
196996 CCAACGTTTA
197006 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
197022 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
197038 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
197054 T
1 T
197055 TTATTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:197051 original size:26 final size:26
Alignment explanation
Indices: 197000--197058 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
196990 GGGTCTCCAA
* *
197000 CGTTTATGTTCGTTTATGTTCGTGTT
1 CGTTTATGTTCGTTTACGTTCATGTT
*
197026 CGTTTATGTTCGTGTT-CGTTTATGTT
1 CGTTTATGTTCGT-TTACGTTCATGTT
197052 CGTTTAT
1 CGTTTAT
197059 TTATTAAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.08, C:0.12, G:0.22, T:0.58
Consensus pattern (26 bp):
CGTTTATGTTCGTTTACGTTCATGTT
Found at i:197149 original size:16 final size:16
Alignment explanation
Indices: 197124--197156 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
197114 AAAAAAAATT
*
197124 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
197140 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
197156 T
1 T
197157 TTATTTTTTA
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:0.09, C:0.12, G:0.21, T:0.58
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:198469 original size:2 final size:2
Alignment explanation
Indices: 198458--198495 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
198448 AGGAATCAAT
198458 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
198496 GTTAATGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:202517 original size:54 final size:54
Alignment explanation
Indices: 202474--202879 Score: 546
Period size: 54 Copynumber: 7.6 Consensus size: 54
202464 TATACATTTT
* * * *
202474 ATGAATCCCGTGAAATGCACACTTAGTGTCGAAACGGTTATTCATCCACACATG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAAG
* *
202528 ATGAATTCCGTGAAATGCACACTTAGTACCAAAACGGTTA-TCATCCACATAAG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAAG
** * * * * *
202581 ATGAATTATGTGAAATGCACACTTAATGTCGAAACAGTTACTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAAG
* *
202635 ATGAATTCCGTGAAATGCACACTTAGTACCGAAACGGTTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAAG
* * *
202689 ATGAATTCCGTTAAATGCATACTTAATGCCGAAACGGTTA-TCATCCACATAAG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAAG
** * * * *
202742 ATGAATTATGTGAAATGCACACTTAGTGTCAAAACGATTATTCATCCACATAGG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAAG
* ** *
202796 ATGAATTCCATGAAATGCATTCTTAGTGCCGAAACGATTATTCATCCACATAAG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAAG
202850 ATGAATTCCGTGAAATGCACACTTAGTGCC
1 ATGAATTCCGTGAAATGCACACTTAGTGCC
202880 TATTTGGTAA
Statistics
Matches: 304, Mismatches: 46, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
53 88 0.29
54 216 0.71
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (54 bp):
ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAAG
Found at i:202604 original size:107 final size:108
Alignment explanation
Indices: 202474--202876 Score: 567
Period size: 107 Copynumber: 3.8 Consensus size: 108
202464 TATACATTTT
* * * * *
202474 ATGAATCCCGTGAAATGCACACTTAGTGTCGAAACGGTTATTCATCCACACATGATGAATTCCGT
1 ATGAATTCCGTGAAATGCACACTTAATGCCGAAACGGTTATTCATCCACATAAGATGAATTCCGT
*
202539 GAAATGCACACTTAGTACCAAAACGGTTA-TCATCCACATAAG
66 GAAATGCACACTTAGTACCAAAACGGTTATTCATCCACATAGG
** * * * *
202581 ATGAATTATGTGAAATGCACACTTAATGTCGAAACAGTTACTCATCCACATAGGATGAATTCCGT
1 ATGAATTCCGTGAAATGCACACTTAATGCCGAAACGGTTATTCATCCACATAAGATGAATTCCGT
*
202646 GAAATGCACACTTAGTACCGAAACGGTTATTCATCCACATAGG
66 GAAATGCACACTTAGTACCAAAACGGTTATTCATCCACATAGG
* * **
202689 ATGAATTCCGTTAAATGCATACTTAATGCCGAAACGGTTA-TCATCCACATAAGATGAATTATGT
1 ATGAATTCCGTGAAATGCACACTTAATGCCGAAACGGTTATTCATCCACATAAGATGAATTCCGT
** *
202753 GAAATGCACACTTAGTGTCAAAACGATTATTCATCCACATAGG
66 GAAATGCACACTTAGTACCAAAACGGTTATTCATCCACATAGG
* ** * *
202796 ATGAATTCCATGAAATGCATTCTTAGTGCCGAAACGATTATTCATCCACATAAGATGAATTCCGT
1 ATGAATTCCGTGAAATGCACACTTAATGCCGAAACGGTTATTCATCCACATAAGATGAATTCCGT
202861 GAAATGCACACTTAGT
66 GAAATGCACACTTAGT
202877 GCCTATTTGG
Statistics
Matches: 264, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
107 180 0.68
108 84 0.32
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (108 bp):
ATGAATTCCGTGAAATGCACACTTAATGCCGAAACGGTTATTCATCCACATAAGATGAATTCCGT
GAAATGCACACTTAGTACCAAAACGGTTATTCATCCACATAGG
Found at i:202746 original size:161 final size:161
Alignment explanation
Indices: 202474--202879 Score: 634
Period size: 161 Copynumber: 2.5 Consensus size: 161
202464 TATACATTTT
* * * *
202474 ATGAATCCCGTGAAATGCACACTTAGTGTCGAAACGGTTATTCATCCACACATGATGAATTCCGT
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAAGATGAATTCCGT
*
202539 GAAATGCACACTTAGTACCAAAACGGTTATCATCCACATAAGATGAATTATGTGAAATGCACACT
66 GAAATGCACACTTAGTGCCAAAACGGTTATCATCCACATAAGATGAATTATGTGAAATGCACACT
*
202604 TAATGTCGAAAC-AGTTACTCATCCACATAGG
131 TAATGTCAAAACGA-TTACTCATCCACATAGG
* *
202635 ATGAATTCCGTGAAATGCACACTTAGTACCGAAACGGTTATTCATCCACATAGGATGAATTCCGT
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAAGATGAATTCCGT
* * * *
202700 TAAATGCATACTTAATGCCGAAACGGTTATCATCCACATAAGATGAATTATGTGAAATGCACACT
66 GAAATGCACACTTAGTGCCAAAACGGTTATCATCCACATAAGATGAATTATGTGAAATGCACACT
* *
202765 TAGTGTCAAAACGATTATTCATCCACATAGG
131 TAATGTCAAAACGATTACTCATCCACATAGG
* ** *
202796 ATGAATTCCATGAAATGCATTCTTAGTGCCGAAACGATTATTCATCCACATAAGATGAATTCCGT
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAAGATGAATTCCGT
202861 GAAATGCACACTTAGTGCC
66 GAAATGCACACTTAGTGCC
202880 TATTTGGTAA
Statistics
Matches: 222, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
161 221 1.00
162 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (161 bp):
ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAAGATGAATTCCGT
GAAATGCACACTTAGTGCCAAAACGGTTATCATCCACATAAGATGAATTATGTGAAATGCACACT
TAATGTCAAAACGATTACTCATCCACATAGG
Found at i:209543 original size:54 final size:54
Alignment explanation
Indices: 209485--209945 Score: 565
Period size: 54 Copynumber: 8.6 Consensus size: 54
209475 TAAACATATT
* * * * *
209485 ATGAATCCTGTGAAATGAACACTTAGTGCCGAAATGGTTATTCATACATATATG
1 ATGAATCCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
** *
209539 ATGAATTTTGTGAAATGCATACTTAGTGCCGAAACGGTTATTCATCCACATAGG
1 ATGAATCCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * *
209593 ATGAAT-TTCGTGAAATGCACACTTAGTGCCAAAACGATTATTCATCCACATAGG
1 ATGAATCCT-GTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
** * *
209647 ATGAATTTTGTGAAATGCACACTTAGTGCCGAAACGCTTCTTCATCCACATAGG
1 ATGAATCCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * *
209701 ATGAATTCC-GTAAAATGCACACTTAGTGCCGAAACAGTTATTCATCCATATATG
1 ATGAA-TCCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
*
209755 ATGAATTCC-GTGAAATGCACACTTAGTGCCGAAACGATTATTCATCCACATAGG
1 ATGAA-TCCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
** * *
209809 ATGAATTCC-GTGAAACACACACTTAGTGCCGAAACAGTTATTCATCCATATAGG
1 ATGAA-TCCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * * *
209863 TTGAATTCTGTGAAATGCACACTTAGTGTCGAAATGGTTATTCATCCACATATG
1 ATGAATCCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
*
209917 ATGAATTCC-GTGAAATGCAC-CTTAATGCC
1 ATGAA-TCCTGTGAAATGCACACTTAGTGCC
209946 TATTTGGTAA
Statistics
Matches: 357, Mismatches: 45, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
53 11 0.03
54 341 0.96
55 5 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (54 bp):
ATGAATCCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
Found at i:209650 original size:108 final size:108
Alignment explanation
Indices: 209485--209945 Score: 667
Period size: 108 Copynumber: 4.3 Consensus size: 108
209475 TAAACATATT
* ** * * *
209485 ATGAA-TCCTGTGAAATGAACACTTAGTGCCGAAATGGTTATTCATACATATATGATGAATTTTG
1 ATGAATTCC-GTGAAATGCACACTTAGTGCCGAAACAGTTATTCATCCATATAGGATGAATTCTG
*
209549 TGAAATGCATACTTAGTGCCGAAACGGTTATTCATCCACATAGG
65 TGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * *
209593 ATGAATTTCGTGAAATGCACACTTAGTGCCAAAAC-GATTATTCATCCACATAGGATGAATTTTG
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACAG-TTATTCATCCATATAGGATGAATTCTG
* *
209657 TGAAATGCACACTTAGTGCCGAAACGCTTCTTCATCCACATAGG
65 TGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * *
209701 ATGAATTCCGTAAAATGCACACTTAGTGCCGAAACAGTTATTCATCCATATATGATGAATTCCGT
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACAGTTATTCATCCATATAGGATGAATTCTGT
*
209766 GAAATGCACACTTAGTGCCGAAACGATTATTCATCCACATAGG
66 GAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
** *
209809 ATGAATTCCGTGAAACACACACTTAGTGCCGAAACAGTTATTCATCCATATAGGTTGAATTCTGT
1 ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACAGTTATTCATCCATATAGGATGAATTCTGT
* * *
209874 GAAATGCACACTTAGTGTCGAAATGGTTATTCATCCACATATG
66 GAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
*
209917 ATGAATTCCGTGAAATGCAC-CTTAATGCC
1 ATGAATTCCGTGAAATGCACACTTAGTGCC
209946 TATTTGGTAA
Statistics
Matches: 318, Mismatches: 32, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
107 9 0.03
108 306 0.96
109 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (108 bp):
ATGAATTCCGTGAAATGCACACTTAGTGCCGAAACAGTTATTCATCCATATAGGATGAATTCTGT
GAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
Found at i:209727 original size:162 final size:161
Alignment explanation
Indices: 209485--209945 Score: 672
Period size: 162 Copynumber: 2.9 Consensus size: 161
209475 TAAACATATT
* * * * * *
209485 ATGAATCCTGTGAAATGAACACTTAGTGCCGAAATGGTTATTCATACATATATGATGAATTTTGT
1 ATGAATTCTGTGAAATGCACACTTAGTGCCGAAA-CGTTATTCATCCATATAGGATGAATTCTGT
* * *
209550 GAAATGCATACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCACAC
65 GAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATATGATGAATTCCGTGAAATGCACAC
209615 TTAGTGCCAAAACGATTATTCATCCACATAGG
130 TTAGTGCCAAAACGATTATTCATCCACATAGG
* * * *
209647 ATGAATTTTGTGAAATGCACACTTAGTGCCGAAACGCTTCTTCATCCACATAGGATGAATTCCGT
1 ATGAATTCTGTGAAATGCACACTTAGTGCCGAAACG-TTATTCATCCATATAGGATGAATTCTGT
* * *
209712 AAAATGCACACTTAGTGCCGAAACAGTTATTCATCCATATATGATGAATTCCGTGAAATGCACAC
65 GAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATATGATGAATTCCGTGAAATGCACAC
*
209777 TTAGTGCCGAAACGATTATTCATCCACATAGG
130 TTAGTGCCAAAACGATTATTCATCCACATAGG
* ** *
209809 ATGAATTCCGTGAAACACACACTTAGTGCCGAAACAGTTATTCATCCATATAGGTTGAATTCTGT
1 ATGAATTCTGTGAAATGCACACTTAGTGCCGAAAC-GTTATTCATCCATATAGGATGAATTCTGT
* *
209874 GAAATGCACACTTAGTGTCGAAATGGTTATTCATCCACATATGATGAATTCCGTGAAATGCAC-C
65 GAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATATGATGAATTCCGTGAAATGCACAC
*
209938 TTAATGCC
130 TTAGTGCC
209946 TATTTGGTAA
Statistics
Matches: 266, Mismatches: 31, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
161 9 0.03
162 256 0.96
163 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (161 bp):
ATGAATTCTGTGAAATGCACACTTAGTGCCGAAACGTTATTCATCCATATAGGATGAATTCTGTG
AAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATATGATGAATTCCGTGAAATGCACACT
TAGTGCCAAAACGATTATTCATCCACATAGG
Found at i:210459 original size:94 final size:95
Alignment explanation
Indices: 210292--210489 Score: 290
Period size: 94 Copynumber: 2.1 Consensus size: 95
210282 ACCCTGGTGC
* * * * * * *
210292 CGATACTTCTATACTATGGTACCGATACCCCATCCCAGTATCGATACCAAATTTAGGTTCGATGT
1 CGATACTACAATACAATAGTACCGATACCCCATCCCAGTATCAATACCAAATTTAGATTCAATGT
*
210357 TTCCTGGTATCGATACCCTTACCATGGTAT
66 TGCCTGGTATCGATACCCTTACCATGGTAT
* *
210387 CGATACTACAATACAATAGTACCGATA-CCCATTCCGGTATCAATACCAAATTTAGATTCAATGT
1 CGATACTACAATACAATAGTACCGATACCCCATCCCAGTATCAATACCAAATTTAGATTCAATGT
*
210451 TGCTTGGTATCGATACCCTTACCATGGTAT
66 TGCCTGGTATCGATACCCTTACCATGGTAT
210481 CGATACTAC
1 CGATACTAC
210490 CTCATTGGTA
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 69 0.75
95 23 0.25
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (95 bp):
CGATACTACAATACAATAGTACCGATACCCCATCCCAGTATCAATACCAAATTTAGATTCAATGT
TGCCTGGTATCGATACCCTTACCATGGTAT
Found at i:221266 original size:18 final size:18
Alignment explanation
Indices: 221240--221277 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
221230 CATTGTTAGA
221240 AATTATGTCCAAGATAGC
1 AATTATGTCCAAGATAGC
*
221258 AATTCTGTCCAAGATAGC
1 AATTATGTCCAAGATAGC
221276 AA
1 AA
221278 ACGCCTCAGT
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:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (18 bp):
AATTATGTCCAAGATAGC
Found at i:222083 original size:12 final size:11
Alignment explanation
Indices: 222068--222136 Score: 57
Period size: 12 Copynumber: 5.9 Consensus size: 11
222058 AAATAACCTG
*
222068 AAAAATAAAAC
1 AAAAATAAAAA
*
222079 AAAAATATAAAG
1 AAAAATA-AAAA
* * *
222091 TAAACTATACAA
1 AAAAATA-AAAA
222103 AAAAATAAAAA
1 AAAAATAAAAA
222114 TAAAAATACAAAA
1 -AAAAATA-AAAA
222127 AAAAATAAAA
1 AAAAATAAAA
222137 TGCTCTGGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
11 13 0.28
12 30 0.64
13 4 0.09
ACGTcount: A:0.78, C:0.06, G:0.01, T:0.14
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:222114 original size:6 final size:6
Alignment explanation
Indices: 222103--222136 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
222093 AACTATACAA
222103 AAAAAT AAAAAT AAAAAT ACAAAA- AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAA
222137 TGCTCTGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 4 0.15
6 18 0.69
7 4 0.15
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:222122 original size:22 final size:23
Alignment explanation
Indices: 222068--222137 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
222058 AAATAACCTG
* *
222068 AAAAATAAAACAAAAATATAAAGT
1 AAAAATACAA-AAAAATATAAAAT
*
222092 AAACTATACAAAAAAATA-AAAAT
1 AAA-AATACAAAAAAATATAAAAT
*
222115 AAAAATACAAAAAAAAATAAAAT
1 AAAAATACAAAAAAATATAAAAT
222138 GCTCTGGCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 12 0.31
23 12 0.31
24 10 0.26
25 5 0.13
ACGTcount: A:0.77, C:0.06, G:0.01, T:0.16
Consensus pattern (23 bp):
AAAAATACAAAAAAATATAAAAT
Found at i:222128 original size:24 final size:24
Alignment explanation
Indices: 222068--222136 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
222058 AAATAACCTG
* *
222068 AAAAATA-AAACAAAAATATAAAGT
1 AAAAATACAAAAAAAAATA-AAAAT
*
222092 AAACTATAC--AAAAAAATAAAAAT
1 AAA-AATACAAAAAAAAATAAAAAT
222115 AAAAATACAAAAAAAAATAAAA
1 AAAAATACAAAAAAAAATAAAA
222137 TGCTCTGGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 4 0.11
23 7 0.19
24 23 0.62
25 3 0.08
ACGTcount: A:0.78, C:0.06, G:0.01, T:0.14
Consensus pattern (24 bp):
AAAAATACAAAAAAAAATAAAAAT
Found at i:228949 original size:36 final size:35
Alignment explanation
Indices: 228868--229006 Score: 181
Period size: 35 Copynumber: 3.9 Consensus size: 35
228858 AGATGAACAT
*
228868 TTGAATCGAAAGTG-CTGATACTTCCTTTCGTTCAC
1 TTGAATCGAAAGTGTC-GATGCTTCCTTTCGTTCAC
* *
228903 TTGAATCGAAAGTATCGATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTC-AC
* * *
228939 TTGAATCGAAAGTGCCGATGCTTCCTTCCATTCAC
1 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCAC
* *
228974 TTGAATCGAAAGTGTTGATGTTTCCTTTCGTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTC
229007 TTCTTATTCA
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
35 58 0.65
36 31 0.35
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (35 bp):
TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCAC
Found at i:228984 original size:71 final size:71
Alignment explanation
Indices: 228868--229011 Score: 225
Period size: 71 Copynumber: 2.0 Consensus size: 71
228858 AGATGAACAT
* * *
228868 TTGAATCGAAAGTGCTGATACTTCCTTTCGTTCACTTGAATCGAAAGTATCGATGCTTCCTTTCG
1 TTGAATCGAAAGTGCCGATACTTCCTTCCATTCACTTGAATCGAAAGTATCGATGCTTCCTTTCG
228933 TTCTTC
66 TTCTTC
* * * *
228939 TTGAATCGAAAGTGCCGATGCTTCCTTCCATTCACTTGAATCGAAAGTGTTGATGTTTCCTTTCG
1 TTGAATCGAAAGTGCCGATACTTCCTTCCATTCACTTGAATCGAAAGTATCGATGCTTCCTTTCG
229004 TTCTTC
66 TTCTTC
229010 TT
1 TT
229012 ATTCACCTTC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.40
Consensus pattern (71 bp):
TTGAATCGAAAGTGCCGATACTTCCTTCCATTCACTTGAATCGAAAGTATCGATGCTTCCTTTCG
TTCTTC
Found at i:231321 original size:35 final size:36
Alignment explanation
Indices: 231246--231322 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
231236 AAGTTTGCAT
* *
231246 CGATTCGAGTCGAACAGAAGGAAGCATCGACACTTT
1 CGATTCAAGTCGAACAGAAGGAAGCATCGACACTTC
*
231282 CGATTCAAGTCGAACGGAAGGAAGCATC-ACACTTC
1 CGATTCAAGTCGAACAGAAGGAAGCATCGACACTTC
231317 CGATTC
1 CGATTC
231323 CACTAGAACG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 12 0.32
36 26 0.68
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.19
Consensus pattern (36 bp):
CGATTCAAGTCGAACAGAAGGAAGCATCGACACTTC
Found at i:231332 original size:35 final size:36
Alignment explanation
Indices: 231257--231332 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
231247 GATTCGAGTC
* * * *
231257 GAACAGAAGGAAGCATCGACACTTTCGATTCAAGTC
1 GAACGGAAGGAAGCATCGACACTTCCGATTCAACTA
*
231293 GAACGGAAGGAAGCATC-ACACTTCCGATTCCACTA
1 GAACGGAAGGAAGCATCGACACTTCCGATTCAACTA
231328 GAACG
1 GAACG
231333 AATGGTTTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
35 19 0.54
36 16 0.46
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (36 bp):
GAACGGAAGGAAGCATCGACACTTCCGATTCAACTA
Found at i:231504 original size:21 final size:21
Alignment explanation
Indices: 231479--231523 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
231469 GTGGTTTGCT
231479 GATGTGTGTGTGAGTTGTTAG
1 GATGTGTGTGTGAGTTGTTAG
231500 GATGTGTGTGTGAGTTGTTAG
1 GATGTGTGTGTGAGTTGTTAG
231521 GAT
1 GAT
231524 TGTTAGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (21 bp):
GATGTGTGTGTGAGTTGTTAG
Found at i:235477 original size:24 final size:24
Alignment explanation
Indices: 235443--235496 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
235433 CTGAAACATC
* *
235443 ATCAAAATCCGAGTATTGGCCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
235467 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
235491 ATCAAA
1 ATCAAA
235497 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:236351 original size:41 final size:42
Alignment explanation
Indices: 236257--236386 Score: 160
Period size: 41 Copynumber: 3.2 Consensus size: 42
236247 GTCAGAATCT
* **
236257 CGTTGCGAAAGTCAGAATCGCGTTGCGA--AAGTCAATATCG
1 CGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTCAATATCG
*
236297 CGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGT-ATTATCG
1 CGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTCAATATCG
* * **
236338 CGTTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-TCG
1 CGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTCAATATCG
236379 CGTTGCGA
1 CGTTGCGA
236387 TTTACTATTC
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 27 0.35
41 47 0.60
42 4 0.05
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (42 bp):
CGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTCAATATCG
Found at i:236358 original size:20 final size:20
Alignment explanation
Indices: 236232--236366 Score: 146
Period size: 20 Copynumber: 6.7 Consensus size: 20
236222 GATTCTGTAT
*
236232 TATCTCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
236252 AATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
236272 AATCGCGTTGCGAAAGTCAA
1 TATCGCGTTGCGATAGTCAG
*
236292 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
236312 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
236333 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
236353 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
236367 TTTCCCAATT
Statistics
Matches: 100, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
19 3 0.03
20 81 0.81
21 14 0.14
22 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:236447 original size:21 final size:22
Alignment explanation
Indices: 236395--236447 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
236385 GATTTACTAT
236395 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
236416 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
236437 TCGCATTGCGA
1 TCGCATTGCGA
236448 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:244917 original size:10 final size:10
Alignment explanation
Indices: 244902--244939 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
244892 ATAATTTAGA
244902 AAATAAAAAT
1 AAATAAAAAT
244912 AAATAAAAAT
1 AAATAAAAAT
*
244922 AAA-AAATA-
1 AAATAAAAAT
244930 AAATAAAAAT
1 AAATAAAAAT
244940 GGGTTGCCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 3 0.12
9 8 0.33
10 13 0.54
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:249103 original size:26 final size:26
Alignment explanation
Indices: 249072--249128 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
249062 TTTCAAATAT
249072 GCTAAGTTTGACTTTGTTCATGCTTA
1 GCTAAGTTTGACTTTGTTCATGCTTA
249098 GCTAAGTTTGACTTTGTTCATGCTTA
1 GCTAAGTTTGACTTTGTTCATGCTTA
249124 GCTAA
1 GCTAA
249129 TTTTCTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (26 bp):
GCTAAGTTTGACTTTGTTCATGCTTA
Found at i:249568 original size:17 final size:17
Alignment explanation
Indices: 249543--249576 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
249533 CTTTATCCCA
*
249543 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
249560 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
249577 TATCTCATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:256951 original size:30 final size:30
Alignment explanation
Indices: 256916--256973 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
256906 AACTTAAAAG
*
256916 AGTTTTGCAATACTGAAATTTAAATAATTT
1 AGTTTTACAATACTGAAATTTAAATAATTT
*
256946 AGTTTTATAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
256974 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (30 bp):
AGTTTTACAATACTGAAATTTAAATAATTT
Found at i:257021 original size:22 final size:22
Alignment explanation
Indices: 256994--257381 Score: 602
Period size: 22 Copynumber: 17.7 Consensus size: 22
256984 ACAATAATAA
256994 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
*
257016 GTATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
257038 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
** *
257060 ATATTTTAAAATAAAAT-TTTTC
1 ATATTTTAAAAT-AAATCAATCC
* *
257082 ATATTTTAAAATAAATTAATTC
1 ATATTTTAAAATAAATCAATCC
257104 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
257126 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
257148 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
257170 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
*
257192 ATATTTTAAAATAAATCAATAC
1 ATATTTTAAAATAAATCAATCC
**
257214 ATATTTTAAAATAAAT-TTTCC
1 ATATTTTAAAATAAATCAATCC
257235 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
***
257257 ATATTTTAAAATAAATTTTTCC
1 ATATTTTAAAATAAATCAATCC
*
257279 ATATTTTAAAATAAATCAATTC
1 ATATTTTAAAATAAATCAATCC
**
257301 ATATTTTAAAATAAAAT-TTTCC
1 ATATTTTAAAAT-AAATCAATCC
257323 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
257345 ATATTTTAAAATAAATCAATCC
1 ATATTTTAAAATAAATCAATCC
257367 ATATTTTAAAATAAA
1 ATATTTTAAAATAAA
257382 ATTTTAAAAT
Statistics
Matches: 334, Mismatches: 27, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
21 26 0.08
22 300 0.90
23 8 0.02
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATTTTAAAATAAATCAATCC
Found at i:258977 original size:21 final size:20
Alignment explanation
Indices: 258938--258981 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
258928 TGTGTTTGTT
*
258938 TTTATTTACTTTATTTATTTA
1 TTTATTTACTTTATATA-TTA
258959 TTTATTTACTTT-TAATATTA
1 TTTATTTACTTTAT-ATATTA
258979 TTT
1 TTT
258982 TTTTTAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTATTTACTTTATATATTA
Found at i:263110 original size:14 final size:14
Alignment explanation
Indices: 263091--263125 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
263081 CAAACACCGT
*
263091 AAAATGTTTTCTAA
1 AAAATGTTTTCCAA
*
263105 AAAATGTTTTCCAG
1 AAAATGTTTTCCAA
263119 AAAATGT
1 AAAATGT
263126 AATTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (14 bp):
AAAATGTTTTCCAA
Found at i:267955 original size:32 final size:32
Alignment explanation
Indices: 267927--268048 Score: 162
Period size: 32 Copynumber: 3.9 Consensus size: 32
267917 ATTCATTAAA
* *
267927 TATGCACACGTTGTATGTGTCATGTCATTACT
1 TATGTACACGTTGTATGTGTCACGTCATTACT
** * *
267959 TAAATATACGTTGTATGTGCCACGTCATTACT
1 TATGTACACGTTGTATGTGTCACGTCATTACT
267991 TATGTACAC---GTATGTGTCACGTCATTACT
1 TATGTACACGTTGTATGTGTCACGTCATTACT
268020 TATGTACACGTTGTATGTGTCACGT-ATTA
1 TATGTACACGTTGTATGTGTCACGTCATTA
268049 TTTTATATAT
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
29 28 0.36
31 4 0.05
32 45 0.58
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (32 bp):
TATGTACACGTTGTATGTGTCACGTCATTACT
Found at i:267960 original size:64 final size:61
Alignment explanation
Indices: 267887--268030 Score: 146
Period size: 64 Copynumber: 2.3 Consensus size: 61
267877 GTGTATCGTA
* *
267887 TCATTACTTATGTATACGTAGAATATGCCTA-TTCATTAAATATGCACACGTTGTATGTGTCATG
1 TCATTACTTATGTATACGTAGAATATGCC-ACGTCATTAAATATGCACAC---GTATGTGTCACG
** * * * ** *
267951 TCATTACTTAAATATACGTTGTATGTGCCACGTCATTACTTATGTACACGTATGTGTCACG
1 TCATTACTTATGTATACGTAGAATATGCCACGTCATTAAATATGCACACGTATGTGTCACG
*
268012 TCATTACTTATGTACACGT
1 TCATTACTTATGTATACGT
268031 TGTATGTGTC
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
61 27 0.41
63 1 0.02
64 38 0.58
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (61 bp):
TCATTACTTATGTATACGTAGAATATGCCACGTCATTAAATATGCACACGTATGTGTCACG
Found at i:270825 original size:36 final size:36
Alignment explanation
Indices: 270723--270991 Score: 348
Period size: 36 Copynumber: 7.5 Consensus size: 36
270713 TTCGTTCTAG
* *
270723 TTGAATTGGAAGTG-CGATGCTTCTTTCCGTTCGAC
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
* * *
270758 TTGAATCGGAAGTG-CGATGCTTCTTTGCGTTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
* *
270793 TTGAATCGGAAGTGCTGATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
* * *
270829 TTGAATTGGAAGTGCTGATGCTTCCTTCCGTTCGAT
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
*
270865 TTGAATCGGAAGTGCCGAAGCTTCCTTCCGTTCGAC
1 TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
270901 TTGAATCGGAAGTGCCGATGCCTT-CTTCCGTTCGAC
1 TTGAATCGGAAGTGCCGATG-CTTCCTTCCGTTCGAC
** *
270937 TTGAATTAGAAGTGCCGATACCTT-CTTCCGTTCGAC
1 TTGAATCGGAAGTGCCGAT-GCTTCCTTCCGTTCGAC
* *
270973 ATGAATCGAAAGTGCCGAT
1 TTGAATCGGAAGTGCCGAT
270992 CATTCCGTAC
Statistics
Matches: 212, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
35 46 0.22
36 163 0.77
37 3 0.01
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.33
Consensus pattern (36 bp):
TTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCGAC
Found at i:275871 original size:2 final size:2
Alignment explanation
Indices: 275864--275921 Score: 59
Period size: 2 Copynumber: 29.5 Consensus size: 2
275854 ATATGTTTTC
* *
275864 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T GT -T TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
275904 -T AT CAT AT AT ACT AT AT A
1 AT AT -AT AT AT A-T AT AT A
275922 ACATAAATAT
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
1 3 0.06
2 43 0.86
3 4 0.08
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:286102 original size:19 final size:19
Alignment explanation
Indices: 286075--286120 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
286065 AAAAATGAAA
* *
286075 TATTCTTTTATTCT-TTCTT
1 TATTTTTTTATTCTATT-TC
286094 TATTTTTTTATTCTATTTC
1 TATTTTTTTATTCTATTTC
286113 TATTTTTT
1 TATTTTTT
286121 AATTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTTTTTTATTCTATTTC
Found at i:288553 original size:18 final size:18
Alignment explanation
Indices: 288523--288574 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
288513 ATATAACACA
288523 TATATCCCGAAGGACCAC
1 TATATCCCGAAGGACCAC
* *
288541 TATGTCCCAAAGGACCAC
1 TATATCCCGAAGGACCAC
288559 TATATCCCGAAGGACC
1 TATATCCCGAAGGACC
288575 GCGTAGACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (18 bp):
TATATCCCGAAGGACCAC
Found at i:289374 original size:20 final size:20
Alignment explanation
Indices: 289349--289386 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
289339 TTTCCCTTGA
289349 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
*
289369 AGTGCATCGATTCATTCT
1 AGTGCATCGATGCATTCT
289387 TTAACCTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:298138 original size:54 final size:54
Alignment explanation
Indices: 298079--298378 Score: 411
Period size: 54 Copynumber: 5.6 Consensus size: 54
298069 TAAACATATT
*** * *
298079 ATGAATTCTGTGTTTTGCACACTCAGTGCCGAAACGGTTATCCATCCACATAGG
1 ATGAATTCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* *
298133 ATGAATTCTTTGAAATGCACACTTAGTGCCGAAACGATTATTCATCCACATAGG
1 ATGAATTCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * * *
298187 ATGAGTTCCGTGAAATGCACACTTAGTACCGAAACGATTATTCATCCACATAAG
1 ATGAATTCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * * * *
298241 ATGAATTCCGTGGAATGGACACTTAGTACCAAAACGGTTATTCATCCACATAGG
1 ATGAATTCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
* * *
298295 ATGAATTCTGTGAAATGCACACTTAGTGTCGAAACAGTTATTCATCCACACAGG
1 ATGAATTCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
*
298349 ATGAATTCCGTGAAATGCACACTTAGTGCC
1 ATGAATTCTGTGAAATGCACACTTAGTGCC
298379 TATTTGGTAA
Statistics
Matches: 218, Mismatches: 28, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 218 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (54 bp):
ATGAATTCTGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGG
Found at i:298845 original size:22 final size:23
Alignment explanation
Indices: 298803--298847 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
298793 CTGGTATCGA
*
298803 TACCCTTACCATGGTATCGATAC
1 TACCCTTACCATGGTACCGATAC
*
298826 TACCCTT-CTATGGTACCGATAC
1 TACCCTTACCATGGTACCGATAC
298848 CCCCTACCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.31
Consensus pattern (23 bp):
TACCCTTACCATGGTACCGATAC
Found at i:298868 original size:95 final size:96
Alignment explanation
Indices: 298738--298929 Score: 278
Period size: 95 Copynumber: 2.0 Consensus size: 96
298728 TACTTCTATA
* * * * *
298738 CTATGGTACCAATACCCCTTTCGGGTATTGATACCAAAAATAGGTTCGATGTTACCTGGTATCGA
1 CTATGGTACCAATACCCCCTACCGGTATCGATACCAAAAATAGATTCGATGTTACCTGGTATCGA
*
298803 TACCCTTACCATGGTATCGATACTACC-CTT
66 TACCCTTACCATGGAATCGATACTACCTCTT
* * * *
298833 CTATGGTACCGATACCCCCTACCGGTATCGATACCAAAATTAGATTCGATGTTTCTTGGTATCGA
1 CTATGGTACCAATACCCCCTACCGGTATCGATACCAAAAATAGATTCGATGTTACCTGGTATCGA
*
298898 TACCCTTATCATGGAATCGATACTACCTCTT
66 TACCCTTACCATGGAATCGATACTACCTCTT
298929 C
1 C
298930 GGTAACGATA
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 81 0.95
96 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (96 bp):
CTATGGTACCAATACCCCCTACCGGTATCGATACCAAAAATAGATTCGATGTTACCTGGTATCGA
TACCCTTACCATGGAATCGATACTACCTCTT
Found at i:305025 original size:54 final size:54
Alignment explanation
Indices: 304989--305273 Score: 234
Period size: 54 Copynumber: 5.3 Consensus size: 54
304979 ATCCGTGTTT
* * *
304989 TGCACACTCAGTGCCGTAATGGTTATTCATCCACATAAGATGAATTCCATGAAA
1 TGCACACTCAGTGCCGAAAAGGTTATTCATCCACATAAGATGAAATCCATGAAA
* * **
305043 TGCACACTTAGTGCCGAAAAGGTTATTCATCCACATAGGATG-AATCTTGTGAAA
1 TGCACACTCAGTGCCGAAAAGGTTATTCATCCACATAAGATGAAATC-CATGAAA
* * * * * * * * * * *
305097 TGCGCACTTATTGCTGAAACGATTATTCATCCATATAGGATGAATTCCGTGGAA
1 TGCACACTCAGTGCCGAAAAGGTTATTCATCCACATAAGATGAAATCCATGAAA
* * * * *
305151 TTCACACTTAGTGTCGAAACGGTTATTCATCCACATAGGATG-AAT-CATGTGAAA
1 TGCACACTCAGTGCCGAAAAGGTTATTCATCCACATAAGATGAAATCCA--TGAAA
* * * ** * * *
305205 TGCATACTTAGTACCGAAACTGTTATTCATCCACATAGGATGAATTCCGTGAAA
1 TGCACACTCAGTGCCGAAAAGGTTATTCATCCACATAAGATGAAATCCATGAAA
*
305259 TGCACACTTAGTGCC
1 TGCACACTCAGTGCC
305274 TATTTGGTAA
Statistics
Matches: 190, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
52 1 0.01
53 5 0.03
54 178 0.94
55 5 0.03
56 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (54 bp):
TGCACACTCAGTGCCGAAAAGGTTATTCATCCACATAAGATGAAATCCATGAAA
Found at i:305139 original size:108 final size:108
Alignment explanation
Indices: 305010--305273 Score: 395
Period size: 108 Copynumber: 2.4 Consensus size: 108
305000 TGCCGTAATG
* *
305010 GTTATTCATCCACATAAGATGAATTCCATGAAATGCACACTTAGTGCCGAAAAGGTTATTCATCC
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAGGTTATTCATCC
* * * * *
305075 ACATAGGATGAATCTTGTGAAATGCGCACTTATTGCTGAAAC-
66 ACATAGGATGAATCATGTGAAATGCACACTTAGTACCGAAACT
* * * * *
305117 GATTATTCATCCATATAGGATGAATTCCGTGGAATTCACACTTAGTGTCGAAACGGTTATTCATC
1 G-TTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAGGTTATTCATC
*
305182 CACATAGGATGAATCATGTGAAATGCATACTTAGTACCGAAACT
65 CACATAGGATGAATCATGTGAAATGCACACTTAGTACCGAAACT
305226 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCC
305274 TATTTGGTAA
Statistics
Matches: 138, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
107 1 0.01
108 136 0.99
109 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (108 bp):
GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAAAGGTTATTCATCC
ACATAGGATGAATCATGTGAAATGCACACTTAGTACCGAAACT
Found at i:305783 original size:95 final size:95
Alignment explanation
Indices: 305626--305803 Score: 230
Period size: 95 Copynumber: 1.9 Consensus size: 95
305616 TACTTCTATA
* *** * *
305626 TTATGGTATCGATACCCCTTTCGGGTATCGATACCAAAAATAGGTTCGATATTGCCTCGTATCGA
1 TTATGGTACCGATACCCCCAACCGGTATCGATACCAAAAATAGATTCGATATTGCCTCGTATCGA
*
305691 TACCCTTACCCTGGTATCAATACAACCCTT
66 TACCCTTACCATGGTATCAATACAACCCTT
* * * * * *
305721 TTATGGTACCGATACCCCCAACCGGTATCGATACCAAAATTAGATTCTATGTTTCTTGGTATCGA
1 TTATGGTACCGATACCCCCAACCGGTATCGATACCAAAAATAGATTCGATATTGCCTCGTATCGA
*
305786 TACCCTTATCATGGTATC
66 TACCCTTACCATGGTATC
305804 GATATTGATT
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
95 69 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (95 bp):
TTATGGTACCGATACCCCCAACCGGTATCGATACCAAAAATAGATTCGATATTGCCTCGTATCGA
TACCCTTACCATGGTATCAATACAACCCTT
Found at i:308456 original size:60 final size:58
Alignment explanation
Indices: 308382--308544 Score: 179
Period size: 60 Copynumber: 2.8 Consensus size: 58
308372 TCTTGGTATA
* * * *
308382 TAGGGTAAGACCTTATGGACCCTAAGGTAATCCCTTAGGTTGGCTCATTTGCTTTGTGC
1 TAGGGTAAGTCCTTATGGACCCTAAGGTACTCCCTTAGGTTGGCTCATATGCTTCG-GC
* * * *
308441 TTAGGGTAAGTCCTTATGGA-CCTGAGGGCACTCCCCTCAGG-TGGCTCCTATGCTTCGGC
1 -TAGGGTAAGTCCTTATGGACCCT-AAGGTACT-CCCTTAGGTTGGCTCATATGCTTCGGC
* *
308500 TAGGGTAAGTCCTTATGGACCC-AAGGTGCTTCCTTAGGTTGGCTC
1 TAGGGTAAGTCCTTATGGACCCTAAGGTACTCCCTTAGGTTGGCTC
308545 CTACGCCCGA
Statistics
Matches: 86, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
56 6 0.07
57 11 0.13
58 19 0.22
59 7 0.08
60 36 0.42
61 7 0.08
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.31
Consensus pattern (58 bp):
TAGGGTAAGTCCTTATGGACCCTAAGGTACTCCCTTAGGTTGGCTCATATGCTTCGGC
Found at i:310983 original size:65 final size:64
Alignment explanation
Indices: 310831--311021 Score: 206
Period size: 65 Copynumber: 2.9 Consensus size: 64
310821 GTACACTTGG
** * * * *
310831 TGTGCATCGGTACAC-TAATTATATTCGATGTTTCAAAAAAAGCCAAGAGTGCATCGATGCATGG
1 TGTGCATCGGTACACATAA-TGCATTCGATG-TTCAATAAAA-CCTAGGGTGTATCGATGCATGG
310895 TA
63 TA
* * * *
310897 TGTGCATCAGTACATAAAATGCATTCGATGTTCCAATAAAACCTAGGGTGTATCAATGCATGGTA
1 TGTGCATCGGTACACATAATGCATTCGATGTT-CAATAAAACCTAGGGTGTATCGATGCATGGTA
* * *
310962 TGTGCATCGGTATACATAATGCATTCGATGTTCAATTAAA-TTAGGTGTGTATCGATGCAT
1 TGTGCATCGGTACACATAATGCATTCGATGTTCAATAAAACCTAGG-GTGTATCGATGCAT
311022 TCAATAGTGC
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
63 4 0.04
64 20 0.19
65 50 0.48
66 29 0.28
67 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (64 bp):
TGTGCATCGGTACACATAATGCATTCGATGTTCAATAAAACCTAGGGTGTATCGATGCATGGTA
Found at i:311652 original size:2 final size:2
Alignment explanation
Indices: 311645--311693 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
311635 AACCAAAACC
311645 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
311687 AT AT AT A
1 AT AT AT A
311694 GCATTCAAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:313170 original size:13 final size:12
Alignment explanation
Indices: 313141--313174 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
313131 AATGGGCAGT
*
313141 TTTTGAAAACTA
1 TTTTGAAAACAA
313153 TTTTGAAAACAA
1 TTTTGAAAACAA
313165 TGTTTGAAAA
1 T-TTTGAAAA
313175 ATTGTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (12 bp):
TTTTGAAAACAA
Found at i:313716 original size:44 final size:43
Alignment explanation
Indices: 313652--313754 Score: 143
Period size: 44 Copynumber: 2.4 Consensus size: 43
313642 GTACACTACA
* * * * *
313652 TAGTGTATTGGTGCACATTCAAGGCATGCATCGGTGCACTTTTG
1 TAGTGTATCGATGCACATTCAAGGAATGCATCGGTACAC-TTTC
*
313696 TAGTGTATCGATGCATATTCAAGGAATGCATCGGTACACTTTC
1 TAGTGTATCGATGCACATTCAAGGAATGCATCGGTACACTTTC
313739 TAGTGTATCGATGCAC
1 TAGTGTATCGATGCAC
313755 TTTGCACAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
43 18 0.35
44 34 0.65
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
TAGTGTATCGATGCACATTCAAGGAATGCATCGGTACACTTTC
Found at i:315766 original size:12 final size:12
Alignment explanation
Indices: 315749--315773 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
315739 ATGATGATTC
315749 TCCAACGTCATG
1 TCCAACGTCATG
315761 TCCAACGTCATG
1 TCCAACGTCATG
315773 T
1 T
315774 GCGTTTACAA
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:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (12 bp):
TCCAACGTCATG
Found at i:317456 original size:20 final size:21
Alignment explanation
Indices: 317417--317456 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
317407 GAAGCTTTAA
* *
317417 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
317438 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
317457 AAGTAAGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Found at i:319689 original size:65 final size:64
Alignment explanation
Indices: 319546--319738 Score: 208
Period size: 65 Copynumber: 2.9 Consensus size: 64
319536 GTACACTTGG
* * * * * * * *
319546 TGTGCATCGGTACACTAATTACATTCGATGTTTCAAAAAAAAAGCCAAGAGTGCATCGATGCATG
1 TGTGCATCGGTACACAAAATGCATTCGATG-TTC--AATAAAA-CTAGGGGTGTATCGATGCATG
319611 GTC
62 GTC
*
319614 TGTGCATCGGTACATAAAATGCATTCGATGTTCCAATAAAACCT-GGGGTGTATCGATGCATGGT
1 TGTGCATCGGTACACAAAATGCATTCGATGTT-CAATAAAA-CTAGGGGTGTATCGATGCATGGT
319678 C
64 C
* * * *
319679 TGTGCATCGGTACACATAATGCATTCGATGTTCAATTAAATTAGGTGTGTATCGATGCAT
1 TGTGCATCGGTACACAAAATGCATTCGATGTTCAATAAAACTAGGGGTGTATCGATGCAT
319739 TCAATAGTGC
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
63 1 0.01
64 23 0.21
65 48 0.44
66 7 0.06
67 2 0.02
68 27 0.25
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (64 bp):
TGTGCATCGGTACACAAAATGCATTCGATGTTCAATAAAACTAGGGGTGTATCGATGCATGGTC
Found at i:320648 original size:41 final size:41
Alignment explanation
Indices: 320603--320749 Score: 117
Period size: 41 Copynumber: 3.6 Consensus size: 41
320593 TAACTTTAGC
*
320603 GGCATTTTTATACAAACGCCACAATAGGGTTCATCTATAGT
1 GGCATTTTTATACAAACGCCGCAATAGGGTTCATCTATAGT
* * * *
320644 GGCATTTTT-T-CAACATCCGTCGCAATAGAG-T-AGTACTTTAGC
1 GGCATTTTTATACAA-A--CGCCGCAATAGGGTTCA-T-CTATAGT
* * *
320686 GACGTTTTTATACAAACACCGCAATAGGGTTCATCTATAGT
1 GGCATTTTTATACAAACGCCGCAATAGGGTTCATCTATAGT
*
320727 -GCATTTTTCA-AAAAACGCCGCAA
1 GGCATTTTT-ATACAAACGCCGCAA
320750 CAGAGTACTA
Statistics
Matches: 80, Mismatches: 16, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
39 3 0.04
40 20 0.25
41 27 0.34
42 24 0.30
43 3 0.04
44 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (41 bp):
GGCATTTTTATACAAACGCCGCAATAGGGTTCATCTATAGT
Found at i:322311 original size:21 final size:23
Alignment explanation
Indices: 322267--322314 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
322257 TGATTTTTTA
322267 TTATTTTCAAATAATATCTATTT
1 TTATTTTCAAATAATATCTATTT
* *
322290 TTATTTTTAAAT-TTAT-TATTT
1 TTATTTTCAAATAATATCTATTT
322311 TTAT
1 TTAT
322315 AGTCAATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 9 0.39
22 3 0.13
23 11 0.48
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTTTCAAATAATATCTATTT
Found at i:322458 original size:24 final size:24
Alignment explanation
Indices: 322412--322458 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
322402 ATAAAAAATT
* * * *
322412 AAAATTAATATTTACAATTAATAA
1 AAAATTAAAAATTAAAATAAATAA
322436 AAAATTAAAAATTAAAATAAATA
1 AAAATTAAAAATTAAAATAAATA
322459 TGAATAAACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAATTAAAAATTAAAATAAATAA
Found at i:322465 original size:30 final size:28
Alignment explanation
Indices: 322402--322483 Score: 76
Period size: 30 Copynumber: 2.8 Consensus size: 28
322392 TATTTTTTAC
*
322402 ATAAAAAATTAAAATTAATATTTACAATTA
1 ATAAAAAATTAAAATTAA-A-ATACAATTA
322432 ATAAAAAATTAAAAATTAAAATA-AATATGA
1 ATAAAAAATT-AAAATTAAAATACAAT-T-A
**
322462 ATAAACTATTAAAATTGAAAAT
1 ATAAAAAATTAAAATT-AAAAT
322484 TTTATAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
28 3 0.07
29 9 0.20
30 25 0.56
31 8 0.18
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
ATAAAAAATTAAAATTAAAATACAATTA
Found at i:322718 original size:17 final size:17
Alignment explanation
Indices: 322692--322725 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
322682 AAAATATTCA
322692 AAAAATATATTTACAAAT
1 AAAAATATATTTA-AAAT
322710 AAAAA-ATATTTAAAAT
1 AAAAATATATTTAAAAT
322726 CAATTGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAAATATATTTAAAAT
Found at i:326296 original size:87 final size:87
Alignment explanation
Indices: 326150--326312 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
326140 TATGTTATAT
326150 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
326215 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* * *
326237 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
326302 AGCGCTTATAT
66 AGCGCTTATAT
326313 TGACCTATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (87 bp):
TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:329965 original size:183 final size:183
Alignment explanation
Indices: 329657--330227 Score: 1011
Period size: 183 Copynumber: 3.1 Consensus size: 183
329647 TTAAAATTAG
*
329657 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
329722 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTTTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
329787 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTATGGACATAAAGTAC
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTATGGACATAAAGTAC
*
329840 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACATATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
*
329905 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
*
329970 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTAC
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTATGGACATAAAGTAC
330023 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* * * *
330088 ATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTTTCGATGTTTTTTCAA--T
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG---TGTAAATGT
*
330151 CGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTATGGACATAAAGTAC
128 CGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTATGGACATAAAGTAC
330207 CGACACAATATTAAAAAGTGT
1 CGACACAATATTAAAAAGTGT
330228 GAAAACTTTG
Statistics
Matches: 373, Mismatches: 12, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
183 293 0.79
184 76 0.20
186 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTATGGACATAAAGTAC
Found at i:331445 original size:3 final size:3
Alignment explanation
Indices: 331437--331478 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
331427 ACTTGTTTGG
* * *
331437 ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
331479 GTCAGCTTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.26, C:0.33, G:0.02, T:0.38
Consensus pattern (3 bp):
ATC
Found at i:331479 original size:12 final size:12
Alignment explanation
Indices: 331438--331495 Score: 71
Period size: 12 Copynumber: 4.8 Consensus size: 12
331428 CTTGTTTGGA
*
331438 TCATCATCATCA
1 TCATCATCATCT
331450 TCATCATCATCT
1 TCATCATCATCT
*
331462 TCATCGTCATCT
1 TCATCATCATCT
* *
331474 TCATCGTCAGCT
1 TCATCATCATCT
*
331486 TCATCTTCAT
1 TCATCATCAT
331496 TGACTACTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.22, C:0.33, G:0.05, T:0.40
Consensus pattern (12 bp):
TCATCATCATCT
Found at i:331493 original size:6 final size:6
Alignment explanation
Indices: 331438--331495 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
331428 CTTGTTTGGA
* * * * * *
331438 TCATCA TCATCA TCATCA TCATCT TCATCG TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
331486 TCATCT TCAT
1 TCATCT TCAT
331496 TGACTACTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.22, C:0.33, G:0.05, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:333535 original size:200 final size:200
Alignment explanation
Indices: 332990--335350 Score: 4301
Period size: 200 Copynumber: 11.8 Consensus size: 200
332980 AACATTAAAC
* ** * *
332990 AGTGTCGATACA-TATTATATACAAATTCTCCCATAAAACCGGTATACTTATACCGGTTAGATTG
1 AGTGTCGATACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
* * *
333054 AAAAATTACCTAATACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
65 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATAT
*
333119 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
130 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
333184 TACAAA
195 TACAAA
*
333190 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAAACCGGTATACTTGTACCGGTTAGATTG
1 AGTGTCGATACATTATTTAGACCTATTCTCTCAT-AAAACCGGTATACTTGTACCGGTTAGATTG
* *
333255 AAAAATTACCTATTACATTATACTTATAGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
65 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATAT
333320 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
130 GGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
333385 TACAAA
195 TACAAA
* *
333391 AGTGTCGATACATTATTTAGACCTATTCTCTTATAAAACTGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
333456 AAAATTAACTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
333521 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
333586 ACAAA
196 ACAAA
* *
333591 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACATGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
333656 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
*
333721 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACTAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
333786 ACAAA
196 ACAAA
333791 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
333856 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
* *
333921 GATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
333986 ACAAA
196 ACAAA
333991 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
334056 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
*
334121 GATCGACACTTTATTGTTGCACCCTGTTTGCCATCCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
334186 ACAAA
196 ACAAA
*
334191 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
334256 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
*
334321 GATCGACCCTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
334386 ACAAA
196 ACAAA
* *
334391 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGATATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
334456 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
*
334521 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACTAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
334586 ACAAA
196 ACAAA
*
334591 AGTGTCAATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
334656 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
* * *
334721 GATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACCAAAAATATCGAAACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
334786 ACAAA
196 ACAAA
334791 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
334856 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
*
334921 GATCGACACTTTATTGTTGCACCCTGTTTGCCATCCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
334986 ACAAA
196 ACAAA
*
334991 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
335056 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
*
335121 GATCGACCCTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
335186 ACAAA
196 ACAAA
* *
335191 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGATATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
335256 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
*
335321 GATCGACACTTTATGGTTGCACCCTGTTTG
131 GATCGACACTTTATTGTTGCACCCTGTTTG
335351 TCATATTATA
Statistics
Matches: 2095, Mismatches: 64, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
200 1898 0.91
201 197 0.09
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (200 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:335599 original size:18 final size:18
Alignment explanation
Indices: 335576--335636 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
335566 TCTCATTCAT
*
335576 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
335594 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
335613 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
335632 AATTA
1 AATTA
335637 ACCCTATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:335612 original size:19 final size:19
Alignment explanation
Indices: 335588--335636 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
335578 TTATATTCAC
335588 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
335607 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
335626 ATACAAAATTA
1 ATACAAAATTA
335637 ACCCTATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:337464 original size:33 final size:33
Alignment explanation
Indices: 337427--337492 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
337417 CATCTTAATA
* *
337427 TCACCCCTTAACACCCCAACTTCGTTCACCACT
1 TCACCCATCAACACCCCAACTTCGTTCACCACT
* * *
337460 TCACCCATCAACACCTCTACTTCTTTCACCACT
1 TCACCCATCAACACCCCAACTTCGTTCACCACT
337493 CCATCTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.24, C:0.47, G:0.02, T:0.27
Consensus pattern (33 bp):
TCACCCATCAACACCCCAACTTCGTTCACCACT
Found at i:337551 original size:21 final size:21
Alignment explanation
Indices: 337526--337590 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
337516 CCCCTTATGC
* *
337526 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
337547 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
337568 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
337589 CT
1 CT
337591 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:340046 original size:20 final size:19
Alignment explanation
Indices: 340000--340046 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
339990 TCCGGTAACG
340000 TTTTACCGATTTTATCATT
1 TTTTACCGATTTTATCATT
* *
340019 TTGATACCGGTTTTATCATAT
1 TT-TTACCGATTTTATCAT-T
340040 TTTTACC
1 TTTTACC
340047 TGGTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCGATTTTATCATT
Found at i:340090 original size:181 final size:182
Alignment explanation
Indices: 339786--340258 Score: 705
Period size: 181 Copynumber: 2.6 Consensus size: 182
339776 CGTACTTACG
* *
339786 AAAGTATCGACACTTTCAATATATCTGGTATCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
339851 TATCATATTTTTACTTGTTATATCGTTGTAGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACTTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
339916 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* *
339967 AAAGTATCAACACTTTCAATATATCCGGTAACGTTTTACCGATTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
340032 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACTTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
340097 AGGATTTAAAACTGATTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * **
340149 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
340214 TGTCATAGTTTTACTTGTTATATCGTTTTGGATCGACACATTTTT
66 TATCATATTTTTACTTGTTATATCGTTTTGGATCGATACATTTTT
340259 AATTTGGATC
Statistics
Matches: 261, Mismatches: 30, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
181 164 0.63
182 97 0.37
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACTTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGATTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:340428 original size:11 final size:11
Alignment explanation
Indices: 340412--340444 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
340402 ATCCGGTAAC
340412 GCCGTATATTA
1 GCCGTATATTA
340423 GCCGTATATTA
1 GCCGTATATTA
340434 GCCGTATATTA
1 GCCGTATATTA
340445 ATCCGCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (11 bp):
GCCGTATATTA
Found at i:341025 original size:58 final size:59
Alignment explanation
Indices: 340935--341052 Score: 141
Period size: 58 Copynumber: 2.0 Consensus size: 59
340925 GAACATTTTA
* * *
340935 TAACTTTTAATAGTCGATGAACTCAACAAAGCAACACTCTATAGTC-GGAGGACCATTTG
1 TAACTTTTAATAGTCAAAGAACTCAACAAAGCAACACCCTATAGTCAGG-GGACCATTTG
* * * **
340994 TAAC-TTTAATAGTCAAAGGACTTAACGAAGCATTACCCTATAGTCAGGGGACCATTTG
1 TAACTTTTAATAGTCAAAGAACTCAACAAAGCAACACCCTATAGTCAGGGGACCATTTG
341052 T
1 T
341053 GTACTTTCTC
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
58 44 0.88
59 6 0.12
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (59 bp):
TAACTTTTAATAGTCAAAGAACTCAACAAAGCAACACCCTATAGTCAGGGGACCATTTG
Found at i:343671 original size:35 final size:35
Alignment explanation
Indices: 343588--343730 Score: 196
Period size: 35 Copynumber: 4.0 Consensus size: 35
343578 GTACACACGA
*
343588 AAGACGCATTGCACTCCATGCGTCTCTCCCCTTCCCTCG
1 AAGACGCATTGCACTCCATACGTCTCTCCCC-T--C-CG
* *
343627 AAGACGCATTGTACTCCATACGTCTCTCTCCTCCG
1 AAGACGCATTGCACTCCATACGTCTCTCCCCTCCG
* *
343662 AAGACGCATTGTACTCCATACGTCTCTCTCCTCCG
1 AAGACGCATTGCACTCCATACGTCTCTCCCCTCCG
*
343697 AAGACGCATAGCACTCCATACGTCTCTCCCCTCC
1 AAGACGCATTGCACTCCATACGTCTCTCCCCTCC
343731 CTGATGCCAG
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
35 68 0.69
36 1 0.01
38 1 0.01
39 28 0.29
ACGTcount: A:0.20, C:0.41, G:0.14, T:0.26
Consensus pattern (35 bp):
AAGACGCATTGCACTCCATACGTCTCTCCCCTCCG
Found at i:343939 original size:22 final size:23
Alignment explanation
Indices: 343878--343940 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 23
343868 GGCACCTGGG
*
343878 AGAAGAAAGAAAAATAGGAGAATGA
1 AGAAG-AAGAAAAA-AGAAGAATGA
* **
343903 AGAA-AGGAATGAAGAAGAA-GA
1 AGAAGAAGAAAAAAGAAGAATGA
343924 AGAAGAAGAAAAAAGAA
1 AGAAGAAGAAAAAAGAA
343941 ATAAAAGAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
21 6 0.20
22 15 0.50
23 5 0.17
25 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.05
Consensus pattern (23 bp):
AGAAGAAGAAAAAAGAAGAATGA
Found at i:343968 original size:20 final size:20
Alignment explanation
Indices: 343913--343988 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
343903 AGAAAGGAAT
*
343913 GAAGAAGAAGAAGAAGAAGAAA
1 GAAGAAG-AGAA-AAGAAGAAG
* * *
343935 AAAGAA-ATAAAAGAATAAG
1 GAAGAAGAGAAAAGAAGAAG
*
343954 GAAGAAGAGAAAAGAGGAAG
1 GAAGAAGAGAAAAGAAGAAG
343974 GAAGAAGAGAAAAGA
1 GAAGAAGAGAAAAGA
343989 GAAAGAAATA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 12 0.27
20 28 0.62
22 5 0.11
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (20 bp):
GAAGAAGAGAAAAGAAGAAG
Found at i:344001 original size:20 final size:20
Alignment explanation
Indices: 343914--344015 Score: 75
Period size: 20 Copynumber: 5.0 Consensus size: 20
343904 GAAAGGAATG
343914 AAGAAGAAGAAGAAGAAGAAA-A
1 AAGAAG-AGAA-AAG-AGAAAGA
* *
343936 AAGAA-ATAAAAGA-ATAAGG
1 AAGAAGAGAAAAGAGA-AAGA
* *
343955 AAGAAGAGAAAAGAGGAAGG
1 AAGAAGAGAAAAGAGAAAGA
343975 AAGAAGAGAAAAGAGAAAGA
1 AAGAAGAGAAAAGAGAAAGA
* *
343995 AATAAGAAGAATAGAAGAAAG
1 AAGAAG-AGAAAAG-AGAAAG
344016 TTAAAGTCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
17 1 0.02
18 3 0.05
19 8 0.12
20 37 0.56
21 6 0.09
22 11 0.17
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (20 bp):
AAGAAGAGAAAAGAGAAAGA
Found at i:346876 original size:91 final size:92
Alignment explanation
Indices: 346595--346901 Score: 523
Period size: 93 Copynumber: 3.4 Consensus size: 92
346585 ATTATCCAAA
* *
346595 AAATGATTAAATTATAAAAGAAGAAGAC--GTGTATTTGATAT-AAAAATAAAAAGATGGGGGCG
1 AAATGATTAAATTATAAAAGAAGAAGACATGTGTCTTTGATATAAAAAATTAAAAGATGGGGGCG
346657 TATATTATTGCAATGAAGAGTGTAATG
66 TATATTATTGCAATGAAGAGTGTAATG
* *
346684 AAATGATAAAATTATAAAAGAAGAAGACATGTGTCTTTGATATAAAAAAAATAAAAGATGGGGGC
1 AAATGATTAAATTATAAAAGAAGAAGACATGTGTCTTTGATAT-AAAAAATTAAAAGATGGGGGC
346749 GTATATTATTGCAATGAAGAGTGTAATG
65 GTATATTATTGCAATGAAGAGTGTAATG
*
346777 AAATGATTAAATTATAAAAGAAGAAGACATGTGTCTTTGATATAAAAAATTAAAAGAT-GGGGCA
1 AAATGATTAAATTATAAAAGAAGAAGACATGTGTCTTTGATATAAAAAATTAAAAGATGGGGGCG
346841 TATATTATTGCAATGAAGAGTGTAATG
66 TATATTATTGCAATGAAGAGTGTAATG
*
346868 AAATGATTAAACTATAAAAGAAGAAGACATGTGT
1 AAATGATTAAATTATAAAAGAAGAAGACATGTGT
346902 GACACGTGGA
Statistics
Matches: 206, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
89 27 0.13
91 77 0.37
92 14 0.07
93 88 0.43
ACGTcount: A:0.47, C:0.04, G:0.21, T:0.28
Consensus pattern (92 bp):
AAATGATTAAATTATAAAAGAAGAAGACATGTGTCTTTGATATAAAAAATTAAAAGATGGGGGCG
TATATTATTGCAATGAAGAGTGTAATG
Found at i:360296 original size:21 final size:22
Alignment explanation
Indices: 360259--360319 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
360249 ATTATTTATT
360259 TATATA-TATA-T-ATATATA-
1 TATATATTATATTAATATATAC
360277 TATATAATTAT-TTAATATATAC
1 TATAT-ATTATATTAATATATAC
*
360299 TTTATATTATATTAAT-TATAC
1 TATATATTATATTAATATATAC
360320 CAAAAAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
18 5 0.14
19 1 0.03
20 4 0.11
21 17 0.47
22 9 0.25
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (22 bp):
TATATATTATATTAATATATAC
Found at i:361345 original size:32 final size:32
Alignment explanation
Indices: 361303--361422 Score: 82
Period size: 32 Copynumber: 3.4 Consensus size: 32
361293 TTTAAACTAA
361303 AATA-CCTAAAACAAAGATAAAATATAAAAAT
1 AATATCCTAAAACAAAGATAAAATATAAAAAT
* *
361334 AATATCCTAAAACTTAA-TTAAAATACTAAAACCTATTT
1 AATATCCTAAAAC-AAAGATAAAATA-TAAAA---A--T
*
361372 AAACTAAAATACCTAAAATAAAGATAAAATATAAAAAT
1 -AA-T---AT-CCTAAAACAAAGATAAAATATAAAAAT
361410 AATATCCTAAAAC
1 AATATCCTAAAAC
361423 TTAATTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 29
0.66 0.06 0.28
Matches are distributed among these distances:
31 4 0.06
32 22 0.32
33 9 0.13
36 2 0.03
37 2 0.03
38 2 0.03
39 2 0.03
40 2 0.03
43 9 0.13
44 14 0.21
ACGTcount: A:0.61, C:0.12, G:0.02, T:0.25
Consensus pattern (32 bp):
AATATCCTAAAACAAAGATAAAATATAAAAAT
Found at i:361370 original size:76 final size:76
Alignment explanation
Indices: 361272--361481 Score: 386
Period size: 76 Copynumber: 2.8 Consensus size: 76
361262 TCTTAAATCC
*
361272 TAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
1 TAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAA
361336 TATCCTAAAACT
65 TATCCTAAAACT
*
361348 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAATAAAGATAAAATATAAAAATAAT
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
361413 ATCCTAAAACT
66 ATCCTAAAACT
361424 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
361482 TATTTAAAAT
Statistics
Matches: 130, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
75 5 0.04
76 125 0.96
ACGTcount: A:0.60, C:0.12, G:0.01, T:0.27
Consensus pattern (76 bp):
TAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAAT
ATCCTAAAACT
Found at i:361388 original size:44 final size:44
Alignment explanation
Indices: 361334--361466 Score: 139
Period size: 44 Copynumber: 3.3 Consensus size: 44
361324 ATATAAAAAT
361334 AATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAA
1 AATA-CCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAA
* *
361379 AATACCTAAAA-TAAAGATAAAATA-TAAAA---A--T-AA-T--
1 AATACCTAAAACTTAA-TTAAAATACTAAAACCTATTTAAACTAA
361413 -AT-CCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAA
1 AATACCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAA
361455 AATACCTAAAAC
1 AATACCTAAAAC
361467 AAAGATAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 29
0.68 0.04 0.28
Matches are distributed among these distances:
32 14 0.20
33 10 0.14
36 2 0.03
37 2 0.03
38 2 0.03
39 2 0.03
40 2 0.03
43 10 0.14
44 22 0.31
45 4 0.06
ACGTcount: A:0.57, C:0.14, G:0.01, T:0.28
Consensus pattern (44 bp):
AATACCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAA
Found at i:362260 original size:22 final size:22
Alignment explanation
Indices: 362235--362283 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
362225 GGGAAAAGGC
362235 CGAAAAGAAAGGTTTAAAATGT
1 CGAAAAGAAAGGTTTAAAATGT
*
362257 CGAAAAGAAATGTTTAAAATGT
1 CGAAAAGAAAGGTTTAAAATGT
362279 CGAAA
1 CGAAA
362284 CAAGAGATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.51, C:0.06, G:0.20, T:0.22
Consensus pattern (22 bp):
CGAAAAGAAAGGTTTAAAATGT
Found at i:363514 original size:22 final size:23
Alignment explanation
Indices: 363468--363562 Score: 65
Period size: 22 Copynumber: 4.3 Consensus size: 23
363458 CTGTTCAGAG
* *
363468 AAAAATAAAATAAAATTAAATTA
1 AAAAATAAAATAAAATAAAAATA
*
363491 AAAAAT-AAATAGAATAAAAATA
1 AAAAATAAAATAAAATAAAAATA
*** **
363513 AAGTTTGCTAA-AAAAT-AAAAT-
1 AAAAAT-AAAATAAAATAAAAATA
*
363534 AAAAATAAAATGAAATAAAA-TA
1 AAAAATAAAATAAAATAAAAATA
363556 AAAAATA
1 AAAAATA
363563 GAACGAAATG
Statistics
Matches: 53, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
20 2 0.04
21 8 0.15
22 31 0.58
23 10 0.19
24 2 0.04
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAAATAAAATAAAATAAAAATA
Found at i:363552 original size:28 final size:28
Alignment explanation
Indices: 363468--363562 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 28
363458 CTGTTCAGAG
*
363468 AAAAATAAAAT-AAAATTAAATTAAA-A
1 AAAAATAAAATAAAAATAAAATTAAATA
* * ***
363494 AATAAATAGAATAAAAATAAAGTTTGCTA
1 AA-AAATAAAATAAAAATAAAATTAAATA
*
363523 AAAAATAAAATAAAAATAAAATGAAATA
1 AAAAATAAAATAAAAATAAAATTAAATA
363551 AAATAA-AAAATA
1 AAA-AATAAAATA
363563 GAACGAAATG
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
26 2 0.04
27 8 0.15
28 38 0.72
29 5 0.09
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (28 bp):
AAAAATAAAATAAAAATAAAATTAAATA
Found at i:363570 original size:22 final size:21
Alignment explanation
Indices: 363525--363571 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
363515 GTTTGCTAAA
*
363525 AAATAAAATAAAAATAAAATG
1 AAATAAAATAAAAATAAAACG
*
363546 AAATAAAATAAAAAATAGAACG
1 AAATAAAAT-AAAAATAAAACG
363568 AAAT
1 AAAT
363572 GGGTTGCCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.74, C:0.02, G:0.06, T:0.17
Consensus pattern (21 bp):
AAATAAAATAAAAATAAAACG
Found at i:369142 original size:23 final size:25
Alignment explanation
Indices: 369116--369161 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
369106 AAAAAGCTAT
369116 AAAAAATAAATAAT-TA-TAAATTA
1 AAAAAATAAATAATATACTAAATTA
369139 AAAAAATAAATAATATACTAAAT
1 AAAAAATAAATAATATACTAAAT
369162 AATGAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 14 0.67
24 2 0.10
25 5 0.24
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (25 bp):
AAAAAATAAATAATATACTAAATTA
Found at i:369250 original size:17 final size:17
Alignment explanation
Indices: 369230--369263 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
369220 AATGAGATAA
*
369230 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
369247 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
369264 TGGGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:369971 original size:76 final size:76
Alignment explanation
Indices: 369888--370079 Score: 348
Period size: 76 Copynumber: 2.5 Consensus size: 76
369878 ACATTTTAAA
* *
369888 CTATTTAAACTAAAATACCTAAAACAATGATAAAATATAAAAATAATATCCTAAAACTTAATTAA
1 CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAACATCCTAAAACTTAATTAA
369953 AATACTAAAAC
66 AATACTAAAAC
369964 CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAACATCCTAAAACTTAATTAA
1 CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAACATCCTAAAACTTAATTAA
*
370029 ATTACTAAAAC
66 AATACTAAAAC
*
370040 CTATTTAAACTAAAATATCTAAAACAAAGATAAAATATAA
1 CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
370080 TATTTAAAAT
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 112 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (76 bp):
CTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAAAATAACATCCTAAAACTTAATTAA
AATACTAAAAC
Found at i:369986 original size:44 final size:44
Alignment explanation
Indices: 369932--370064 Score: 121
Period size: 44 Copynumber: 3.3 Consensus size: 44
369922 ATATAAAAAT
369932 AATATCCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAA
1 AATA-CCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAA
* *
369977 AATACCTAAAAC-AAAGATAAAATA-TAAAA---A--T-AAC---
1 AATACCTAAAACTTAA-TTAAAATACTAAAACCTATTTAAACTAA
*
370011 -AT-CCTAAAACTTAATTAAATTACTAAAACCTATTTAAACTAA
1 AATACCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAA
*
370053 AATATCTAAAAC
1 AATACCTAAAAC
370065 AAAGATAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 29
0.66 0.06 0.28
Matches are distributed among these distances:
32 14 0.21
33 9 0.13
36 1 0.01
37 3 0.04
38 2 0.03
39 3 0.04
40 1 0.01
43 9 0.13
44 22 0.32
45 4 0.06
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.28
Consensus pattern (44 bp):
AATACCTAAAACTTAATTAAAATACTAAAACCTATTTAAACTAA
Found at i:370823 original size:124 final size:123
Alignment explanation
Indices: 370597--370900 Score: 349
Period size: 124 Copynumber: 2.5 Consensus size: 123
370587 TGGTTACTCT
* ** *
370597 TAATCTGGTGACGATCTCACTCTTTCCTCTAAAAGACTTTGAGTCGTGGAACGATCTTACTGATT
1 TAATCTGGTGACGATCTCACTCTTTCCTCTGAAAGACGCTGAGTCGTGGAACGATCTCACTGATT
* * * * * * * *
370662 CCTCTGATGAACGCTAAGTCGTGATTTGGGGTGATCCAC-TCATTTCATTGAAGGGTAC
66 CCTATGAAGAACACTAAGTCGTAATTCGGGGTCATCCACTTC-TTTCACTGAAGGATAC
* * * * **
370720 TGAATCTGGTGACGATCTCACTATTTCCTCTGAAAGACGCCGAGTCTTGGAATGATCTCACTTCT
1 T-AATCTGGTGACGATCTCACTCTTTCCTCTGAAAGACGCTGAGTCGTGGAACGATCTCACTGAT
* *
370785 TCTTATGAAGGACACTAAGTCGTAATTCGGGGTCATCCACTTCTTTCACTGAAGGATAC
65 TCCTATGAAGAACACTAAGTCGTAATTCGGGGTCATCCACTTCTTTCACTGAAGGATAC
* * * * * *
370844 TAAACTGGTGATGATCTCACTCCTTCCTCTGAATGACGCTGAGTCGCGAAACGATCT
1 TAATCTGGTGACGATCTCACTCTTTCCTCTGAAAGACGCTGAGTCGTGGAACGATCT
370901 TACTCTATTA
Statistics
Matches: 149, Mismatches: 30, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
123 47 0.32
124 100 0.67
125 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (123 bp):
TAATCTGGTGACGATCTCACTCTTTCCTCTGAAAGACGCTGAGTCGTGGAACGATCTCACTGATT
CCTATGAAGAACACTAAGTCGTAATTCGGGGTCATCCACTTCTTTCACTGAAGGATAC
Found at i:371957 original size:32 final size:32
Alignment explanation
Indices: 371911--372025 Score: 221
Period size: 32 Copynumber: 3.6 Consensus size: 32
371901 CGTTGATCAT
*
371911 GTTTCTCTCGAACACTAAGGATCTTTCACCTA
1 GTTTCTCTCAAACACTAAGGATCTTTCACCTA
371943 GTTTCTCTCAAACACTAAGGATCTTTCACCTA
1 GTTTCTCTCAAACACTAAGGATCTTTCACCTA
371975 GTTTCTCTCAAACACTAAGGATCTTTCACCTA
1 GTTTCTCTCAAACACTAAGGATCTTTCACCTA
372007 GTTTCTCTCAAACACTAAG
1 GTTTCTCTCAAACACTAAG
372026 TGTTCTACCT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 82 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (32 bp):
GTTTCTCTCAAACACTAAGGATCTTTCACCTA
Found at i:377662 original size:2 final size:2
Alignment explanation
Indices: 377655--377717 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
377645 TTGAGAAACA
377655 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
377697 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
377718 GTTTTCATAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:378245 original size:20 final size:20
Alignment explanation
Indices: 378216--378253 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
378206 CCCCTTCAAA
*
378216 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
378236 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
378254 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:382102 original size:22 final size:21
Alignment explanation
Indices: 382060--382099 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
382050 GAGTTTATTT
*
382060 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
382081 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
382100 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:386496 original size:241 final size:241
Alignment explanation
Indices: 386065--386518 Score: 730
Period size: 241 Copynumber: 1.9 Consensus size: 241
386055 ACCTCATCAG
* * *
386065 CCTCTTCATCAACTCATGGGTACTCTAGCGTGTTAACCACGAAACCTCTAGACACAAAAGTTTTG
1 CCTCTTCATCAACCCATGGGTACTCTAGCGTGTCAACCACGAAACCTCCAGACACAAAAGTTTTG
* * *
386130 GTAATGGGTAGTATGAATATGGTTCCCCACACAACATCTTGACCACTTTCCCTCACATTCCTTCT
66 GTAATGGGTAGTATGAATATAGTTCCCCACACAACATCTTGACCACTTGCCATCACATTCCTTCT
* *
386195 TTCCTTAAGCTTTTGAGCATCCTTAAATTTATCTTGATATGAGGGCTAATACTCAATTCCAAAAT
131 TTCCTTAAGCTTCTGAGCATCATTAAATTTATCTTGATATGAGGGCTAATACTCAATTCCAAAAT
386260 AATTCATTTTAGATACCAAGGTTAGAATCTCATTAATTCCTTGCCA
196 AATTCATTTTAGATACCAAGGTTAGAATCTCATTAATTCCTTGCCA
386306 CCTCTTCATCAACCCATGGGTACTCTAGCGTGTCAACCACGAAACCTCCAGACACAAAAGTTTTG
1 CCTCTTCATCAACCCATGGGTACTCTAGCGTGTCAACCACGAAACCTCCAGACACAAAAGTTTTG
* * * * * *
386371 TTAATGGGTGGTATGACTATAGTTCCCCACACAACATCTTGACCACTTGCCATCGCCTTCCTTTT
66 GTAATGGGTAGTATGAATATAGTTCCCCACACAACATCTTGACCACTTGCCATCACATTCCTTCT
* * *
386436 TTCCTTAAGCTTCTGAGCATCATTGACTTTATCTTGATATGAGGGCTTATAC-CTAATTCCAAAA
131 TTCCTTAAGCTTCTGAGCATCATTAAATTTATCTTGATATGAGGGCTAATACTC-AATTCCAAAA
*
386500 TAATTCCTTTTAGATACCA
195 TAATTCATTTTAGATACCA
386519 GGGCTGAAAT
Statistics
Matches: 194, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
240 1 0.01
241 193 0.99
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (241 bp):
CCTCTTCATCAACCCATGGGTACTCTAGCGTGTCAACCACGAAACCTCCAGACACAAAAGTTTTG
GTAATGGGTAGTATGAATATAGTTCCCCACACAACATCTTGACCACTTGCCATCACATTCCTTCT
TTCCTTAAGCTTCTGAGCATCATTAAATTTATCTTGATATGAGGGCTAATACTCAATTCCAAAAT
AATTCATTTTAGATACCAAGGTTAGAATCTCATTAATTCCTTGCCA
Found at i:391256 original size:17 final size:17
Alignment explanation
Indices: 391243--391275 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
391233 CGAATGCATT
391243 CCATGCATCGATGCACA
1 CCATGCATCGATGCACA
*
391260 CCATGCACCGATGCAC
1 CCATGCATCGATGCAC
391276 TGAGGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.39, G:0.18, T:0.15
Consensus pattern (17 bp):
CCATGCATCGATGCACA
Found at i:391332 original size:28 final size:28
Alignment explanation
Indices: 391299--391360 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
391289 AGAACATCGA
*
391299 ATGCATTTGATGCATCGATGCATCATCC
1 ATGCATTTGATGCATCGATGCACCATCC
*
391327 ATGCATTTGATGCATTGATGCACCATCC
1 ATGCATTTGATGCATCGATGCACCATCC
391355 ATGCAT
1 ATGCAT
391361 CGATGCACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (28 bp):
ATGCATTTGATGCATCGATGCACCATCC
Found at i:391413 original size:17 final size:19
Alignment explanation
Indices: 391385--391433 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
391375 TATTTTGAAA
391385 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
391403 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
391422 CACCGATGCACT
1 CATCGATGCACT
391434 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:396236 original size:37 final size:37
Alignment explanation
Indices: 396167--396237 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
396157 AAAAAAACTT
*
396167 AAAATAAAGGATGAATTGAAGAAATAACAAAATTATG
1 AAAATAAAGGATAAATTGAAGAAATAACAAAATTATG
396204 AAAATAAAGGGACTAAATTGAA-AAATAA-AAAATT
1 AAAATAAA-GGA-TAAATTGAAGAAATAACAAAATT
396238 TATTATCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 14 0.45
38 9 0.29
39 8 0.26
ACGTcount: A:0.62, C:0.03, G:0.14, T:0.21
Consensus pattern (37 bp):
AAAATAAAGGATAAATTGAAGAAATAACAAAATTATG
Found at i:396426 original size:8 final size:8
Alignment explanation
Indices: 396415--396442 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
396405 TTTGAGTAAC
396415 TCAAAATT
1 TCAAAATT
396423 TCAAAATT
1 TCAAAATT
396431 TCAAAATT
1 TCAAAATT
396439 TCAA
1 TCAA
396443 TTCGACTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (8 bp):
TCAAAATT
Found at i:401788 original size:42 final size:42
Alignment explanation
Indices: 401741--402280 Score: 599
Period size: 42 Copynumber: 12.9 Consensus size: 42
401731 TGCGATTTTG
*
401741 GACTATCGCAACGAACTTGGAATAAATCGCAATGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
401783 AACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* *
401825 GACTATCGCAACGAAATTGGAATAAATCGCAACGCAAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
401867 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
401909 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTT
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
401951 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
**
401993 GACTATCGCAACGAACTTGGAATAAATCGCAACGTAAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
* * *
402035 GACTATCGCAACGCGAACTTGGACT--ATCGCAA--CGAATTTG
1 GACTATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTC
* * * * *
402075 GAATAAATCGCAACGCGAACTTCGACT--ATCGCAA--CGAATTTG
1 GACT--ATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTC
* * * *
402117 GAATAAATCGCAACGCGAACTTTGACT--ATCGCAA--CGAACTTT
1 GACT--ATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTC
* * * *
402159 GAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAACTTG
1 GACT--ATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTC
* * *
402203 GACTATCGCAACGAATTTGGAATAAATCGGAACGTGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
402245 GACTATCGCAACGAACTTGGACT--ATCGCAACGCGAA
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAA
402281 TTTGGAATAA
Statistics
Matches: 456, Mismatches: 34, Indels: 18
0.90 0.07 0.04
Matches are distributed among these distances:
40 27 0.06
42 408 0.89
44 21 0.05
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:402323 original size:42 final size:42
Alignment explanation
Indices: 402039--402336 Score: 330
Period size: 42 Copynumber: 7.1 Consensus size: 42
402029 AACTTCGACT
402039 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
*
402081 ATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
*
402123 ATCGCAACGCGAACTTTGACTATCGCAACGAACTTT-GAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAA-TTTGGAATAA
* * *
402165 ATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACT--
1 ATCGCAACGCGAACTTGGACTATCGCAA--CGAATTTGGAATAA
* * * * * *
402207 ATCGCAA--CGAATTTGGAATAAATCGGAACGTGAACTTCGACT--
1 ATCGCAACGCGAACTTGGACT--ATCGCAAC--GAATTTGGAATAA
402249 ATCGCAA--CGAACTTGGACTATCGCAACGCGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAA--CGAATTTGGAATAA
*
402291 ATCGCAACGCAAACTTGGACTATCGCAACGAATTTGG-A-AA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
402331 ATCGCA
1 ATCGCA
402337 TTGCGATAGT
Statistics
Matches: 225, Mismatches: 17, Indels: 30
0.83 0.06 0.11
Matches are distributed among these distances:
40 32 0.14
41 1 0.00
42 162 0.72
43 5 0.02
44 25 0.11
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.21
Consensus pattern (42 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
Done.