Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold66
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: 4623749
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 850 characters in sequence are not A, C, G, or T
File 2 of 26
Found at i:161200 original size:26 final size:26
Alignment explanation
Indices: 161149--161203 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
161139 GTTAATATTA
*
161149 ATTATTTATTATTAAAATATGAAAAT
1 ATTATTTATTAATAAAATATGAAAAT
* *
161175 ATTATTT-TTAATAAGATTTGAGAAAT
1 ATTATTTATTAATAAAATATGA-AAAT
161201 ATT
1 ATT
161204 TAAAATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (26 bp):
ATTATTTATTAATAAAATATGAAAAT
Found at i:165038 original size:52 final size:52
Alignment explanation
Indices: 164960--165088 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
164950 CGAAATATGA
* *
164960 AAATTTACCTACATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
165012 AAATTTACCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
165064 AAATTTGCCTGCATGTATCGATACA
1 AAATTTACCTGCATGTATCGATACA
165089 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (52 bp):
AAATTTACCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:165101 original size:52 final size:51
Alignment explanation
Indices: 164960--165108 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 51
164950 CGAAATATGA
*
164960 AAATTTACCTACATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
165012 AAATTTACCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTACCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
165064 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTACCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
165109 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (51 bp):
AAATTTACCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:165115 original size:13 final size:13
Alignment explanation
Indices: 165097--165121 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
165087 CAAAGATCAG
165097 TGTATCGATACAA
1 TGTATCGATACAA
165110 TGTATCGATACA
1 TGTATCGATACA
165122 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:169919 original size:2 final size:2
Alignment explanation
Indices: 169912--169945 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
169902 CTCAGTCCAC
169912 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
169946 TACATTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:170314 original size:2 final size:2
Alignment explanation
Indices: 170307--170339 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
170297 TATACATTAG
170307 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
170340 GGATTTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:171554 original size:2 final size:2
Alignment explanation
Indices: 171547--171576 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
171537 GCAGGTTAAT
171547 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
171577 GCTAGCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:172198 original size:2 final size:2
Alignment explanation
Indices: 172191--172226 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
172181 TGAGAAAGTA
172191 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
172227 GATCTTTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:174716 original size:236 final size:237
Alignment explanation
Indices: 174302--174740 Score: 763
Period size: 236 Copynumber: 1.9 Consensus size: 237
174292 GATTATGTTT
* * *
174302 AGAATTAAAGAAGATATAATTGTTGAAATGGGCATTTACGATGTGATTGTTGAAACTGATTCTTT
1 AGAATTAAAGAAAATATAATTATTGAAATGGGCATTTACGATGTGATTGTTGAAACGGATTCTTT
* * * *
174367 GCAAGCTTATATGGAGATTAATGGTGGTCGGGCAAGTTCATCGGCAGCTGGTCATATAATTGATA
66 GCAAGCTTATATGGAGATCAATAGTGGTAGGGCAAGTTCATCGGCAGCAGGTCATATAATTGATA
* * * *
174432 TGAAACCATATTGCTATCATCTCAATTAGATTCTCTTCCATGGTCCTTTGTTATAAGGGAGGAGA
131 TGAAACCATATTGCTATCATATAAATTAGATTCTCTTACATGGTCCTTTGTTAAAAGGGAGGAGA
174497 ATATTGCTGCACTCACCTTAGCTACACATGCATTATATGTCC
196 ATATTGCTGCACTCACCTTAGCTACACATGCATTATATGTCC
174539 AGAATTAAAGAAAATATAATTATTGAAATGGGCA-TTACGATGTGATTGTTGAAACGGATTCTTT
1 AGAATTAAAGAAAATATAATTATTGAAATGGGCATTTACGATGTGATTGTTGAAACGGATTCTTT
174603 GCAAGCTTATATGGAGATCAATAGTGGTAGGGCAAGTTCATCGGCAGCAGGTCATATAATTGATA
66 GCAAGCTTATATGGAGATCAATAGTGGTAGGGCAAGTTCATCGGCAGCAGGTCATATAATTGATA
*
174668 TGAAACCATATTGCTATCATATAAATTAGATTCTCTTACATGGTCCTTTGTTAAAAGGGAGGGGA
131 TGAAACCATATTGCTATCATATAAATTAGATTCTCTTACATGGTCCTTTGTTAAAAGGGAGGAGA
174733 ATATTGCT
196 ATATTGCT
174741 ACACATTCAT
Statistics
Matches: 190, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
236 158 0.83
237 32 0.17
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (237 bp):
AGAATTAAAGAAAATATAATTATTGAAATGGGCATTTACGATGTGATTGTTGAAACGGATTCTTT
GCAAGCTTATATGGAGATCAATAGTGGTAGGGCAAGTTCATCGGCAGCAGGTCATATAATTGATA
TGAAACCATATTGCTATCATATAAATTAGATTCTCTTACATGGTCCTTTGTTAAAAGGGAGGAGA
ATATTGCTGCACTCACCTTAGCTACACATGCATTATATGTCC
Found at i:175627 original size:5 final size:5
Alignment explanation
Indices: 175617--175644 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
175607 GACCGGAGGA
175617 TTCTG TTCTG TTCTG TTCTG TTCTG TTC
1 TTCTG TTCTG TTCTG TTCTG TTCTG TTC
175645 CGTTTCCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.21, G:0.18, T:0.61
Consensus pattern (5 bp):
TTCTG
Found at i:180514 original size:2 final size:2
Alignment explanation
Indices: 180509--180538 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
180499 TCTAATCCCC
180509 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
180539 GTCTTGGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:182604 original size:2 final size:2
Alignment explanation
Indices: 182597--182635 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
182587 TGCGTATTGA
182597 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
182636 TTTCTTTTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:190926 original size:17 final size:17
Alignment explanation
Indices: 190890--190927 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
190880 CCAATCTTTG
*
190890 TTTTTTTTTTTCTTTTC
1 TTTTTTTTTTTCTTTAC
190907 TTTTTTTTTTT-TTTCAC
1 TTTTTTTTTTTCTTT-AC
190924 TTTT
1 TTTT
190928 CATGATCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTTTTTTTTCTTTAC
Found at i:192213 original size:6 final size:6
Alignment explanation
Indices: 192196--192225 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
192186 TATTGGTAAT
*
192196 TAGGAG TGGGAG TAGGAG TAGGAG TAGGAG
1 TAGGAG TAGGAG TAGGAG TAGGAG TAGGAG
192226 GTGATTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.53, T:0.17
Consensus pattern (6 bp):
TAGGAG
Found at i:192665 original size:2 final size:2
Alignment explanation
Indices: 192658--192684 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
192648 TTTCCAAAAC
192658 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
192685 GAACACAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:192937 original size:2 final size:2
Alignment explanation
Indices: 192930--192963 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
192920 AAAACATCAA
* *
192930 AT AT AT AT GT GT 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
192964 CCCTTATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:193523 original size:3 final size:3
Alignment explanation
Indices: 193515--193543 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
193505 CCTTCCACCC
193515 AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
193544 TAGACGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:194401 original size:2 final size:2
Alignment explanation
Indices: 194394--194424 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
194384 TCTTTTACGC
*
194394 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
194425 CATCCCATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:204179 original size:2 final size:2
Alignment explanation
Indices: 204172--204208 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
204162 CACTTATAAA
204172 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
204209 AATAGCATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:208102 original size:2 final size:2
Alignment explanation
Indices: 208095--208135 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
208085 ATCTGCTTAA
208095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
208136 ATTTTGCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:214581 original size:7 final size:7
Alignment explanation
Indices: 214569--214599 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
214559 TTAGAAACAA
214569 ACTATCT
1 ACTATCT
214576 ACTATCT
1 ACTATCT
214583 ACTATCT
1 ACTATCT
214590 ACTATCT
1 ACTATCT
214597 ACT
1 ACT
214600 GATTATCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (7 bp):
ACTATCT
Found at i:218334 original size:3 final size:3
Alignment explanation
Indices: 218328--218355 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
218318 TTATATGACA
218328 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
218356 GTTGTAGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:224252 original size:2 final size:2
Alignment explanation
Indices: 224239--224270 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
224229 TCAAATCGTA
*
224239 AT AT AA 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
224271 TTTTTTTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:226200 original size:21 final size:21
Alignment explanation
Indices: 226143--226200 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
226133 AAAATGTATC
**
226143 TTTGAATGAAATGATGCATTG
1 TTTGAATGAAAAAATGCATTG
* * *
226164 GTTGGAT-AAAAGAATGCATTT
1 TTTGAATGAAAA-AATGCATTG
226185 TTTGAATGAAAAAATG
1 TTTGAATGAAAAAATG
226201 TCACTTTTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
20 3 0.11
21 21 0.75
22 4 0.14
ACGTcount: A:0.40, C:0.03, G:0.22, T:0.34
Consensus pattern (21 bp):
TTTGAATGAAAAAATGCATTG
Found at i:226330 original size:9 final size:9
Alignment explanation
Indices: 226318--226351 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
226308 TCAAAATTTG
226318 TATTCCACC
1 TATTCCACC
*
226327 TATTCTACC
1 TATTCCACC
226336 TATTCCACC
1 TATTCCACC
226345 TATTCCA
1 TATTCCA
226352 TTTCATTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.24, C:0.38, G:0.00, T:0.38
Consensus pattern (9 bp):
TATTCCACC
Found at i:227776 original size:16 final size:16
Alignment explanation
Indices: 227755--227788 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
227745 ACCTTGATAA
227755 AAGGTTTATATGCAAC
1 AAGGTTTATATGCAAC
*
227771 AAGGTTTGTATGCAAC
1 AAGGTTTATATGCAAC
227787 AA
1 AA
227789 CCTTAAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (16 bp):
AAGGTTTATATGCAAC
Found at i:229658 original size:9 final size:9
Alignment explanation
Indices: 229646--229675 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
229636 CAAAATTTTC
229646 ATTCCACCT
1 ATTCCACCT
*
229655 ATTCCACTT
1 ATTCCACCT
229664 ATTCCACCT
1 ATTCCACCT
229673 ATT
1 ATT
229676 ACATTCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.23, C:0.37, G:0.00, T:0.40
Consensus pattern (9 bp):
ATTCCACCT
Found at i:230249 original size:2 final size:2
Alignment explanation
Indices: 230242--230273 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
230232 ATCTTTACTT
230242 TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
230274 CTGATGAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:242574 original size:21 final size:21
Alignment explanation
Indices: 242549--242612 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
242539 AAATATTTTA
242549 AAATTTTTATTAATATAATAT
1 AAATTTTTATTAATATAATAT
*
242570 AAATTATTT-TAAATATAAT-T
1 AAATT-TTTATTAATATAATAT
* * *
242590 ATA-TTTTAATAAAAT-ATAT
1 AAATTTTTATTAATATAATAT
242609 AAAT
1 AAAT
242613 ATAAAGTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
18 5 0.15
19 8 0.24
20 3 0.09
21 14 0.42
22 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AAATTTTTATTAATATAATAT
Found at i:242596 original size:17 final size:16
Alignment explanation
Indices: 242565--242617 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
242555 TTATTAATAT
242565 AATATAAATTATTTTA
1 AATATAAATTATTTTA
*
242581 AATAT-AATTATATTTT
1 AATATAAATTAT-TTTA
*
242597 AATA-AAA-TA-TATA
1 AATATAAATTATTTTA
242610 AATATAAA
1 AATATAAA
242618 GTAAACCCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 6 0.19
14 3 0.10
15 8 0.26
16 14 0.45
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATAAATTATTTTA
Found at i:242607 original size:15 final size:16
Alignment explanation
Indices: 242564--242608 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
242554 TTTATTAATA
242564 TAATATAAAT-TATTT
1 TAATATAAATATATTT
*
242579 TAAATATAATTATATTT
1 T-AATATAAATATATTT
242596 TAATA-AAATATAT
1 TAATATAAATATAT
242609 AAATATAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 8 0.31
16 12 0.46
17 6 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATATAAATATATTT
Found at i:245400 original size:2 final size:2
Alignment explanation
Indices: 245395--245428 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
245385 ATATATATAT
245395 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
245429 GTTAAATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:248748 original size:2 final size:2
Alignment explanation
Indices: 248741--248765 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
248731 TACGTGTACG
248741 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
248766 GTACTATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:254579 original size:3 final size:3
Alignment explanation
Indices: 254571--254600 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
254561 CCTGAAACAC
*
254571 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
254601 TGTGAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:255564 original size:14 final size:15
Alignment explanation
Indices: 255537--255569 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
255527 TTATTTATAA
255537 AAAAAAAAAGGAAAG
1 AAAAAAAAAGGAAAG
*
255552 AAAAGAAAA-GAAAG
1 AAAAAAAAAGGAAAG
255566 AAAA
1 AAAA
255570 TAAACTTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGGAAAG
Found at i:256492 original size:27 final size:27
Alignment explanation
Indices: 256436--256501 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
256426 TATTATTTAA
*
256436 AAATAAAATTAAATAATTTAAAATACTT
1 AAATAAAA-TAAATAATTTAAAATAATT
*
256464 -AATAAAATAATATATTTTAAACA-AATT
1 AAATAAAATAA-ATAATTTAAA-ATAATT
256491 AAATATAAATA
1 AAATA-AAATA
256502 TTAAATGTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
26 3 0.09
27 19 0.59
28 5 0.16
29 5 0.16
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (27 bp):
AAATAAAATAAATAATTTAAAATAATT
Found at i:257185 original size:15 final size:15
Alignment explanation
Indices: 257167--257235 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
257157 ATATTTTATT
257167 ATTAAAATATTTAAA
1 ATTAAAATATTTAAA
257182 ATTATATAATA-TTAAA
1 ATTA-A-AATATTTAAA
*
257198 ATTTAAAATTATATAAA
1 A-TTAAAA-TATTTAAA
* * *
257215 A-TAAATTTTTTATA
1 ATTAAAATATTTAAA
257229 ATTAAAA
1 ATTAAAA
257236 AATTATCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
14 6 0.14
15 14 0.33
16 10 0.24
17 12 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTAAAATATTTAAA
Found at i:257216 original size:17 final size:15
Alignment explanation
Indices: 257168--257216 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 15
257158 TATTTTATTA
257168 TTAAAATATTTAAAAT
1 TTAAAATA-TTAAAAT
*
257184 TATATAATATTAAAAT
1 T-TAAAATATTAAAAT
257200 TTAAAATTATATAAAAT
1 TTAAAA-TAT-TAAAAT
257217 AAATTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 4 0.14
16 12 0.43
17 12 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAAAATATTAAAAT
Found at i:257217 original size:25 final size:25
Alignment explanation
Indices: 257166--257213 Score: 82
Period size: 23 Copynumber: 2.0 Consensus size: 25
257156 TATATTTTAT
257166 TATTAAAATATTTAAAATTATATAA
1 TATTAAAATATTTAAAATTATATAA
257191 TATT-AAA-ATTTAAAATTATATAA
1 TATTAAAATATTTAAAATTATATAA
257214 AATAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 16 0.70
24 3 0.13
25 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
TATTAAAATATTTAAAATTATATAA
Found at i:257445 original size:7 final size:7
Alignment explanation
Indices: 257433--257467 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
257423 TATAAAAAAT
257433 TAATTTA
1 TAATTTA
257440 TAATTTA
1 TAATTTA
257447 TAATTTA
1 TAATTTA
*
257454 TTATTTAA
1 TAATTT-A
257462 TAATTT
1 TAATTT
257468 TTTAATTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TAATTTA
Found at i:257446 original size:25 final size:25
Alignment explanation
Indices: 257393--257446 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
257383 AAAACAAAAT
*
257393 TTTAATTATTAAAAAATTATTATAT
1 TTTAATTATTAAAAAATTATTATAA
257418 TTTAA-TA-TAAAAAATTAATTTATAA
1 TTTAATTATTAAAAAATT-A-TTATAA
257443 TTTA
1 TTTA
257447 TAATTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 9 0.35
24 3 0.12
25 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTAATTATTAAAAAATTATTATAA
Found at i:257482 original size:16 final size:15
Alignment explanation
Indices: 257433--257487 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
257423 TATAAAAAAT
*
257433 TAATTTA-TAATTTA
1 TAATTTATTAATTAA
*
257447 TAATTTATTATTTAA
1 TAATTTATTAATTAA
*
257462 TAATTTTTTAATTAGA
1 TAATTTATTAATTA-A
257478 TAATTATATT
1 TAATT-TATT
257488 TTATTATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
14 7 0.21
15 17 0.52
16 6 0.18
17 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
TAATTTATTAATTAA
Found at i:257508 original size:9 final size:9
Alignment explanation
Indices: 257494--257558 Score: 53
Period size: 10 Copynumber: 6.9 Consensus size: 9
257484 TATTTTATTA
257494 TTAAAATAT
1 TTAAAATAT
257503 TTAAAATTAT
1 TTAAAA-TAT
257513 TTGATAAATAT
1 TT-A-AAATAT
257524 TT-AAATATT
1 TTAAAATA-T
*
257533 TTTAAA-AT
1 TTAAAATAT
257541 TTAAAATTAT
1 TTAAAA-TAT
*
257551 TAAAAATA
1 TTAAAATA
257559 AATTTTTTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
8 11 0.23
9 12 0.26
10 15 0.32
11 6 0.13
12 3 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (9 bp):
TTAAAATAT
Found at i:257512 original size:21 final size:20
Alignment explanation
Indices: 257488--257551 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
257478 TAATTATATT
257488 TTATTATTAAAATATTTAAAA
1 TTATT-TTAAAATATTTAAAA
*
257509 TTATTTGATAAATATTT-AAA
1 TTATTTTA-AAATATTTAAAA
*
257529 -TATTTTTAAA-ATTTAAAA
1 TTATTTTAAAATATTTAAAA
257547 TTATT
1 TTATT
257552 AAAAATAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 4 0.11
18 6 0.16
19 9 0.24
20 5 0.14
21 13 0.35
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TTATTTTAAAATATTTAAAA
Found at i:257534 original size:165 final size:160
Alignment explanation
Indices: 257099--257541 Score: 485
Period size: 165 Copynumber: 2.7 Consensus size: 160
257089 TTTTTATATG
* * * * * * *
257099 ATATAAAAAATTGATATATTTTTTA-AAGTTATTATTTTAT-ATTTTTTTACTCATAAATATATT
1 ATATAAAAAATTAATTTATTTTTTATAATTTATTATTTTATAATTTTTTAATTAATAATTATATT
* *
257162 TTATTATTAAAATATTTAAAATTA-TAT-AATA-TTAAA-A--TTTAAAATTATATAAAATAAAT
66 TTATTATTAAAATATTTAAAATTATTATAAATATTTAAATATTTTTAAAATTATATAAAACAAAA
*
257221 TTTTTATAATTAAAAAATTATCATATTTTA
131 TTTTAATAATTAAAAAATTATCATATTTTA
* * * *
257251 ATACTAAAATATTAATATATATTTTCTTTTGAAATTTATTATTTTATAATTTTATAATTTATTAA
1 ATA-TAAAAAATTAAT-T-TATTTT-TTAT--AATTTATTATTTTATAATTTTTTAA-TTAAT-A
257316 ATT-TATTTTATTATTAAAATATTTAAAATTATCTAGTAAATAAATTT--ATATTTTAGTAAAAT
58 ATTATATTTTATTATTAAAATATTTAAAATTAT-TA-TAAAT--ATTTAAATATTTT--TAAAAT
* *
257378 TATATAAAACAAAATTTTAATTATTAAAAAATTATTATATTTTA
117 TATATAAAACAAAATTTTAATAATTAAAAAATTATCATATTTTA
** *
257422 ATATAAAAAATTAATTTATAATTTATAATTTATTATTTAATAATTTTTTAATTAGATAATTATAT
1 ATATAAAAAATTAATTTATTTTTTATAATTTATTATTTTATAATTTTTTAATTA-ATAATTATAT
257487 TTTATTATTAAAATATTTAAAATTATTTGATAAATATTTAAATATTTTTAAAATT
65 TTTATTATTAAAATATTTAAAATTA-TT-ATAAATATTTAAATATTTTTAAAATT
257542 TAAAATTATT
Statistics
Matches: 240, Mismatches: 23, Indels: 45
0.78 0.07 0.15
Matches are distributed among these distances:
152 3 0.01
153 10 0.04
155 6 0.03
156 2 0.01
159 14 0.06
160 7 0.03
161 30 0.12
162 3 0.01
163 13 0.05
164 8 0.03
165 68 0.28
166 3 0.01
167 5 0.02
168 6 0.03
169 3 0.01
170 11 0.05
171 48 0.20
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (160 bp):
ATATAAAAAATTAATTTATTTTTTATAATTTATTATTTTATAATTTTTTAATTAATAATTATATT
TTATTATTAAAATATTTAAAATTATTATAAATATTTAAATATTTTTAAAATTATATAAAACAAAA
TTTTAATAATTAAAAAATTATCATATTTTA
Found at i:257544 original size:17 final size:16
Alignment explanation
Indices: 257517--257555 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
257507 AATTATTTGA
*
257517 TAAATATTTAAATATTTT
1 TAAA-ATTTAAA-ATTAT
257535 TAAAATTTAAAATTAT
1 TAAAATTTAAAATTAT
257551 TAAAA
1 TAAAA
257556 ATAAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 7 0.35
18 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAAATTTAAAATTAT
Found at i:257551 original size:19 final size:21
Alignment explanation
Indices: 257497--257551 Score: 73
Period size: 19 Copynumber: 2.8 Consensus size: 21
257487 TTTATTATTA
257497 AAATATTTAAAATTATTTGAT
1 AAATATTTAAAATTATTTGAT
*
257518 AAATATTT-AAA-TATTT-TT
1 AAATATTTAAAATTATTTGAT
257536 AAA-ATTTAAAATTATT
1 AAATATTTAAAATTATT
257552 AAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 9 0.29
20 3 0.10
21 8 0.26
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATATTTAAAATTATTTGAT
Found at i:261649 original size:145 final size:143
Alignment explanation
Indices: 261371--261631 Score: 387
Period size: 145 Copynumber: 1.8 Consensus size: 143
261361 TCATGTTGCC
* * * *
261371 CTTAATTATTATTATTAATTCTAATAATTTGAACTGACATCGAAGTACTTAACTATAAAGTTTTA
1 CTTAATTATTATTATTAATTCTAACAATTTAAACTAACATCGAAGTACTTAACTACAAAGTTTTA
* * * *
261436 GTTCTAAGGACATTCGTATTTGTATGTTGCAATTTGAGCTTTGAACTGATATCCAAATACTTAAC
66 GTTCTAAGGACATTCGTATTTGCATGTTGCAATTTGAGCTTTGAACGGAAAT-C-AATACTCAAC
261501 TACAAAGTTTTAGTA
129 TACAAAGTTTTAGTA
* * *
261516 CTTAATTATTATTATTAATTCTAACCATTTAAATTAATATCGAAGTACTTAACTACAAAGTTTTA
1 CTTAATTATTATTATTAATTCTAACAATTTAAACTAACATCGAAGTACTTAACTACAAAGTTTTA
* *
261581 GTTCTAAGGATATTCGTATTTGCATGTTGCAATTTGAGCTTTGAAGGGAAA
66 GTTCTAAGGACATTCGTATTTGCATGTTGCAATTTGAGCTTTGAACGGAAA
261632 ATAATCGTAC
Statistics
Matches: 104, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
145 104 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (143 bp):
CTTAATTATTATTATTAATTCTAACAATTTAAACTAACATCGAAGTACTTAACTACAAAGTTTTA
GTTCTAAGGACATTCGTATTTGCATGTTGCAATTTGAGCTTTGAACGGAAATCAATACTCAACTA
CAAAGTTTTAGTA
Found at i:265354 original size:29 final size:29
Alignment explanation
Indices: 265322--265378 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
265312 ATGAATAAAA
* * *
265322 TTAAAATGTTTAAAGGTTGAAAAAATTTG
1 TTAAAATGATTAAAGATTAAAAAAATTTG
265351 TTAAAATGATTAAAGATTAAAAAAATTT
1 TTAAAATGATTAAAGATTAAAAAAATTT
265379 TAAAAAAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (29 bp):
TTAAAATGATTAAAGATTAAAAAAATTTG
Found at i:270950 original size:2 final size:2
Alignment explanation
Indices: 270943--270972 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
270933 AAATGTTATG
270943 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
270973 TTACATTGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:271034 original size:5 final size:5
Alignment explanation
Indices: 271021--271055 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
271011 TGAATGAATT
*
271021 CCATC CCATT CCATC CCATC CCATC CCATC CCATC
1 CCATC CCATC CCATC CCATC CCATC CCATC CCATC
271056 ATAGCCAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.20, C:0.57, G:0.00, T:0.23
Consensus pattern (5 bp):
CCATC
Found at i:276900 original size:22 final size:20
Alignment explanation
Indices: 276861--276899 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
276851 GAAACTTGCA
276861 TTTTTTTCCACTACTTTTGT
1 TTTTTTTCCACTACTTTTGT
276881 TTTTTTATCTCACTA-TTTT
1 TTTTTT-TC-CACTACTTTT
276900 TTTCCTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTTTTCCACTACTTTTGT
Found at i:279960 original size:132 final size:125
Alignment explanation
Indices: 279722--279978 Score: 372
Period size: 132 Copynumber: 2.0 Consensus size: 125
279712 CAGAAAGTCA
*
279722 ATTAATGAGCTCAAAATCTCTTGTTATGTTGGGTAAAAATAAACAATGCTTTATCACATTTAAGA
1 ATTAATGAGCTCAAAATCTCTTGTTATGTTGGGTAAAAATAAAAAATGCTTTATCACATTTAAGA
* * *
279787 GAGTTGTGTTCTTCATAATGTCCGTTAAGATGACAGAACCACCTCCCTCGAGGTCGAAGAAT
66 GACTTGTGTTCTTCATAATGCCCATTAAGATGACAGAACCACCTCCCTCGA--TCGAAGAAT
*
279849 ATTACTGAGCTCAAAATCTCTTGTTATGTTGGGTAAAAA-AATATAAATGCTTTATCACATTTAA
1 ATTAATGAGCTCAAAATCTCTTGTTATGTTGGGTAAAAATAA-A-AAATGCTTTATCACATTTAA
* *
279913 GAAAATTACTTGTGTTTTTCATAATGCCCATTAAGATGACAGAACCACCTCCCTCGATCGAAGAA
64 G---A-GACTTGTGTTCTTCATAATGCCCATTAAGATGACAGAACCACCTCCCTCGATCGAAGAA
279978 T
125 T
279979 CCAATGAAAT
Statistics
Matches: 117, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
126 2 0.02
127 39 0.33
128 20 0.17
130 9 0.08
131 1 0.01
132 46 0.39
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (125 bp):
ATTAATGAGCTCAAAATCTCTTGTTATGTTGGGTAAAAATAAAAAATGCTTTATCACATTTAAGA
GACTTGTGTTCTTCATAATGCCCATTAAGATGACAGAACCACCTCCCTCGATCGAAGAAT
Found at i:280895 original size:2 final size:2
Alignment explanation
Indices: 280888--280916 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
280878 GGCTAGCTAG
280888 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
280917 ATTCGTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:294214 original size:21 final size:22
Alignment explanation
Indices: 294165--294215 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
294155 TTTATTTTCA
294165 TTTA-TAAAATCTAATATTATT
1 TTTATTAAAATCTAATATTATT
294186 TATT-TTAAAAT-TAA-ATGTATT
1 T-TTATTAAAATCTAATAT-TATT
294207 TTTATTAAA
1 TTTATTAAA
294216 TTTTTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
20 4 0.15
21 14 0.54
22 8 0.31
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTATTAAAATCTAATATTATT
Found at i:316514 original size:14 final size:13
Alignment explanation
Indices: 316495--316539 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
316485 ATATATAAAT
316495 AAATATAAATATTA
1 AAATATAAAT-TTA
*
316509 AAATATAATTTTTA
1 AAATATAA-ATTTA
316523 AAATATATAATTTA
1 AAATATA-AATTTA
316537 AAA
1 AAA
316540 AATTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 25 0.93
15 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATATAAATTTA
Found at i:317932 original size:12 final size:13
Alignment explanation
Indices: 317905--317934 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
317895 AATGAAGTGC
317905 ATGATTCAAGTTT
1 ATGATTCAAGTTT
317918 ATGATTCAA-TTT
1 ATGATTCAAGTTT
317930 ATGAT
1 ATGAT
317935 GATCATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (13 bp):
ATGATTCAAGTTT
Found at i:321862 original size:22 final size:22
Alignment explanation
Indices: 321835--321881 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
321825 TGAAGCTGCT
*
321835 TTTGTCAGATGTCAACAGGCTC
1 TTTGTCAGAAGTCAACAGGCTC
*
321857 TTTGTCAGAAGTCAATAGGCTC
1 TTTGTCAGAAGTCAACAGGCTC
321879 TTT
1 TTT
321882 TTATCCCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (22 bp):
TTTGTCAGAAGTCAACAGGCTC
Found at i:325514 original size:27 final size:27
Alignment explanation
Indices: 325464--325515 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
325454 TTAAACATAA
*
325464 ATTATGATACAATATTAATAAAAAAAC
1 ATTATGATACAATATAAATAAAAAAAC
* *
325491 ATTATGATATAATA-AAATATAAAAA
1 ATTATGATACAATATAAATAAAAAAA
325516 TATAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (27 bp):
ATTATGATACAATATAAATAAAAAAAC
Found at i:325708 original size:13 final size:13
Alignment explanation
Indices: 325690--325734 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
325680 GAGGAAAGAT
325690 ATAAAGAAAGAAA
1 ATAAAGAAAGAAA
325703 ATAAAGAAA-AAA
1 ATAAAGAAAGAAA
*
325715 AAAAGAGAAAGAGAA
1 ATAA-AGAAAGA-AA
325730 ATAAA
1 ATAAA
325735 ATGTAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 6 0.22
13 14 0.52
14 2 0.07
15 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.07
Consensus pattern (13 bp):
ATAAAGAAAGAAA
Found at i:325901 original size:21 final size:20
Alignment explanation
Indices: 325863--325913 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
325853 ATTTTTATAT
325863 TATATTTTAATTACTTTTATG
1 TATA-TTTAATTACTTTTATG
*
325884 TCATATTTATATTA-TTTTTTG
1 T-ATATTTA-ATTACTTTTATG
325905 TATATTTAA
1 TATATTTAA
325914 AATATTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 1 0.04
20 7 0.26
21 12 0.44
22 7 0.26
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (20 bp):
TATATTTAATTACTTTTATG
Found at i:325919 original size:20 final size:20
Alignment explanation
Indices: 325863--325919 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
325853 ATTTTTATAT
*
325863 TATATTTTAATTACTTTTATG
1 TATATTTAAATTA-TTTTATG
* *
325884 TCATATTTATATTATTTTTTG
1 T-ATATTTAAATTATTTTATG
*
325905 TATATTTAAAATATT
1 TATATTTAAATTATT
325920 ATAAATTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 12 0.40
21 8 0.27
22 10 0.33
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (20 bp):
TATATTTAAATTATTTTATG
Found at i:326647 original size:24 final size:23
Alignment explanation
Indices: 326615--326664 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
326605 GACATGTTTA
* *
326615 TATTTTTTTGTCACATTATATTTT
1 TATTATTTT-TCACAATATATTTT
*
326639 TATTATTTTTCATAATATATTTT
1 TATTATTTTTCACAATATATTTT
326662 TAT
1 TAT
326665 CGTGTCTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (23 bp):
TATTATTTTTCACAATATATTTT
Found at i:326772 original size:20 final size:21
Alignment explanation
Indices: 326741--326787 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
326731 TATATAAAAT
*
326741 TTTAAA-ATATAAAAAATT-A
1 TTTAAATAAATAAAAAATTAA
* *
326760 TTTAAATAAATAATAATTTAA
1 TTTAAATAAATAAAAAATTAA
326781 TTTAAAT
1 TTTAAAT
326788 TTATAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 9 0.39
21 8 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTAAATAAATAAAAAATTAA
Found at i:327366 original size:2 final size:2
Alignment explanation
Indices: 327359--327387 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
327349 ATTTTAAACG
327359 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
327388 CCGCTTCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:327419 original size:23 final size:23
Alignment explanation
Indices: 327389--327435 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
327379 TATATATATC
327389 CGCTTCAATTAAAACAATTGTTT
1 CGCTTCAATTAAAACAATTGTTT
** *
327412 CGCTTCAATTGGAACACTTGTTT
1 CGCTTCAATTAAAACAATTGTTT
327435 C
1 C
327436 TCACGTGCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (23 bp):
CGCTTCAATTAAAACAATTGTTT
Found at i:328077 original size:3 final size:3
Alignment explanation
Indices: 328069--328094 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
328059 TTTATGTTAT
328069 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
328095 TAAATGTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:328305 original size:16 final size:16
Alignment explanation
Indices: 328276--328308 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
328266 TATTAATATT
328276 ATTTATATTTATTTAA
1 ATTTATATTTATTTAA
328292 ATTTA-ATTTGATTTAA
1 ATTTATATTT-ATTTAA
328308 A
1 A
328309 ATATGAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
ATTTATATTTATTTAA
Found at i:328393 original size:25 final size:26
Alignment explanation
Indices: 328365--328413 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
328355 ATAGTTTAAA
*
328365 TTGTTTATTTATAT-TATTTTTTATT
1 TTGTTTATTTAAATATATTTTTTATT
*
328390 TTGTTTTTTTAAATATATTTTTTA
1 TTGTTTATTTAAATATATTTTTTA
328414 AAAATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (26 bp):
TTGTTTATTTAAATATATTTTTTATT
Found at i:328543 original size:32 final size:31
Alignment explanation
Indices: 328501--328569 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 31
328491 TTTATATTAT
*
328501 AATATTACATAAATATTTTTTATATATAAAA
1 AATATTACATAAATATTCTTTATATATAAAA
*
328532 ATATATTACATAGATATTCTTTATATATAAAA
1 A-ATATTACATAAATATTCTTTATATATAAAA
328564 AATATT
1 AATATT
328570 TAATATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 6 0.17
32 29 0.83
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (31 bp):
AATATTACATAAATATTCTTTATATATAAAA
Found at i:329195 original size:21 final size:21
Alignment explanation
Indices: 329169--329209 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
329159 TATAATTTCG
329169 TAAATTAATTAATTTAAAATT
1 TAAATTAATTAATTTAAAATT
* * *
329190 TAAATTTATTATTTTTAAAT
1 TAAATTAATTAATTTAAAAT
329210 AATAATAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAAATTAATTAATTTAAAATT
Found at i:330103 original size:27 final size:28
Alignment explanation
Indices: 330073--330138 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
330063 ATGTAATTGA
*
330073 TATAATTTATGAATTTATTTTT-TATAT
1 TATAATTTATGAATTAATTTTTATATAT
* **
330100 TATAATATATTTATTAATTTTTATATAT
1 TATAATTTATGAATTAATTTTTATATAT
*
330128 TAAAAATTTAT
1 T-ATAATTTAT
330139 AATATAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 18 0.58
28 6 0.19
29 7 0.23
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
TATAATTTATGAATTAATTTTTATATAT
Found at i:330143 original size:18 final size:19
Alignment explanation
Indices: 330099--330144 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
330089 ATTTTTTATA
**
330099 TTATAATATATTTATTAAT
1 TTATAATATATTTAAAAAT
*
330118 TT-TTATATA-TTAAAAAT
1 TTATAATATATTTAAAAAT
330135 TTATAATATA
1 TTATAATATA
330145 AAAATTTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 8 0.36
18 12 0.55
19 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTATAATATATTTAAAAAT
Found at i:330155 original size:13 final size:15
Alignment explanation
Indices: 330119--330152 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
330109 TTTATTAATT
330119 TTTAT-ATATTAAAAA
1 TTTATAATA-TAAAAA
330134 TTTATAATATAAAAA
1 TTTATAATATAAAAA
330149 TTTA
1 TTTA
330153 ATAAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTATAATATAAAAA
Found at i:337891 original size:28 final size:26
Alignment explanation
Indices: 337857--337921 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
337847 TATTATTTTT
337857 TAAATTTAATAAAAATAATATATTAAA
1 TAAATTTAATAAAAATAAT-TATTAAA
** *
337884 TATAATTTTTTAAAAATAGTTATTAAA
1 TA-AATTTAATAAAAATAATTATTAAA
337911 TAATATTTAAT
1 TAA-ATTTAAT
337922 CAATGTATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 1 0.03
27 16 0.52
28 14 0.45
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
TAAATTTAATAAAAATAATTATTAAA
Found at i:338614 original size:13 final size:14
Alignment explanation
Indices: 338590--338620 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
338580 TAAATTTACA
338590 AGAAAGACTATTTT
1 AGAAAGACTATTTT
338604 AGAAA-ACTATTTT
1 AGAAAGACTATTTT
338617 AGAA
1 AGAA
338621 GTAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.32
Consensus pattern (14 bp):
AGAAAGACTATTTT
Found at i:339002 original size:38 final size:39
Alignment explanation
Indices: 338915--339013 Score: 130
Period size: 38 Copynumber: 2.6 Consensus size: 39
338905 CGGCCACCAA
*
338915 TCAATTTCAAATTGAATTCTTTAGACGTCAACCACTAAC
1 TCAATTTCAAATTGAATTCTCTAGACGTCAACCACTAAC
* * * *
338954 T-AATTTCAAATTGAATTCTCTAGTCGTCAACC-GTCAG
1 TCAATTTCAAATTGAATTCTCTAGACGTCAACCACTAAC
*
338991 TCAATTCCAAATTGAATTCTCTA
1 TCAATTTCAAATTGAATTCTCTA
339014 ACCATCAGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
37 3 0.06
38 49 0.92
39 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.35
Consensus pattern (39 bp):
TCAATTTCAAATTGAATTCTCTAGACGTCAACCACTAAC
Found at i:339033 original size:31 final size:31
Alignment explanation
Indices: 338982--339068 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 31
338972 TCTAGTCGTC
*
338982 AACCGTCAGTCAATTCCAAATTGAATTCTCT
1 AACCATCAGTCAATTCCAAATTGAATTCTCT
* *
339013 AACCATCAGTTAATTTCAAATTGAATTCTCT
1 AACCATCAGTCAATTCCAAATTGAATTCTCT
* * * *
339044 AATCGTCAGCCAATT-CAATTTGAAT
1 AACCATCAGTCAATTCCAAATTGAAT
339069 CTGATTTGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 9 0.19
31 39 0.81
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (31 bp):
AACCATCAGTCAATTCCAAATTGAATTCTCT
Found at i:343704 original size:38 final size:38
Alignment explanation
Indices: 343648--343723 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
343638 TCGTCAACTG
* *
343648 TTAATCAATTTTATATTAAATTTTTTAA-CAGTCAGTTA
1 TTAATCAATTTCAAATTAAATTTTTTAACCA-TCAGTTA
343686 TTAATCAATTTCAAATTAAATTTTTTAACCATCAGTTA
1 TTAATCAATTTCAAATTAAATTTTTTAACCATCAGTTA
343724 ATTTAATTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 33 0.94
39 2 0.06
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (38 bp):
TTAATCAATTTCAAATTAAATTTTTTAACCATCAGTTA
Found at i:345918 original size:22 final size:21
Alignment explanation
Indices: 345893--346008 Score: 65
Period size: 22 Copynumber: 5.2 Consensus size: 21
345883 TAATAATAAT
345893 ATATACATAAAATATTATATGA
1 ATATACATAAAATATTATAT-A
** *
345915 ATATATTTAAAATTTTATATA
1 ATATACATAAAATATTATATA
* *
345936 ATATAAATTATTAATATATTAAAATTA
1 ATATACA-TA--AA-ATATT-ATA-TA
* *
345963 ATATATATAAAATATTTTA-A
1 ATATACATAAAATATTATATA
* *
345983 ATATA-AGTATAATATAATATA
1 ATATACA-TAAAATATTATATA
346004 ATATA
1 ATATA
346009 TAAATATATA
Statistics
Matches: 73, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
19 1 0.01
20 15 0.21
21 12 0.16
22 20 0.27
23 5 0.07
24 4 0.05
25 4 0.05
26 4 0.05
27 8 0.11
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (21 bp):
ATATACATAAAATATTATATA
Found at i:345940 original size:21 final size:22
Alignment explanation
Indices: 345900--345940 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
345890 AATATATACA
345900 TAAAATATTATATGAATATATT
1 TAAAATATTATATGAATATATT
*
345922 TAAAATTTTATAT-AATATA
1 TAAAATATTATATGAATATA
345941 AATTATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TAAAATATTATATGAATATATT
Found at i:345953 original size:34 final size:31
Alignment explanation
Indices: 345909--345978 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
345899 ATAAAATATT
* *
345909 ATATGAATATATTTAAAATTTTATATAATATAAA
1 ATATTAATATA-TTAAAA-TTAATAT-ATATAAA
*
345943 TTATTAATATATTAAAATTAATATATATAAA
1 ATATTAATATATTAAAATTAATATATATAAA
345974 ATATT
1 ATATT
345979 TTAAATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 11 0.34
32 6 0.19
33 6 0.19
34 9 0.28
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (31 bp):
ATATTAATATATTAAAATTAATATATATAAA
Found at i:345962 original size:14 final size:15
Alignment explanation
Indices: 345914--345975 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 15
345904 ATATTATATG
*
345914 AATATATTTAAAATTT
1 AATATATATAAAA-TT
*
345930 TATATAATATAAATTATT
1 AATAT-ATATAAA--ATT
345948 AATATAT-TAAAATT
1 AATATATATAAAATT
345962 AATATATATAAAAT
1 AATATATATAAAAT
345976 ATTTTAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 10 0.26
15 6 0.15
16 8 0.21
17 8 0.21
18 6 0.15
19 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATATAAAATT
Found at i:345986 original size:34 final size:34
Alignment explanation
Indices: 345889--346015 Score: 98
Period size: 34 Copynumber: 3.5 Consensus size: 34
345879 GACTTAATAA
*
345889 TAATATATACATAAAATATTATATGAATATATTTAAAAT
1 TAATATATATAT-AAATATT-T-T-AATATA-TTAAAAT
* *
345928 T-TTATATAATATAAAT-TATTAATATATTAAAAT
1 TAATATAT-ATATAAATATTTTAATATATTAAAAT
* *
345961 TAATATATATA-AAATATTTTAAATATAAGTATAAT
1 TAATATATATATAAATATTTT-AATAT-ATTAAAAT
345996 ATAATATAATATATAAATAT
1 -TAATAT-ATATATAAATAT
346016 ATAGTCATTT
Statistics
Matches: 73, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
32 4 0.05
33 14 0.19
34 16 0.22
35 7 0.10
36 7 0.10
37 6 0.08
38 15 0.21
39 4 0.05
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (34 bp):
TAATATATATATAAATATTTTAATATATTAAAAT
Found at i:346001 original size:25 final size:25
Alignment explanation
Indices: 345947--346003 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
345937 TATAAATTAT
345947 TAATATATTAAAATTAATATATATA
1 TAATATATTAAAATTAATATATATA
* *
345972 AAATAT-TTTAAATATAAGTATA-ATA
1 TAATATATTAAAAT-TAA-TATATATA
345997 TAATATA
1 TAATATA
346004 ATATATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
24 6 0.23
25 16 0.62
26 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
TAATATATTAAAATTAATATATATA
Found at i:346554 original size:28 final size:28
Alignment explanation
Indices: 346502--346555 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
346492 GATTAAAAAA
*
346502 ATAATACATAAAATAAATAATTTTATAT
1 ATAATACATAAAATAAATAACTTTATAT
* *
346530 ATAATACATTAAATAAATCACTTTAT
1 ATAATACATAAAATAAATAACTTTAT
346556 TTAACATCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (28 bp):
ATAATACATAAAATAAATAACTTTATAT
Found at i:347172 original size:12 final size:12
Alignment explanation
Indices: 347156--347202 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
347146 CCTGGCTTCT
347156 TCTCTTTCTCT-
1 TCTCTTTCTCTC
*
347167 T-TCTCTCTCTC
1 TCTCTTTCTCTC
*
347178 TCTCTCTCTCTC
1 TCTCTTTCTCTC
347190 TCTCTTTCT-TC
1 TCTCTTTCTCTC
347201 TC
1 TC
347203 AGCAATCGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 8 0.25
11 6 0.19
12 18 0.56
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (12 bp):
TCTCTTTCTCTC
Found at i:347175 original size:2 final size:2
Alignment explanation
Indices: 347156--347194 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
347146 CCTGGCTTCT
* *
347156 TC TC TT TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
347195 TTCTTCTCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (2 bp):
TC
Found at i:353920 original size:2 final size:2
Alignment explanation
Indices: 353913--353948 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
353903 GATCAATCTA
353913 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
353949 TAATGCACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:358825 original size:5 final size:5
Alignment explanation
Indices: 358815--358849 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
358805 GAACTTTAGG
358815 TTTAA TTTAA TTTAA TTTAA -TT-A TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TT
358850 ATTTTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 1 0.04
4 4 0.14
5 23 0.82
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:358842 original size:13 final size:13
Alignment explanation
Indices: 358824--358853 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
358814 GTTTAATTTA
358824 ATTTAATTTAATT
1 ATTTAATTTAATT
358837 ATTTAATTTAATT
1 ATTTAATTTAATT
358850 ATTT
1 ATTT
358854 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTAATTTAATT
Found at i:359827 original size:131 final size:131
Alignment explanation
Indices: 359593--359848 Score: 503
Period size: 131 Copynumber: 2.0 Consensus size: 131
359583 AGTTCCCAGC
*
359593 TGGAAATGGTCTAAGCTTGGAATAACTTTTGATTTTCCGTTTCCGCAGACTTTGTGCTTTTTATA
1 TGGAAATGGTCTAAGCTTGGAATAACTTTTGATTTTCAGTTTCCGCAGACTTTGTGCTTTTTATA
359658 CATGGCATAAGATTCCATATTTCGTACGTAGCAAAGTAGCCATTTAATTATTACCAACCAGGGAA
66 CATGGCATAAGATTCCATATTTCGTACGTAGCAAAGTAGCCATTTAATTATTACCAACCAGGGAA
359723 A
131 A
359724 TGGAAATGGTCTAAGCTTGGAATAACTTTTGATTTTCAGTTTCCGCAGACTTTGTGCTTTTTATA
1 TGGAAATGGTCTAAGCTTGGAATAACTTTTGATTTTCAGTTTCCGCAGACTTTGTGCTTTTTATA
359789 CATGGCATAAGATTCCATATTTCGTACGTAGCAAAGTAGCCATTTAATTATTACCAACCA
66 CATGGCATAAGATTCCATATTTCGTACGTAGCAAAGTAGCCATTTAATTATTACCAACCA
359849 TCCTAAATTC
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 124 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (131 bp):
TGGAAATGGTCTAAGCTTGGAATAACTTTTGATTTTCAGTTTCCGCAGACTTTGTGCTTTTTATA
CATGGCATAAGATTCCATATTTCGTACGTAGCAAAGTAGCCATTTAATTATTACCAACCAGGGAA
A
Found at i:361821 original size:39 final size:38
Alignment explanation
Indices: 361778--361899 Score: 117
Period size: 37 Copynumber: 3.2 Consensus size: 38
361768 AAAATTCATA
361778 TAATTATTTCAAAGTTTTTATAAATTTCATAAAAATAAT
1 TAATTATTT-AAAGTTTTTATAAATTTCATAAAAATAAT
* * * * *
361817 TAATTAAAGTTAAGGTTTTCA-AAA--TGA-AAAAATTCAT
1 TAATT--ATTTAAAGTTTTTATAAATTTCATAAAAA-TAAT
361854 ATAATTATTTTAAAGTTTTTATAAATTTCATAAAAATAAT
1 -TAATTA-TTTAAAGTTTTTATAAATTTCATAAAAATAAT
361894 TAATTA
1 TAATTA
361900 AATATAAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
36 6 0.09
37 15 0.23
38 8 0.12
39 14 0.22
40 13 0.20
41 8 0.12
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (38 bp):
TAATTATTTAAAGTTTTTATAAATTTCATAAAAATAAT
Found at i:361869 original size:77 final size:77
Alignment explanation
Indices: 361738--361901 Score: 301
Period size: 77 Copynumber: 2.1 Consensus size: 77
361728 ACAGATGCTT
*
361738 TTAATTACCAGTTAAGGTTTTCAAAATGAAAAAATTCATATAATTATTTCAAAGTTTTTATAAAT
1 TTAATTA-AAGTTAAGGTTTTCAAAATGAAAAAATTCATATAATTATTTCAAAGTTTTTATAAAT
361803 TTCATAAAAATAA
65 TTCATAAAAATAA
*
361816 TTAATTAAAGTTAAGGTTTTCAAAATGAAAAAATTCATATAATTATTTTAAAGTTTTTATAAATT
1 TTAATTAAAGTTAAGGTTTTCAAAATGAAAAAATTCATATAATTATTTCAAAGTTTTTATAAATT
361881 TCATAAAAATAA
66 TCATAAAAATAA
361893 TTAATTAAA
1 TTAATTAAA
361902 TATAAAAAAT
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
77 77 0.92
78 7 0.08
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (77 bp):
TTAATTAAAGTTAAGGTTTTCAAAATGAAAAAATTCATATAATTATTTCAAAGTTTTTATAAATT
TCATAAAAATAA
Found at i:362139 original size:2 final size:2
Alignment explanation
Indices: 362132--362163 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
362122 GAAAAAGTCA
362132 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
362164 ATCAACATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:366398 original size:13 final size:14
Alignment explanation
Indices: 366373--366402 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
366363 AATTTGAGTA
366373 AAAATATTAAATTT
1 AAAATATTAAATTT
366387 AAAATA-TAAATTT
1 AAAATATTAAATTT
366400 AAA
1 AAA
366403 TAAAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATATTAAATTT
Found at i:366425 original size:19 final size:19
Alignment explanation
Indices: 366387--366440 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
366377 TATTAAATTT
*
366387 AAAATATAAATTTAAATAAA
1 AAAAT-TAAATTTGAATAAA
*
366407 AAAATTAAATTTGATTAAA
1 AAAATTAAATTTGAATAAA
*
366426 AATAATTGAATTTGA
1 AA-AATTAAATTTGA
366441 GTTTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (19 bp):
AAAATTAAATTTGAATAAA
Found at i:366533 original size:27 final size:29
Alignment explanation
Indices: 366469--366530 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
366459 TAAGCTTAAT
*
366469 TTAA-TTTATTTTATTATGATATAATATA
1 TTAATTTTATATTATTATGATATAATATA
*
366497 TTAATTTTATATT-TTAT-ATATATTATA
1 TTAATTTTATATTATTATGATATAATATA
366524 -TAATTTT
1 TTAATTTT
366531 TATCATATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 7 0.23
27 9 0.29
28 8 0.26
29 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
TTAATTTTATATTATTATGATATAATATA
Found at i:366671 original size:30 final size:29
Alignment explanation
Indices: 366636--366695 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 29
366626 ATTAAATTTT
*
366636 TAAAAATATATATTCTAAA-AAA-TAAATTA
1 TAAAAAAATA-ATT-TAAATAAAGTAAATTA
366665 TAAAAAAATAATTTAAATAAAGTTAAATTA
1 TAAAAAAATAATTTAAATAAAG-TAAATTA
366695 T
1 T
366696 TTATTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 4 0.15
28 6 0.22
29 9 0.33
30 8 0.30
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (29 bp):
TAAAAAAATAATTTAAATAAAGTAAATTA
Found at i:369646 original size:2 final size:2
Alignment explanation
Indices: 369641--369666 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
369631 TGTATGTGTG
369641 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
369667 CATTAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:372993 original size:2 final size:2
Alignment explanation
Indices: 372977--373018 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
372967 CTAACGTAAT
* *
372977 TA TA TT TA T- TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
373018 T
1 T
373019 CATGGGCCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:373765 original size:99 final size:99
Alignment explanation
Indices: 373594--373795 Score: 377
Period size: 99 Copynumber: 2.0 Consensus size: 99
373584 GAATACGGTG
373594 GAAATATGATAGTTTGGTAGTTAATGTTTTTCTATATTCTCGAATGGAAATATTTTTAATCTTTT
1 GAAATATGATAGTTTGGTAGTTAATGTTTTTCTATATTCTCGAATGGAAATATTTTTAATCTTTT
* *
373659 TCTTTAAATAAGGTTATTAATTTTTCCATACTAA
66 TCTTTAAATAAGATTATTAATTTTCCCATACTAA
*
373693 GAAATATGATAGTTTGGTAGTTAATGTTTTTTTATATTCTCGAATGGAAATATTTTTAATCTTTT
1 GAAATATGATAGTTTGGTAGTTAATGTTTTTCTATATTCTCGAATGGAAATATTTTTAATCTTTT
373758 TCTTTAAATAAGATTATTAATTTTCCCATACTAA
66 TCTTTAAATAAGATTATTAATTTTCCCATACTAA
373792 GAAA
1 GAAA
373796 AATTAAATTT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.48
Consensus pattern (99 bp):
GAAATATGATAGTTTGGTAGTTAATGTTTTTCTATATTCTCGAATGGAAATATTTTTAATCTTTT
TCTTTAAATAAGATTATTAATTTTCCCATACTAA
Found at i:373826 original size:81 final size:81
Alignment explanation
Indices: 373725--374929 Score: 2026
Period size: 81 Copynumber: 14.9 Consensus size: 81
373715 AATGTTTTTT
* * *
373725 TATATTCTCGAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGATTATTAATTTTCCCATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
373790 AAGAAAAATTAAATTT
66 AAGAAAAATTAAATTC
* * *
373806 TATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCTCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
373871 AAGAAAAATTAAATTC
66 AAGAAAAATTAAATTC
* *
373887 TATATTCTCAAATGGAAATATTTTTAAT-TTTTTTTTTAAATAAGGTTATTCATTTTCCTATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
373951 AAGAAAAATTAAATTC
66 AAGAAAAATTAAATTC
*
373967 TATATTCTCAAATGGAAATATTTTTAATCTTTTTTTTTTAAATAAGGTTATTCATTTTCCCATAC
1 TATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTTATTCATTTTCCCATAC
374032 TAAGAAAAATTAAATTC
65 TAAGAAAAATTAAATTC
*
374049 TATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATA-T
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
374113 CAAGAAAAATTAAATTC
66 -AAGAAAAATTAAATTC
* * * *
374130 TATATGCTCAAATGGAAATATTTTTAATATTTTTTTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
374195 AAGAAAAATTAAATTC
66 AAGAAAAATTAAATTC
* *
374211 TATATTTTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
374276 AAGAAAAATTAAATTT
66 AAGAAAAATTAAATTC
374292 TATATTCTCAAATGGAAATATTTTTAATCATTTTT-TTTAAATAAGGTTATTCATTTTCCCATAC
1 TATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTTATTCATTTTCCCATAC
374356 TAAGAAAAATTAAATTC
65 TAAGAAAAATTAAATTC
374373 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATA-T
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
374437 CAAGAAAAATTAAATTC
66 -AAGAAAAATTAAATTC
* * * *
374454 TATATGCTCAAATGGAAATATTTTTAATATTTTTTTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
374519 AAGAAAAATTAAATTC
66 AAGAAAAATTAAATTC
* *
374535 TATATTTTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
374600 AAGAAAAATTAAATTT
66 AAGAAAAATTAAATTC
374616 TATATTCTCAAATGGAAATATTTTTAATCATTTTT-TTTAAATAAGGTTATTCATTTTCCCATAC
1 TATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTTATTCATTTTCCCATAC
374680 TAAGAAAAATTAAATTC
65 TAAGAAAAATTAAATTC
374697 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATA-T
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
374761 CAAGAAAAATTAAATTC
66 -AAGAAAAATTAAATTC
* * * *
374778 TATATGCTCAAATGGAAATATTTTTAATATTTTTTTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
374843 AAGAAAAATTAAATTC
66 AAGAAAAATTAAATTC
* * *
374859 TATATTTTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTAATTTTTCCATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
374924 AAGAAA
66 AAGAAA
374930 TATGATAGTT
Statistics
Matches: 1064, Mismatches: 48, Indels: 24
0.94 0.04 0.02
Matches are distributed among these distances:
80 89 0.08
81 883 0.83
82 92 0.09
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (81 bp):
TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
AAGAAAAATTAAATTC
Found at i:373903 original size:162 final size:162
Alignment explanation
Indices: 373725--375905 Score: 3450
Period size: 162 Copynumber: 13.4 Consensus size: 162
373715 AATGTTTTTT
* * *
373725 TATATTCTCGAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGATTATTAATTTTCCCATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
* *
373790 AAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
66 AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
* *
373855 TTCATTTTCTCATATTAAGAAAAATTAAATTC
131 TTCATTTTCCCATACTAAGAAAAATTAAATTC
* *
373887 TATATTCTCAAATGGAAATATTTTTAAT-TTTTTTTTTAAATAAGGTTATTCATTTTCCTATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
373951 AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTTTTTTTTAAATAAGGTT
66 AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTT
374016 ATTCATTTTCCCATACTAAGAAAAATTAAATTC
130 ATTCATTTTCCCATACTAAGAAAAATTAAATTC
*
374049 TATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATA-T
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
* * *
374113 CAAGAAAAATTAAATTCTATATGCTCAAATGGAAATATTTTTAATATTTTTTTTTAAATAAGGTT
66 -AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTT
*
374178 ATTCATTTTCCCATATTAAGAAAAATTAAATTC
130 ATTCATTTTCCCATACTAAGAAAAATTAAATTC
* *
374211 TATATTTTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
374276 AAGAAAAATTAAATTTTATATTCTCAAATGGAAATATTTTTAATCATTTTT-TTTAAATAAGGTT
66 AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTT
374340 ATTCATTTTCCCATACTAAGAAAAATTAAATTC
130 ATTCATTTTCCCATACTAAGAAAAATTAAATTC
374373 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATA-T
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
* * *
374437 CAAGAAAAATTAAATTCTATATGCTCAAATGGAAATATTTTTAATATTTTTTTTTAAATAAGGTT
66 -AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTT
*
374502 ATTCATTTTCCCATATTAAGAAAAATTAAATTC
130 ATTCATTTTCCCATACTAAGAAAAATTAAATTC
* *
374535 TATATTTTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
374600 AAGAAAAATTAAATTTTATATTCTCAAATGGAAATATTTTTAATCATTTTT-TTTAAATAAGGTT
66 AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTT
374664 ATTCATTTTCCCATACTAAGAAAAATTAAATTC
130 ATTCATTTTCCCATACTAAGAAAAATTAAATTC
374697 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATA-T
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
* * *
374761 CAAGAAAAATTAAATTCTATATGCTCAAATGGAAATATTTTTAATATTTTTTTTTAAATAAGGTT
66 -AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTT
*
374826 ATTCATTTTCCCATATTAAGAAAAATTAAATTC
130 ATTCATTTTCCCATACTAAGAAAAATTAAATTC
* * *
374859 TATATTTTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTAATTTTTCCATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
* *
374924 AAGAAATATGATAGTTTGGTAGTTAATGTTTTTTTATATTCTCGAATGGAAATATTTTTAATCTT
66 AAG-AA-A--A-A---T--TA---AA-----TTCTATATTCTCAAATGGAAATATTTTTAATCTT
* * *
374989 TTTCTTTAAATAAGATTATTAATTTTCCCATACTAAGAAAAATTAAATTT
113 TTTCTTTAAATAAGGTTATTCATTTTCCCATACTAAGAAAAATTAAATTC
* * *
375039 TATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCTCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
375104 AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAAT-TTTTTTTTTAAATAAGGTTA
66 AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
*
375168 TTCATTTTCCTATACTAAGAAAAATTAAATTC
131 TTCATTTTCCCATACTAAGAAAAATTAAATTC
*
375200 TATATTCTCAAATGGAAATATTTTTAATCTTTTTTTTTTAAATAAGGTTATTCATTTTCCCATAC
1 TATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTTATTCATTTTCCCATAC
*
375265 TAAGAAAAATTAAATTCTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTT
65 TAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTT
375330 ATTCATTTTCCCATA-TCAAGAAAAATTAAATTC
130 ATTCATTTTCCCATACT-AAGAAAAATTAAATTC
* * * *
375363 TATATGCTCAAATGGAAATATTTTTAATATTTTTTTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
375428 AAGAAAAATTAAATTCTATATTTTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
66 AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
* *
375493 TTCATTTTCCCATATTAAGAAAAATTAAATTT
131 TTCATTTTCCCATACTAAGAAAAATTAAATTC
375525 TATATTCTCAAATGGAAATATTTTTAATCATTTTT-TTTAAATAAGGTTATTCATTTTCCCATAC
1 TATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTTATTCATTTTCCCATAC
375589 TAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTT
65 TAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTT
*
375654 ATTCATTTTCCCATACTAAGAAAAAATAAATTC
130 ATTCATTTTCCCATACTAAGAAAAATTAAATTC
*
375687 TATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
* ** * **
375752 AAGAAAAATTAAATTTTATATTCTCAAATAAAAATATTTTTAATCATTTTT-TTAAAATAAATTT
66 AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTT
*
375816 ATTCATTTTTCCCATACTAAGAAAAATTAAATTT
130 ATTCA-TTTTCCCATACTAAGAAAAATTAAATTC
* * *
375850 TATATTCTCAAATGAAAATATTTTTAAT-ATTTT-TTTAAATAAGGTTATTTATTTTC
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTC
375906 AAGTCACATC
Statistics
Matches: 1888, Mismatches: 93, Indels: 77
0.92 0.05 0.04
Matches are distributed among these distances:
161 189 0.10
162 1314 0.70
163 230 0.12
164 1 0.00
166 1 0.00
167 3 0.00
170 3 0.00
172 3 0.00
175 3 0.00
176 1 0.00
178 1 0.00
179 2 0.00
180 137 0.07
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (162 bp):
TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
TTCATTTTCCCATACTAAGAAAAATTAAATTC
Found at i:374152 original size:243 final size:243
Alignment explanation
Indices: 373725--375905 Score: 3468
Period size: 243 Copynumber: 8.9 Consensus size: 243
373715 AATGTTTTTT
* * *
373725 TATATTCTCGAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGATTATTAATTTTCCCATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
373790 AAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
66 AAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
* *
373855 TTCATTTTCTCATATTAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAAT-TTTT
131 TTCATTTTCCCATATCAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTT
*
373919 TTTTTAAATAAGGTTATTCATTTTCCTATACTAAGAAAAATTAAATTC
196 TTTTTAAATAAGGTTATTCATTTTCCCATACTAAGAAAAATTAAATTC
*
373967 TATATTCTCAAATGGAAATATTTTTAATCTTTTTTTTTTAAATAAGGTTATTCATTTTCCCATAC
1 TATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTTATTCATTTTCCCATAC
*
374032 TAAGAAAAATTAAATTCTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTT
65 TAAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTT
* *
374097 ATTCATTTTCCCATATCAAGAAAAATTAAATTCTATATGCTCAAATGGAAATATTTTTAATATTT
130 ATTCATTTTCCCATATCAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTT
*
374162 TTTTTTAAATAAGGTTATTCATTTTCCCATATTAAGAAAAATTAAATTC
195 TTTTTTAAATAAGGTTATTCATTTTCCCATACTAAGAAAAATTAAATTC
* *
374211 TATATTTTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
374276 AAGAAAAATTAAATTTTATATTCTCAAATGGAAATATTTTTAATCATTTTT-TTTAAATAAGGTT
66 AAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATC-TTTTTCTTTAAATAAGGTT
374340 ATTCATTTTCCCATA-CTAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTT
130 ATTCATTTTCCCATATC-AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTT
*
374404 TTTCTTTAAATAAGGTTATTCATTTTCCCATA-TCAAGAAAAATTAAATTC
194 TTTTTTTAAATAAGGTTATTCATTTTCCCATACT-AAGAAAAATTAAATTC
* * * *
374454 TATATGCTCAAATGGAAATATTTTTAATATTTTTTTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
* * *
374519 AAGAAAAATTAAATTCTATATTTTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
66 AAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
* * *
374584 TTCATTTTCCCATATTAAGAAAAATTAAATTTTATATTCTCAAATGGAAATATTTTTAATCATTT
131 TTCATTTTCCCATATCAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTT
374649 TTTTTAAATAAGGTTATTCATTTTCCCATACTAAGAAAAATTAAATTC
196 TTTTTAAATAAGGTTATTCATTTTCCCATACTAAGAAAAATTAAATTC
374697 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATA-T
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
* * * * *
374761 CAAGAAAAATTAAATTCTATATGCTCAAATGGAAATATTTTTAATATTTTTTTTTAAATAAGGTT
66 -AAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTT
* *
374826 ATTCATTTTCCCATATTAAGAAAAATTAAATTCTATATTTTCAAATGGAAATATTTTTAATCTTT
130 ATTCATTTTCCCATATCAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTT
* * *
374891 TTCTTTAAATAAGGTTATTAATTTTTCCATACTAAGAAATATGATAGTTTGGTAGTTAATGTTTT
195 TTTTTTAAATAAGGTTATTCATTTTCCCATACTAAG-AA-A--A-A---T--TA---AA-----T
*
374956 TT
242 TC
* * *
374958 TATATTCTCGAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGATTATTAATTTTCCCATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
375023 AAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
66 AAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
* *
375088 TTCATTTTCTCATATTAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAAT-TTTT
131 TTCATTTTCCCATATCAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTT
*
375152 TTTTTAAATAAGGTTATTCATTTTCCTATACTAAGAAAAATTAAATTC
196 TTTTTAAATAAGGTTATTCATTTTCCCATACTAAGAAAAATTAAATTC
*
375200 TATATTCTCAAATGGAAATATTTTTAATCTTTTTTTTTTAAATAAGGTTATTCATTTTCCCATAC
1 TATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTTATTCATTTTCCCATAC
*
375265 TAAGAAAAATTAAATTCTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTT
65 TAAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTT
* *
375330 ATTCATTTTCCCATATCAAGAAAAATTAAATTCTATATGCTCAAATGGAAATATTTTTAATATTT
130 ATTCATTTTCCCATATCAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTT
*
375395 TTTTTTAAATAAGGTTATTCATTTTCCCATATTAAGAAAAATTAAATTC
195 TTTTTTAAATAAGGTTATTCATTTTCCCATACTAAGAAAAATTAAATTC
* *
375444 TATATTTTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
375509 AAGAAAAATTAAATTTTATATTCTCAAATGGAAATATTTTTAATCATTTTT-TTTAAATAAGGTT
66 AAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATC-TTTTTCTTTAAATAAGGTT
375573 ATTCATTTTCCCATA-CTAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTT
130 ATTCATTTTCCCATATC-AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTT
* *
375637 TTTCTTTAAATAAGGTTATTCATTTTCCCATACTAAGAAAAAATAAATTC
194 TTTTTTTAAATAAGGTTATTCATTTTCCCATACTAAGAAAAATTAAATTC
*
375687 TATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
* * **
375752 AAGAAAAATTAAATTTTATATTCTCAAATAAAAATATTTTTAATCATTTTT-TTAAAATAAATTT
66 AAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATC-TTTTTCTTTAAATAAGGTT
* *
375816 ATTCATTTTTCCCATA-CTAAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAA--T
130 ATTCA-TTTTCCCATATC-AAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCT
* *
375878 ATTTTTTTAAATAAGGTTATTTATTTTC
193 TTTTTTTTAAATAAGGTTATTCATTTTC
375906 AAGTCACATC
Statistics
Matches: 1816, Mismatches: 90, Indels: 66
0.92 0.05 0.03
Matches are distributed among these distances:
242 93 0.05
243 1267 0.70
244 222 0.12
245 1 0.00
247 3 0.00
248 1 0.00
250 2 0.00
251 1 0.00
252 1 0.00
253 2 0.00
255 1 0.00
256 3 0.00
258 1 0.00
259 2 0.00
260 35 0.02
261 180 0.10
262 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (243 bp):
TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
AAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
TTCATTTTCCCATATCAAGAAAAATTAAATTCTATATTCTCAAATGGAAATATTTTTAATCTTTT
TTTTTAAATAAGGTTATTCATTTTCCCATACTAAGAAAAATTAAATTC
Found at i:375059 original size:81 final size:81
Alignment explanation
Indices: 374958--375905 Score: 1539
Period size: 81 Copynumber: 11.7 Consensus size: 81
374948 AATGTTTTTT
* * *
374958 TATATTCTCGAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGATTATTAATTTTCCCATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
375023 AAGAAAAATTAAATTT
66 AAGAAAAATTAAATTC
* * *
375039 TATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCTCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
375104 AAGAAAAATTAAATTC
66 AAGAAAAATTAAATTC
* *
375120 TATATTCTCAAATGGAAATATTTTTAAT-TTTTTTTTTAAATAAGGTTATTCATTTTCCTATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
375184 AAGAAAAATTAAATTC
66 AAGAAAAATTAAATTC
*
375200 TATATTCTCAAATGGAAATATTTTTAATCTTTTTTTTTTAAATAAGGTTATTCATTTTCCCATAC
1 TATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTTATTCATTTTCCCATAC
375265 TAAGAAAAATTAAATTC
65 TAAGAAAAATTAAATTC
*
375282 TATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATA-T
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
375346 CAAGAAAAATTAAATTC
66 -AAGAAAAATTAAATTC
* * * *
375363 TATATGCTCAAATGGAAATATTTTTAATATTTTTTTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
375428 AAGAAAAATTAAATTC
66 AAGAAAAATTAAATTC
* *
375444 TATATTTTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
375509 AAGAAAAATTAAATTT
66 AAGAAAAATTAAATTC
375525 TATATTCTCAAATGGAAATATTTTTAATCATTTTT-TTTAAATAAGGTTATTCATTTTCCCATAC
1 TATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTTATTCATTTTCCCATAC
375589 TAAGAAAAATTAAATTC
65 TAAGAAAAATTAAATTC
375606 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
375671 AAGAAAAAATAAATTC
66 AAGAAAAATTAAATTC
*
375687 TATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
*
375752 AAGAAAAATTAAATTT
66 AAGAAAAATTAAATTC
** * **
375768 TATATTCTCAAATAAAAATATTTTTAATCATTTTT-TTAAAATAAATTTATTCATTTTTCCCATA
1 TATATTCTCAAATGGAAATATTTTTAATC-TTTTTCTTTAAATAAGGTTATTCA-TTTTCCCATA
*
375832 CTAAGAAAAATTAAATTT
64 CTAAGAAAAATTAAATTC
* * *
375850 TATATTCTCAAATGAAAATATTTTTAAT-ATTTT-TTTAAATAAGGTTATTTATTTTC
1 TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTC
375906 AAGTCACATC
Statistics
Matches: 818, Mismatches: 41, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
79 5 0.01
80 100 0.12
81 568 0.69
82 145 0.18
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.46
Consensus pattern (81 bp):
TATATTCTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTATTCATTTTCCCATACT
AAGAAAAATTAAATTC
Found at i:375109 original size:180 final size:180
Alignment explanation
Indices: 374778--375109 Score: 540
Period size: 180 Copynumber: 1.8 Consensus size: 180
374768 AATTAAATTC
* * * *
374778 TATATGCTCAAATGGAAATATTTTTAATATTTTTTTTTAAATAAGGTTATTCATTTTCCCATATT
1 TATATGCTCAAATGGAAATATTTTTAATATTTTTCTTTAAATAAGATTATTAATTTTCCCATACT
* *
374843 AAGAAAAATTAAATTCTATATTTTCAAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
66 AAGAAAAATTAAATTCTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
374908 TTAATTTTTCCATACTAAGAAATATGATAGTTTGGTAGTTAATGTTTTTT
131 TTAATTTTTCCATACTAAGAAATATGATAGTTTGGTAGTTAATGTTTTTT
* * *
374958 TATATTCTCGAATGGAAATATTTTTAATCTTTTTCTTTAAATAAGATTATTAATTTTCCCATACT
1 TATATGCTCAAATGGAAATATTTTTAATATTTTTCTTTAAATAAGATTATTAATTTTCCCATACT
*
375023 AAGAAAAATTAAATTTTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
66 AAGAAAAATTAAATTCTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
* *
375088 TTCA-TTTTCTCATATTAAGAAA
131 TTAATTTTTC-CATACTAAGAAA
375110 AATTAAATTC
Statistics
Matches: 139, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
179 5 0.04
180 134 0.96
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (180 bp):
TATATGCTCAAATGGAAATATTTTTAATATTTTTCTTTAAATAAGATTATTAATTTTCCCATACT
AAGAAAAATTAAATTCTATATTCTCAAATGAAAATATTTTTAATCTTTTTCTTTAAATAAGGTTA
TTAATTTTTCCATACTAAGAAATATGATAGTTTGGTAGTTAATGTTTTTT
Found at i:376359 original size:24 final size:24
Alignment explanation
Indices: 376331--376382 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
376321 AATATGAATG
376331 AAATAAAAAATATATAAATA-ATAT
1 AAATAAAAAATATATAAATATAT-T
* *
376355 AAATAGAATATATATAAATATATT
1 AAATAAAAAATATATAAATATATT
376379 AAAT
1 AAAT
376383 TTATATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAAAAATATATAAATATATT
Found at i:376408 original size:15 final size:15
Alignment explanation
Indices: 376390--376479 Score: 64
Period size: 15 Copynumber: 6.0 Consensus size: 15
376380 AATTTATATA
376390 ATATAAATTATTAAT
1 ATATAAATTATTAAT
376405 ATATTAAAATT-TT-AT
1 ATA-T-AAATTATTAAT
376420 ATATAATATT-TTAA-
1 ATATAA-ATTATTAAT
*
376434 ATAT-AATTATGATAT
1 ATATAAATTATTA-AT
*
376449 ATAAAAATATATTAAT
1 ATATAAAT-TATTAAT
* *
376465 ATACATATTATTAAT
1 ATATAAATTATTAAT
376480 TTAAAATTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
12 3 0.05
13 5 0.08
14 11 0.18
15 19 0.31
16 14 0.23
17 9 0.15
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (15 bp):
ATATAAATTATTAAT
Found at i:376409 original size:31 final size:31
Alignment explanation
Indices: 376371--376467 Score: 91
Period size: 31 Copynumber: 3.2 Consensus size: 31
376361 AATATATATA
376371 AATATATTAAATTTATATAATATAAATTATT
1 AATATATTAAATTTATATAATATAAATTATT
376402 AATATATTAAAATTT-TAT-ATATAATATT-TT
1 AATATATT-AAATTTATATAATATAA-ATTATT
*
376432 AA-ATA-T-AA-TTATGATATATAAAAATATATT
1 AATATATTAAATTTAT-ATA-ATATAAAT-TATT
376462 AATATA
1 AATATA
376468 CATATTATTA
Statistics
Matches: 56, Mismatches: 1, Indels: 18
0.75 0.01 0.24
Matches are distributed among these distances:
25 2 0.04
26 3 0.05
27 2 0.04
28 3 0.05
29 9 0.16
30 14 0.25
31 17 0.30
32 6 0.11
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (31 bp):
AATATATTAAATTTATATAATATAAATTATT
Found at i:376420 original size:13 final size:14
Alignment explanation
Indices: 376372--376439 Score: 57
Period size: 14 Copynumber: 4.6 Consensus size: 14
376362 ATATATATAA
*
376372 ATATATTAAA-TTT
1 ATATATAAAATTTT
376385 ATATAATATAAATTATT
1 ATAT-ATA-AAATT-TT
376402 AATATATTAAAATTTT
1 -ATATA-TAAAATTTT
*
376418 ATATATAATATTTT
1 ATATATAAAATTTT
*
376432 AAATATAA
1 ATATATAA
376440 TTATGATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
13 4 0.09
14 17 0.37
15 8 0.17
16 3 0.07
17 8 0.17
18 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATATAAAATTTT
Found at i:376439 original size:44 final size:44
Alignment explanation
Indices: 376372--376478 Score: 105
Period size: 44 Copynumber: 2.4 Consensus size: 44
376362 ATATATATAA
*
376372 ATATATTAA-ATTTATATAATATAAATTATTAATATATTAAAAT-T-TT
1 ATATA-TAATATTT-TA-AATAT-AATTA-TAATATATAAAAATATATT
*
376418 ATATATAATATTTTAAATATAATTATGATATATAAAAATATATT
1 ATATATAATATTTTAAATATAATTATAATATATAAAAATATATT
376462 A-ATATACATATTATTAA
1 ATATATA-ATATT-TTAA
376479 TTTAAAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
42 12 0.22
43 11 0.20
44 13 0.24
45 9 0.17
46 9 0.17
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (44 bp):
ATATATAATATTTTAAATATAATTATAATATATAAAAATATATT
Found at i:376733 original size:32 final size:32
Alignment explanation
Indices: 376696--376815 Score: 97
Period size: 32 Copynumber: 3.8 Consensus size: 32
376686 TTAAAATATT
*
376696 AAATATTAAATATTATATTTATTTTTTAATTA
1 AAATATTAAATATTATATTTATTTTTAAATTA
* *
376728 AAATATTATAA-ATT-TATATAATTTTTAAATTC
1 AAATATTA-AATATTATAT-TTATTTTTAAATTA
***
376760 AAATATTAAAT-TTATTATTTAAACTTAAATATA
1 AAATATTAAATATTA-TATTTATTTTTAAAT-TA
* *
376793 AATTTTTAAATATT-TA-TTATTTT
1 AAATATTAAATATTATATTTATTTT
376816 ACTTTACTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
31 11 0.16
32 40 0.59
33 15 0.22
34 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (32 bp):
AAATATTAAATATTATATTTATTTTTAAATTA
Found at i:376938 original size:12 final size:12
Alignment explanation
Indices: 376923--376955 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
376913 TAATATCTAT
376923 TTATATATTTAA
1 TTATATATTTAA
376935 TTAT-TATTTAA
1 TTATATATTTAA
*
376946 TTTTATATTT
1 TTATATATTT
376956 TTATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATATATTTAA
Found at i:380092 original size:2 final size:2
Alignment explanation
Indices: 380085--380119 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
380075 CCGACGTGTT
380085 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
380120 GAAATATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:389281 original size:2 final size:2
Alignment explanation
Indices: 389276--389330 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
389266 TCTCAGAAAG
389276 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
389318 CC TC TC TC TC TC T
1 TC TC TC TC TC TC T
389331 ATATATATAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:393200 original size:85 final size:85
Alignment explanation
Indices: 393104--393274 Score: 315
Period size: 85 Copynumber: 2.0 Consensus size: 85
393094 TCATAATCAA
*
393104 TTATGATAAAATATCAATTAAGATATCGATAATAAAAAATAAAATCATTAAATAACGATTATAAC
1 TTATGATAAAATATCAATTAAAATATCGATAATAAAAAATAAAATCATTAAATAACGATTATAAC
393169 ATCACGTTATGATCATTATT
66 ATCACGTTATGATCATTATT
* *
393189 TTATGATAAAATATCGATTAAAATATCGATAATAAAAAATAAAATCGTTAAATAACGATTATAAC
1 TTATGATAAAATATCAATTAAAATATCGATAATAAAAAATAAAATCATTAAATAACGATTATAAC
393254 ATCACGTTATGATCATTATT
66 ATCACGTTATGATCATTATT
393274 T
1 T
393275 AAATCCTTGA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.35
Consensus pattern (85 bp):
TTATGATAAAATATCAATTAAAATATCGATAATAAAAAATAAAATCATTAAATAACGATTATAAC
ATCACGTTATGATCATTATT
Found at i:394023 original size:6 final size:6
Alignment explanation
Indices: 394012--394107 Score: 55
Period size: 5 Copynumber: 16.3 Consensus size: 6
394002 GTTTGGCTAA
* *
394012 TTATAT TTATAT TAATAAT TTATATT TTATAAAT TT-TA- ATATAT TTAT-T
1 TTATAT TTATAT TTAT-AT TTATA-T TTAT--AT TTATAT TTATAT TTATAT
*
394061 TT-TAT TTGATAT TTATA- TTA-AT TTATAT ATCATAT TT-TAT TT-TAT
1 TTATAT TT-ATAT TTATAT TTATAT TTATAT -TTATAT TTATAT TTATAT
394106 TT
1 TT
394108 TTTAATCATA
Statistics
Matches: 72, Mismatches: 6, Indels: 25
0.70 0.06 0.24
Matches are distributed among these distances:
4 3 0.04
5 25 0.35
6 19 0.26
7 21 0.29
8 3 0.04
9 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (6 bp):
TTATAT
Found at i:394077 original size:23 final size:23
Alignment explanation
Indices: 394051--394118 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
394041 TAAATTTTAA
* *
394051 TATATTTATTTTTATTTGATATT
1 TATATTTATTTTTATATCATATT
* *
394074 TATATTAATTTATATATCATATT
1 TATATTTATTTTTATATCATATT
394097 T-TATTTTATTTTT-TAATCATAT
1 TATA-TTTATTTTTAT-ATCATAT
394119 AGTAGTATCT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
22 3 0.08
23 34 0.92
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (23 bp):
TATATTTATTTTTATATCATATT
Found at i:403258 original size:26 final size:25
Alignment explanation
Indices: 403229--403286 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
403219 AAAAATAAAA
*
403229 TAAAAATTATAT-AATATATAATATAT
1 TAAAAATTAGATAAATAT-TAA-ATAT
*
403255 TAAAATTTAGATAAATATTAAATAT
1 TAAAAATTAGATAAATATTAAATAT
*
403280 TTAAAAT
1 TAAAAAT
403287 AAATATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 9 0.33
26 13 0.48
27 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
TAAAAATTAGATAAATATTAAATAT
Done.