Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009164.1 Hibiscus syriacus cultivar Beakdansim tig00112699_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: 622707
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:194342 original size:14 final size:14
Alignment explanation
Indices: 194311--194342 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
194301 TATATCATTT
*
194311 AAAATTATATTTTA
1 AAAATTATATTTAA
194325 AAAATTATATTTAA
1 AAAATTATATTTAA
194339 AAAA
1 AAAA
194343 ATAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATTATATTTAA
Found at i:208262 original size:45 final size:45
Alignment explanation
Indices: 208190--208333 Score: 182
Period size: 45 Copynumber: 3.1 Consensus size: 45
208180 ATTTATTTTC
*
208190 ATTTTTCGAATAAATGCTTGCGAACTAGATATCATGCGGTTAGGTTT
1 ATTTTTCGAA-AAA-GCATGCGAACTAGATATCATGCGGTTAGGTTT
* *
208237 ATTTTTCGAACAAGCATGCGAACTAGATATCATACGGTTAGGTTT
1 ATTTTTCGAAAAAGCATGCGAACTAGATATCATGCGGTTAGGTTT
* * *
208282 A-TTTTCTGAATAAGCATGCGAATTAGATATCATGAGGTTAGGATTT
1 ATTTTTC-GAAAAAGCATGCGAACTAGATATCATGCGGTTAGG-TTT
*
208328 CTTTTT
1 ATTTTT
208334 GTGGATAACA
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
44 5 0.06
45 62 0.72
46 5 0.06
47 14 0.16
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.38
Consensus pattern (45 bp):
ATTTTTCGAAAAAGCATGCGAACTAGATATCATGCGGTTAGGTTT
Found at i:217986 original size:8 final size:8
Alignment explanation
Indices: 217962--218005 Score: 52
Period size: 9 Copynumber: 5.0 Consensus size: 8
217952 TTGCTTGAAG
217962 AAGAAATAA
1 AAGAAA-AA
217971 AAGAGAAAA
1 AAGA-AAAA
217980 AATGAAAAA
1 AA-GAAAAA
217989 AAGAGAAAA
1 AAGA-AAAA
217998 AAGAAAAA
1 AAGAAAAA
218006 TGATGGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 6 0.19
9 22 0.69
10 4 0.12
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (8 bp):
AAGAAAAA
Found at i:217992 original size:18 final size:17
Alignment explanation
Indices: 217962--218005 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 17
217952 TTGCTTGAAG
217962 AAGAAATAAAAGAGAAAA
1 AAGAAA-AAAAGAGAAAA
217980 AATGAAAAAAAGAGAAAA
1 AA-GAAAAAAAGAGAAAA
217998 AAGAAAAA
1 AAGAAAAA
218006 TGATGGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.24
18 15 0.60
19 4 0.16
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (17 bp):
AAGAAAAAAAGAGAAAA
Found at i:220086 original size:55 final size:55
Alignment explanation
Indices: 219423--220085 Score: 753
Period size: 55 Copynumber: 12.3 Consensus size: 55
219413 TTTATGAAGA
* * *
219423 TCGAG-TCTTATACTCTCTGAAGGAATAGAGAGCGGACTCGTTT-TATGAAGATTAT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGT-TGAAGATTGT
* *
219478 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTAGTTGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGT
* * *
219533 TTGAGTTCTATACTCCCTGAACGG-ATAGGGAGCGAACCCGTTT-TATGAAGATTGT
1 TCGAGTTCTATACTCTCTGAA-GGAATAGGGAGCGGACCCGTTTGT-TGAAGATTGT
* *
219588 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGTGGACCCGTTTGTTGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGT
* *
219643 TTGAGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTT-TATGAAGATTGT
1 TCGAGTTCTATACTCTCTGAA-GGAATAGGGAGCGGACCCGTTTGT-TGAAGATTGT
* * *
219698 TCGAGTTCAATACTCTCTGAAGGAATAGAGAGCGGACTCGTTTGTTGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGT
*
219753 TCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTT-TATGAAGATTGT
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGT-TGAAGATTGT
*
219808 TCGAGTTCTATACTCCCTGAACGG-ATAGGGAGCGGACCCGTTTGTTGAAGA----
1 TCGAGTTCTATACTCTCTGAA-GGAATAGGGAGCGGACCCGTTTGTTGAAGATTGT
* *
219859 TCGAGTTCTATACTCTCTGAAAGAATAGGGAGCGGACACGTTTGTTGAAGA----
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGT
* * *
219910 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGC-GAGCACGTTTATTGAAGA----
1 TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGA-CCCGTTTGTTGAAGATTGT
* * *
219961 TCGAG-TCTTATACTCTCTGAAGGAATAGGGAGCAGACACGTTAGTTGAAGATTGT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGT
* * * * * ***
220016 TTGAG-TCTTATACTCCCTGAATGAATAGGGAGCAGACACGTTTGCCAAAGATTGT
1 TCGAGTTC-TATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGT
220071 TCGAG-TCTTATACTC
1 TCGAGTTC-TATACTC
220086 CTTAAAAGAA
Statistics
Matches: 544, Mismatches: 43, Indels: 42
0.86 0.07 0.07
Matches are distributed among these distances:
50 4 0.01
51 134 0.25
52 2 0.00
54 7 0.01
55 385 0.71
56 12 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (55 bp):
TCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGT
Found at i:220097 original size:55 final size:55
Alignment explanation
Indices: 219961--220101 Score: 185
Period size: 55 Copynumber: 2.6 Consensus size: 55
219951 TTATTGAAGA
* ***
219961 TCGAGTCTTATACT-CTCTGAAGGAATAGGGAGCAGACACGTTAGTTGAAGATTGT
1 TCGAGTCTTATACTCCT-TGAAAGAATAGGGAGCAGACACGTTAGCCAAAGATTGT
* * * *
220016 TTGAGTCTTATACTCCCTGAATGAATAGGGAGCAGACACGTTTGCCAAAGATTGT
1 TCGAGTCTTATACTCCTTGAAAGAATAGGGAGCAGACACGTTAGCCAAAGATTGT
*
220071 TCGAGTCTTATACTCCTTAAAAGAATAGGGA
1 TCGAGTCTTATACTCCTTGAAAGAATAGGGA
220102 ACATACCCGT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
55 73 0.99
56 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (55 bp):
TCGAGTCTTATACTCCTTGAAAGAATAGGGAGCAGACACGTTAGCCAAAGATTGT
Found at i:225044 original size:22 final size:21
Alignment explanation
Indices: 225016--225110 Score: 103
Period size: 18 Copynumber: 4.7 Consensus size: 21
225006 GTTCTTAAGG
225016 AGTGGTCCTTCGGGATATATAC
1 AGTGGTCCTTCGGGA-ATATAC
* *
225038 AGTGGTCCTTTGGG-ACAT--
1 AGTGGTCCTTCGGGAATATAC
225056 AGTGGTCCTTCGGGACATATAC
1 AGTGGTCCTTCGGGA-ATATAC
*
225078 AGTGGTCCTTCGGG-ACAT--
1 AGTGGTCCTTCGGGAATATAC
225096 AGTGGTCCTTCGGGA
1 AGTGGTCCTTCGGGA
225111 CAAATATTCA
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
18 27 0.43
20 9 0.14
22 27 0.43
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (21 bp):
AGTGGTCCTTCGGGAATATAC
Found at i:225061 original size:18 final size:18
Alignment explanation
Indices: 225038--225112 Score: 105
Period size: 18 Copynumber: 3.9 Consensus size: 18
225028 GGATATATAC
*
225038 AGTGGTCCTTTGGGACAT
1 AGTGGTCCTTCGGGACAT
225056 AGTGGTCCTTCGGGACATAT
1 AGTGGTCCTTCGGGAC--AT
225076 ACAGTGGTCCTTCGGGACAT
1 --AGTGGTCCTTCGGGACAT
225096 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
225113 AATATTCAGT
Statistics
Matches: 52, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
18 32 0.62
20 4 0.08
22 16 0.31
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:225076 original size:40 final size:40
Alignment explanation
Indices: 225016--225112 Score: 176
Period size: 40 Copynumber: 2.4 Consensus size: 40
225006 GTTCTTAAGG
* *
225016 AGTGGTCCTTCGGGATATATACAGTGGTCCTTTGGGACAT
1 AGTGGTCCTTCGGGACATATACAGTGGTCCTTCGGGACAT
225056 AGTGGTCCTTCGGGACATATACAGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACATATACAGTGGTCCTTCGGGACAT
225096 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
225113 AATATTCAGT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.29
Consensus pattern (40 bp):
AGTGGTCCTTCGGGACATATACAGTGGTCCTTCGGGACAT
Found at i:225702 original size:22 final size:22
Alignment explanation
Indices: 225677--225723 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
225667 TGTAGCAGTA
*
225677 TGTAGCAGAGGAATCGGTTCCC
1 TGTAGCAGAGGAATCAGTTCCC
* *
225699 TGTAGTAGGGGAATCAGTTCCC
1 TGTAGCAGAGGAATCAGTTCCC
225721 TGT
1 TGT
225724 TTGTAATCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (22 bp):
TGTAGCAGAGGAATCAGTTCCC
Found at i:230327 original size:31 final size:31
Alignment explanation
Indices: 230289--230380 Score: 116
Period size: 31 Copynumber: 3.0 Consensus size: 31
230279 GAGTCAAGGG
*
230289 TTACCTATGTCTTTTGAGACATATGGATAGT
1 TTACCTATGTCTTTGGAGACATATGGATAGT
* * *
230320 TTACCTATGTCCTTGGGGACATATGGACAG-
1 TTACCTATGTCTTTGGAGACATATGGATAGT
*
230350 TTACCTATGTTCTTCGGA-ACATATGGATAGT
1 TTACCTATG-TCTTTGGAGACATATGGATAGT
230381 GGTCCTTCGG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
30 20 0.39
31 31 0.61
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (31 bp):
TTACCTATGTCTTTGGAGACATATGGATAGT
Found at i:230415 original size:22 final size:22
Alignment explanation
Indices: 230381--230460 Score: 108
Period size: 22 Copynumber: 3.6 Consensus size: 22
230371 TATGGATAGT
*
230381 GGTCCTTCGGGACATATACAGA
1 GGTCATTCGGGACATATACAGA
*
230403 GGTCATTCAGGACATATACAGA
1 GGTCATTCGGGACATATACAGA
* *
230425 TGTCATTCGGGACATATACATA
1 GGTCATTCGGGACATATACAGA
230447 GGTTC-TTCGGGACA
1 GG-TCATTCGGGACA
230461 AATTTCACAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
22 49 0.96
23 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (22 bp):
GGTCATTCGGGACATATACAGA
Found at i:239331 original size:23 final size:23
Alignment explanation
Indices: 239305--239366 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
239295 TTCACTCTTG
**
239305 AAATTTTATAAATTTATCTTC-T
1 AAATTTTATAAATTTATCCCCAT
*
239327 AAAATTTTAGAAA-TTATCCCCAT
1 -AAATTTTATAAATTTATCCCCAT
239350 AAATTTTATAAATTTAT
1 AAATTTTATAAATTTAT
239367 TTTCACTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 17 0.52
23 16 0.48
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATTTTATAAATTTATCCCCAT
Found at i:239703 original size:20 final size:20
Alignment explanation
Indices: 239661--239704 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
239651 AAATATATTT
* *
239661 ATTTATTTTATAAATCTATA
1 ATTTATTCTATAAATCTAAA
* *
239681 ATTTATTCTGTAAATTTAAA
1 ATTTATTCTATAAATCTAAA
239701 ATTT
1 ATTT
239705 TATCGTCTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTTATTCTATAAATCTAAA
Found at i:248585 original size:27 final size:26
Alignment explanation
Indices: 248528--248592 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
248518 AAATATTCTT
*
248528 TTATTGTAATTTATAAAAAATTGATA
1 TTATTGTAATTTATAAAAAATAGATA
* *
248554 TTATTATAATTTATAAAAAATAGATT
1 TTATTGTAATTTATAAAAAATAGATA
248580 TCTATTGTAATTT
1 T-TATTGTAATTT
248593 CATGATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 24 0.71
27 10 0.29
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (26 bp):
TTATTGTAATTTATAAAAAATAGATA
Found at i:251599 original size:15 final size:16
Alignment explanation
Indices: 251581--251610 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
251571 GATTTTCACC
251581 TTCTTCT-TTTTTCTA
1 TTCTTCTCTTTTTCTA
251596 TTCTTCTCTTTTTCT
1 TTCTTCTCTTTTTCT
251611 TATTTCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.73
Consensus pattern (16 bp):
TTCTTCTCTTTTTCTA
Found at i:253351 original size:24 final size:23
Alignment explanation
Indices: 253322--253412 Score: 105
Period size: 24 Copynumber: 3.9 Consensus size: 23
253312 TAGTTTAACA
* *
253322 ATATATAATATTTTTTCCAAAATT
1 ATATATAATATGTTTT-CAAAACT
253346 ATATATTATATATGTTTTCAAAACCT
1 ATATA-TA-ATATGTTTTCAAAA-CT
*
253372 ATATATTATATGTTTTCAAAAC-
1 ATATATAATATGTTTTCAAAACT
253394 -TATATAATATGTTTTCAAA
1 ATATATAATATGTTTTCAAA
253413 GACAATATTA
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
21 18 0.30
23 1 0.02
24 19 0.32
25 8 0.13
26 14 0.23
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (23 bp):
ATATATAATATGTTTTCAAAACT
Found at i:253397 original size:21 final size:21
Alignment explanation
Indices: 253354--253425 Score: 90
Period size: 21 Copynumber: 3.2 Consensus size: 21
253344 TTATATATTA
253354 TATATGTTTTCAAAACCTATATAT
1 TATATGTTTTCAAAA-C--TATAT
253378 TATATGTTTTCAAAACTATAT
1 TATATGTTTTCAAAACTATAT
* *
253399 AATATGTTTTCAAAGACAATAT
1 TATATGTTTTCAAA-ACTATAT
253421 TATAT
1 TATAT
253426 ATTATATATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
21 18 0.41
22 10 0.23
23 1 0.02
24 15 0.34
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (21 bp):
TATATGTTTTCAAAACTATAT
Found at i:253492 original size:16 final size:16
Alignment explanation
Indices: 253471--253501 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
253461 TCATATATAT
253471 TATATAATATAAATAC
1 TATATAATATAAATAC
253487 TATATAATATAAATA
1 TATATAATATAAATA
253502 TTGTAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TATATAATATAAATAC
Found at i:263329 original size:12 final size:12
Alignment explanation
Indices: 263308--263369 Score: 65
Period size: 12 Copynumber: 5.2 Consensus size: 12
263298 ATGACTTGAA
263308 TTCTGTTCTGAT
1 TTCTGTTCTGAT
*
263320 TTCTGATCTGGA-
1 TTCTGTTCT-GAT
263332 TTCTGTTCTGAT
1 TTCTGTTCTGAT
*
263344 ATT-TGTTCTGAA
1 -TTCTGTTCTGAT
*
263356 TTCTGTTTTGAT
1 TTCTGTTCTGAT
263368 TT
1 TT
263370 TTAATATCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
11 4 0.10
12 33 0.80
13 4 0.10
ACGTcount: A:0.13, C:0.13, G:0.18, T:0.56
Consensus pattern (12 bp):
TTCTGTTCTGAT
Found at i:263334 original size:24 final size:23
Alignment explanation
Indices: 263304--263370 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 23
263294 ATACATGACT
263304 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATTT-TGATC
* *
263328 TGGATTCTGTTCTGATATTTGTTC
1 TGAATTCTGTTCTGAT-TTTGATC
*
263352 TGAATTCTGTTTTGATTTT
1 TGAATTCTGTTCTGATTTT
263371 TAATATCTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
23 3 0.08
24 33 0.87
25 2 0.05
ACGTcount: A:0.15, C:0.12, G:0.18, T:0.55
Consensus pattern (23 bp):
TGAATTCTGTTCTGATTTTGATC
Found at i:266824 original size:13 final size:13
Alignment explanation
Indices: 266806--266843 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
266796 AATTTCTCCG
266806 AAATGAAGATAGA
1 AAATGAAGATAGA
266819 AAATGAAGATA-A
1 AAATGAAGATAGA
*
266831 CAA-GAAGATAGA
1 AAATGAAGATAGA
266843 A
1 A
266844 GAAGATCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 7 0.32
12 4 0.18
13 11 0.50
ACGTcount: A:0.63, C:0.03, G:0.21, T:0.13
Consensus pattern (13 bp):
AAATGAAGATAGA
Found at i:267682 original size:42 final size:42
Alignment explanation
Indices: 267585--267920 Score: 168
Period size: 42 Copynumber: 7.9 Consensus size: 42
267575 TAAGTCATTC
* * *
267585 GGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTA
1 GGGCAATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTA
*
267627 GGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTA
1 GGGCAATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTA
* * ** * * ** *
267669 TGGTAATTTGTAAGCCTTAACGGAAG-A-GTAGTGAAGCAAACCCATCAGTAA
1 GGGCAATCAGTAAGTCTT-TC-G-AGCATG-A-TG-ATTAAATCC-T---T-A
* * * * *
267720 GTGCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTC
1 GGGCAATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTA
* * *
267762 GGGCCATCAGTAAGTCTTTTGAGCATGATGATTAAATCCTTC
1 GGGCAATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTA
* ** * * * * *
267804 GAGCAATTTGTAAGCCTTTACG-G-AAGA-GTAGTGAA-GC--A
1 GGGCAATCAGTAAGTCTTT-CGAGCATGATG-ATTAAATCCTTA
*** * *
267842 AACCCATCAGTAAGTCTTTCGAGCATGATGA-TAAAGTCCTTC
1 GGGCAATCAGTAAGTCTTTCGAGCATGATGATTAAA-TCCTTA
*
267884 GGGCTATCAGTAAGTCTTTCGAGCATGATGATTAAAT
1 GGGCAATCAGTAAGTCTTTCGAGCATGATGATTAAAT
267921 TCTTCGGGTA
Statistics
Matches: 217, Mismatches: 54, Indels: 46
0.68 0.17 0.15
Matches are distributed among these distances:
37 2 0.01
38 17 0.08
39 4 0.02
40 4 0.02
41 7 0.03
42 133 0.61
43 8 0.04
44 3 0.01
45 4 0.02
46 7 0.03
47 6 0.03
48 4 0.02
49 3 0.01
50 3 0.01
51 12 0.06
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (42 bp):
GGGCAATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTA
Found at i:267728 original size:13 final size:13
Alignment explanation
Indices: 267710--267734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
267700 TGAAGCAAAC
267710 CCATCAGTAAGTG
1 CCATCAGTAAGTG
267723 CCATCAGTAAGT
1 CCATCAGTAAGT
267735 CTTTCGAGCA
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:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:267762 original size:22 final size:21
Alignment explanation
Indices: 267730--267808 Score: 63
Period size: 22 Copynumber: 3.7 Consensus size: 21
267720 GTGCCATCAG
*
267730 TAAGTCTTTCGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
* *
267751 TGAAGTCCTTCGGGCCATCA-G-
1 T-AAGTCCTTCGAG-CATGATGA
* *
267772 TAAGTCTTTTGAGCATGATGA
1 TAAGTCCTTCGAGCATGATGA
*
267793 TTAAATCCTTCGAGCA
1 -TAAGTCCTTCGAGCA
267809 ATTTGTAAGC
Statistics
Matches: 43, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
19 4 0.09
20 10 0.23
21 2 0.05
22 23 0.53
23 4 0.09
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (21 bp):
TAAGTCCTTCGAGCATGATGA
Found at i:267829 original size:135 final size:135
Alignment explanation
Indices: 267587--267978 Score: 501
Period size: 135 Copynumber: 3.0 Consensus size: 135
267577 AGTCATTCGG
* *
267587 GCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCA
1 GCCATCAATAAGTCTTTCGAGCATGATGATGAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCA
* *
267652 TGATGATTAAATCCTTATGGTAATTTGTAAGCCTTAACGGAAGAGTAGTGAAGCAAACCCATCAG
66 TGATGATTAAATCCTTACGGCAATTTGTAAGCCTTAACGGAAGAGTAGTGAAGCAAACCCATCAG
267717 TAAGT
131 TAAGT
* * * *
267722 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCA
1 GCCATCAATAAGTCTTTCGAGCATGATGATGAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCA
*
267787 TGATGATTAAATCCTT-CGAGCAATTTGTAAGCCTTTACGGAAGAGTAGTGAAGCAAACCCATC-
66 TGATGATTAAATCCTTACG-GCAATTTGTAAGCCTTAACGGAAGAGTAGTGAAGCAAACCCATCA
267850 ---A--
130 GTAAGT
* *
267851 G-------TAAGTCTTTCGAGCATGATGAT-AAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGC
1 GCCATCAATAAGTCTTTCGAGCATGATGATGAAA-TCCTTAGGGCCATCAGTAAGTCTTTCGAGC
* * * * *
267908 ATGATGATTAAATTCTT-CGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATC
65 ATGATGATTAAATCCTTAC-GGCAATTTGTAAGCCTTAACGGAAGAGTAGTGAAGCAAACCCATC
267972 AGTAAGT
129 AGTAAGT
267979 CTTTCGAGCA
Statistics
Matches: 231, Mismatches: 17, Indels: 25
0.85 0.06 0.09
Matches are distributed among these distances:
121 2 0.01
122 107 0.46
123 1 0.00
126 1 0.00
129 1 0.00
131 1 0.00
134 1 0.00
135 117 0.51
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (135 bp):
GCCATCAATAAGTCTTTCGAGCATGATGATGAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCA
TGATGATTAAATCCTTACGGCAATTTGTAAGCCTTAACGGAAGAGTAGTGAAGCAAACCCATCAG
TAAGT
Found at i:267878 original size:22 final size:23
Alignment explanation
Indices: 267853--267924 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 23
267843 ACCCATCAGT
267853 AAGTCTTTCGAGCATGATGA-TA
1 AAGTCTTTCGAGCATGATGAGTA
* * *
267875 AAGTCCTTCGGGC-T-ATCAGT-
1 AAGTCTTTCGAGCATGATGAGTA
*
267895 AAGTCTTTCGAGCATGATGATTA
1 AAGTCTTTCGAGCATGATGAGTA
*
267918 AATTCTT
1 AAGTCTT
267925 CGGGTAATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
20 14 0.37
21 3 0.08
22 15 0.39
23 6 0.16
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (23 bp):
AAGTCTTTCGAGCATGATGAGTA
Found at i:267904 original size:20 final size:19
Alignment explanation
Indices: 267846--267909 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
267836 GAAGCAAACC
267846 CATCAGTAAGTCTTTCGAG
1 CATCAGTAAGTCTTTCGAG
* * *
267865 CATGATGATAAAGTCCTTCGGG
1 CATCA-G-T-AAGTCTTTCGAG
267887 CTATCAGTAAGTCTTTCGAG
1 C-ATCAGTAAGTCTTTCGAG
267907 CAT
1 CAT
267910 GATGATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 6 0.17
20 12 0.34
21 2 0.06
22 12 0.34
23 3 0.09
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (19 bp):
CATCAGTAAGTCTTTCGAG
Found at i:267926 original size:42 final size:42
Alignment explanation
Indices: 267722--267928 Score: 185
Period size: 42 Copynumber: 5.0 Consensus size: 42
267712 ATCAGTAAGT
* *
267722 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
* *
267764 GCCATCAGTAAGTCTTTTGAGCATGATGATTAAATCCTTCGA
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
* ** * * * * * ***
267806 GCAATTTGTAAGCCTTTACG-G-AAGA-GTAGTGAAGCAAAC--
1 GCCATCAGTAAGTCTTT-CGAGCATGATG-ATTAAATCCTTCGG
267845 -CCATCAGTAAGTCTTTCGAGCATGATGA-TAAAGTCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAA-TCCTTCGG
* *
267886 GCTATCAGTAAGTCTTTCGAGCATGATGATTAAATTCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
267928 G
1 G
267929 TAATTTGTAA
Statistics
Matches: 127, Mismatches: 28, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
37 2 0.02
38 16 0.13
39 6 0.05
40 2 0.02
41 9 0.07
42 87 0.69
43 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (42 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
Found at i:267940 original size:122 final size:122
Alignment explanation
Indices: 267723--268005 Score: 469
Period size: 122 Copynumber: 2.3 Consensus size: 122
267713 TCAGTAAGTG
* *
267723 CCATCAGTAAGTCTTTCGAGCATGATGATGAAGTCCTTCGGGCCATCAGTAAGTCTTTTGAGCAT
1 CCATCAGTAAGTCTTTCGAGCATGATGATAAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
* *
267788 GATGATTAAATCCTTCGAGCAATTTGTAAGCCTTTACGGAAGAGTAGTGAAGCAAAC
66 GATGATTAAATCCTTCGAGCAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAAC
*
267845 CCATCAGTAAGTCTTTCGAGCATGATGATAAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCAT
1 CCATCAGTAAGTCTTTCGAGCATGATGATAAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
* * * *
267910 GATGATTAAATTCTTCGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAAT
66 GATGATTAAATCCTTCGAGCAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAAC
267967 CCATCAGTAAGTCTTTCGAGCATGATGATTAAA-TCCTTC
1 CCATCAGTAAGTCTTTCGAGCATGATGA-TAAAGTCCTTC
268006 AGGTAATTTG
Statistics
Matches: 151, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
122 147 0.97
123 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (122 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATAAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCAT
GATGATTAAATCCTTCGAGCAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAAC
Found at i:268022 original size:80 final size:80
Alignment explanation
Indices: 267889--268058 Score: 281
Period size: 80 Copynumber: 2.1 Consensus size: 80
267879 CCTTCGGGCT
* *
267889 ATCAGTAAGTCTTTCGAGCATGATGATTAAATTCTTCGGGTAATTTGTAAGCCTTCACCG-AAGA
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATTTGTAAGCCTTCA-CGAAAGA
267953 GTAGTGAAGCAAAT-CC
65 GTAGTGAAG-AAATCCC
267969 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATTTGTAAGCCTTCACGAAAGAG
1 ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATTTGTAAGCCTTCACGAAAGAG
*
268034 TAGTGAAGTAATCCC
66 TAGTGAAGAAATCCC
268049 ATCAGTAAGT
1 ATCAGTAAGT
268059 GCCATCAGTA
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
79 5 0.06
80 80 0.94
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (80 bp):
ATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCAGGTAATTTGTAAGCCTTCACGAAAGAG
TAGTGAAGAAATCCC
Found at i:268065 original size:13 final size:13
Alignment explanation
Indices: 268047--268071 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
268037 TGAAGTAATC
268047 CCATCAGTAAGTG
1 CCATCAGTAAGTG
268060 CCATCAGTAAGT
1 CCATCAGTAAGT
268072 CTTCCGAGCA
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:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (13 bp):
CCATCAGTAAGTG
Found at i:268118 original size:42 final size:42
Alignment explanation
Indices: 268059--268158 Score: 148
Period size: 42 Copynumber: 2.4 Consensus size: 42
268049 ATCAGTAAGT
*
268059 GCCATCAGTAAGTCTTCCGAGCATGATGATGAAGTCCTTCGG
1 GCCATCAGTAAGCCTTCCGAGCATGATGATGAAGTCCTTCGG
* * *
268101 GCCATCAGTAAGCCTTCCGAGCATGGTGATTAAGTCTTTCGG
1 GCCATCAGTAAGCCTTCCGAGCATGATGATGAAGTCCTTCGG
*
268143 GCCATC-TTAAGCCTTC
1 GCCATCAGTAAGCCTTC
268159 ACAAAAGAGT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 9 0.17
42 44 0.83
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (42 bp):
GCCATCAGTAAGCCTTCCGAGCATGATGATGAAGTCCTTCGG
Found at i:268352 original size:53 final size:53
Alignment explanation
Indices: 268188--268358 Score: 227
Period size: 53 Copynumber: 3.2 Consensus size: 53
268178 AAATCACACT
* * * * *
268188 AGAAAATTGTTCGAGTTCTACTCCCTAAAGCAATAGGGAGGGAGCCCGTAGGC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
* *
268241 AAAAGATTATTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
* * * *
268294 AGAAGACTGTTCGAGTTCTACTCTCTGAAGCAAGAGGGAGCGAACTCGCTAGTC
1 AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCG-TAGGC
268348 -GAAGATTGTTC
1 AGAAGATTGTTC
268359 AAAGAAGAGG
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
53 99 0.96
54 4 0.04
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (53 bp):
AGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGGC
Found at i:270803 original size:24 final size:24
Alignment explanation
Indices: 270776--270834 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
270766 TGCATTTCAT
*
270776 ATATTTTAAAATATAGTTAATATA
1 ATATTTTAAAATAAAGTTAATATA
* *
270800 ATA-TTTAAAATAAATTTAATTTA
1 ATATTTTAAAATAAAGTTAATATA
*
270823 ATTTTTTAAAAT
1 ATATTTTAAAAT
270835 CAAATTCATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 19 0.63
24 11 0.37
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
ATATTTTAAAATAAAGTTAATATA
Found at i:273895 original size:12 final size:12
Alignment explanation
Indices: 273878--273907 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
273868 TAGGGCCATT
273878 AGTTTTACATCA
1 AGTTTTACATCA
*
273890 AGTTTTACATTA
1 AGTTTTACATCA
273902 AGTTTT
1 AGTTTT
273908 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (12 bp):
AGTTTTACATCA
Found at i:278783 original size:15 final size:14
Alignment explanation
Indices: 278750--278780 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
278740 TCTTTCATTG
278750 AAAA-AAAAAGAAA
1 AAAAGAAAAAGAAA
278763 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
278777 AAAA
1 AAAA
278781 AGAGAAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAGAAA
Found at i:278794 original size:15 final size:15
Alignment explanation
Indices: 278750--278783 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
278740 TCTTTCATTG
278750 AAAA-AAAAAG-AAA
1 AAAAGAAAAAGAAAA
278763 AAAAGAAAAAGAAAA
1 AAAAGAAAAAGAAAA
278778 AAAAGA
1 AAAAGA
278784 GAAGCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 6 0.32
15 9 0.47
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAGAAAA
Found at i:279894 original size:12 final size:12
Alignment explanation
Indices: 279877--279906 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
279867 TAGGGTCATT
279877 AGTTTTACATCA
1 AGTTTTACATCA
*
279889 AGTTTTACATTA
1 AGTTTTACATCA
279901 AGTTTT
1 AGTTTT
279907 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (12 bp):
AGTTTTACATCA
Found at i:282103 original size:31 final size:31
Alignment explanation
Indices: 282068--282131 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
282058 AAAAAATAAT
*
282068 ATATAATTACTTTCG-TTATTATTTAATTAAG
1 ATATAATCACTTTCGTTTA-TATTTAATTAAG
*
282099 ATATAGTCACTTTCGTTTATATTTAATTAAG
1 ATATAATCACTTTCGTTTATATTTAATTAAG
282130 AT
1 AT
282132 GTAGTCATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (31 bp):
ATATAATCACTTTCGTTTATATTTAATTAAG
Found at i:282137 original size:31 final size:31
Alignment explanation
Indices: 282076--282138 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
282066 ATATATAATT
282076 ACTTTCGTTATTATTTAATTAAGATATAGTC
1 ACTTTCGTTATTATTTAATTAAGATATAGTC
*
282107 ACTTTCGTT-TATATTTAATTAAGATGTAGTC
1 ACTTTCGTTAT-TATTTAATTAAGATATAGTC
282138 A
1 A
282139 TCACGGGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.48
Consensus pattern (31 bp):
ACTTTCGTTATTATTTAATTAAGATATAGTC
Found at i:282324 original size:27 final size:27
Alignment explanation
Indices: 282294--282383 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 27
282284 TGGAAATAAA
282294 AATAAAATATTTTTAAATTAAGTTAAT
1 AATAAAATATTTTTAAATTAAGTTAAT
* *
282321 AATAAAATATATTT-AA-TATGTTAAT
1 AATAAAATATTTTTAAATTAAGTTAAT
* * *
282346 ATAAAAAATATTTTTTAAGTTAACTT-AT
1 A-ATAAAATA-TTTTTAAATTAAGTTAAT
282374 -ATAAAATATT
1 AATAAAATATT
282384 ATGAATTTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
25 11 0.22
26 16 0.31
27 17 0.33
28 3 0.06
29 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (27 bp):
AATAAAATATTTTTAAATTAAGTTAAT
Found at i:282374 original size:26 final size:25
Alignment explanation
Indices: 282311--282383 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
282301 TATTTTTAAA
* * *
282311 TTAAGTTAATAATAAAATATATTTA
1 TTAAGTTAATTATAAAAAATATTTT
* *
282336 ATATGTTAA-TATAAAAAATATTTT
1 TTAAGTTAATTATAAAAAATATTTT
*
282360 TTAAGTTAACTTATATAAAATATT
1 TTAAGTTAA-TTATAAAAAATATT
282384 ATGAATTTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
24 19 0.50
25 7 0.18
26 12 0.32
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (25 bp):
TTAAGTTAATTATAAAAAATATTTT
Found at i:282415 original size:10 final size:10
Alignment explanation
Indices: 282400--282424 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
282390 TTAAGTATTT
282400 ATACACTAAG
1 ATACACTAAG
282410 ATACACTAAG
1 ATACACTAAG
282420 ATACA
1 ATACA
282425 AAATATATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (10 bp):
ATACACTAAG
Found at i:283820 original size:22 final size:22
Alignment explanation
Indices: 283784--283834 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
283774 CTAATTCCAT
* *
283784 CCTT-AAACTTTATAAGTTTAG
1 CCTTAAAACTTTATAAATTTAA
*
283805 CCTTAAAATTTTATAAATTTAA
1 CCTTAAAACTTTATAAATTTAA
*
283827 CCCTAAAA
1 CCTTAAAA
283835 AAGTTGTCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (22 bp):
CCTTAAAACTTTATAAATTTAA
Found at i:294859 original size:31 final size:31
Alignment explanation
Indices: 294800--294861 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
294790 ATAAGATCAT
* * *
294800 TTTCGTTTTTATTTAGTTAATATATGGTCAC
1 TTTCGTTTTTATTTAATAAAGATATGGTCAC
*
294831 TTTCGTTTTTATTTAATAAAGATGTGGTCAC
1 TTTCGTTTTTATTTAATAAAGATATGGTCAC
294862 CGCAAGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.52
Consensus pattern (31 bp):
TTTCGTTTTTATTTAATAAAGATATGGTCAC
Found at i:295110 original size:30 final size:30
Alignment explanation
Indices: 295076--295141 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
295066 TCACAAACCG
* *
295076 GTCACTAATATTATTATTTGTTACAAAATA
1 GTCACTAACATTATCATTTGTTACAAAATA
* * *
295106 GTCACTAACGTTATCGTTTGTTACAAAATG
1 GTCACTAACATTATCATTTGTTACAAAATA
295136 GTCACT
1 GTCACT
295142 TGACGTTAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (30 bp):
GTCACTAACATTATCATTTGTTACAAAATA
Found at i:295251 original size:6 final size:6
Alignment explanation
Indices: 295240--295303 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
295230 ATTATTTGAC
* * * *
295240 TCTTCT TCTTCT TTTTC- TCTTTCT CCTTCT TCTTTT TC-TCTT TCTCCT
1 TCTTCT TCTTCT TCTTCT TC-TTCT TCTTCT TCTTCT TCTTC-T TCTTCT
295288 TCTTCT TCTTCT TCTT
1 TCTTCT TCTTCT TCTT
295304 TAATATAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
5 2 0.04
6 42 0.91
7 2 0.04
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TCTTCT
Found at i:295270 original size:21 final size:21
Alignment explanation
Indices: 295244--295304 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
295234 TTTGACTCTT
295244 CTTCTTCTTTTTCTCTTTCTC
1 CTTCTTCTTTTTCTCTTTCTC
295265 CTTCTTCTTTTTCTCTTTCTC
1 CTTCTTCTTTTTCTCTTTCTC
*
295286 CTTCTTCTTCTTCTTCTTT
1 CTTCTTCTTTTTC-TCTTT
295305 AATATAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 33 0.87
22 5 0.13
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
CTTCTTCTTTTTCTCTTTCTC
Found at i:295278 original size:27 final size:27
Alignment explanation
Indices: 295240--295303 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
295230 ATTATTTGAC
* *
295240 TCTTCTTCTTCTTTTTCTCTTTCTCCT
1 TCTTCTTCTTCTCTTTCTCCTTCTCCT
* *
295267 TCTTCTTTTTCTCTTTCTCCTTCTTCT
1 TCTTCTTCTTCTCTTTCTCCTTCTCCT
295294 TCTTCTTCTT
1 TCTTCTTCTT
295304 TAATATAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (27 bp):
TCTTCTTCTTCTCTTTCTCCTTCTCCT
Found at i:295612 original size:19 final size:19
Alignment explanation
Indices: 295588--295627 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
295578 GACATAACTT
295588 ACACGTTATGTAAAAATAA
1 ACACGTTATGTAAAAATAA
295607 ACACGTTATGTAAAAATAA
1 ACACGTTATGTAAAAATAA
295626 AC
1 AC
295628 GTACTTGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (19 bp):
ACACGTTATGTAAAAATAA
Found at i:295888 original size:46 final size:46
Alignment explanation
Indices: 295831--295919 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 46
295821 AAGGAAGTTG
295831 CACCTTACAAGGATGATCTTGACTTGTTGAC-GCAAAACAGAGGCAA
1 CACCTTACAAGGATGATCTTGACTTGTTGACGGC-AAACAGAGGCAA
* * *
295877 CACCTTGCAAGGATGATCTTGAGTTGTTGGCGGCAAACAGAGG
1 CACCTTACAAGGATGATCTTGACTTGTTGACGGCAAACAGAGG
295920 TAACGTCATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
46 37 0.95
47 2 0.05
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (46 bp):
CACCTTACAAGGATGATCTTGACTTGTTGACGGCAAACAGAGGCAA
Found at i:296382 original size:36 final size:36
Alignment explanation
Indices: 296298--296522 Score: 337
Period size: 36 Copynumber: 6.3 Consensus size: 36
296288 AAAGATGAAC
*
296298 ACTTGAACCGGAAGTGCCGATGCTT-CCTCCCGTTC-
1 ACTTGAATCGGAAGTGCCGATGCTTCCCT-CCGTTCG
*
296333 ACTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
*
296369 ATTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
* *
296405 ATTTGAATCGGAAGTGTCGATGCTTCCCTCCGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
* *
296441 ACTTGAATCAGAAGTGCCGATGCTTCCCTCTGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
** *
296477 ACTTGAATCGGAAGTGCTAATGCTTCCCTCTGTTCG
1 ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
296513 ACTTGAATCG
1 ACTTGAATCG
296523 ATGCAGACTT
Statistics
Matches: 176, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
35 30 0.17
36 146 0.83
ACGTcount: A:0.18, C:0.28, G:0.24, T:0.31
Consensus pattern (36 bp):
ACTTGAATCGGAAGTGCCGATGCTTCCCTCCGTTCG
Found at i:301399 original size:23 final size:23
Alignment explanation
Indices: 301373--301417 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
301363 CACCACAGCT
301373 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
301396 CATATAATTGCACCGGAGTGCC
1 CATATAATTGCACCGAAGTGCC
301418 GCGTAGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:301427 original size:23 final size:23
Alignment explanation
Indices: 301373--301441 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
301363 CACCACAGCT
*
301373 CATATAATTGCACCGAAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
* * *
301396 CATATAATTGCACCGGAGTGCCG
1 CATAGAATTGCACCGAAGTGCCA
* * * *
301419 CGTAGAATTACACTGTAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
301442 TATAATAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (23 bp):
CATAGAATTGCACCGAAGTGCCA
Found at i:301629 original size:103 final size:103
Alignment explanation
Indices: 301460--301674 Score: 376
Period size: 103 Copynumber: 2.1 Consensus size: 103
301450 TGTCCATAAA
* *
301460 GACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
301525 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
* **
301563 GACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACTTGAC
1 GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
*
301628 TTCGCACATGTTCCAAAGAATACATATATGTCCCGAAG
66 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
301666 GACCACATA
1 GACCACATA
301675 GACCCTCGAC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGAC
TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
Found at i:317908 original size:35 final size:35
Alignment explanation
Indices: 317862--317928 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
317852 AGCTCGAGTA
317862 GGGCGTCAAAGCACATAAAGTAGCATCCGTTTTTG
1 GGGCGTCAAAGCACATAAAGTAGCATCCGTTTTTG
* *
317897 GGGCGTCAAAGCACATAATGTAGTATCCGTTT
1 GGGCGTCAAAGCACATAAAGTAGCATCCGTTT
317929 GGGCCAGGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (35 bp):
GGGCGTCAAAGCACATAAAGTAGCATCCGTTTTTG
Found at i:319982 original size:17 final size:17
Alignment explanation
Indices: 319948--319980 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
319938 GTTTAACATG
*
319948 AGTTTAAGATTAGGTTT
1 AGTTTAAGAGTAGGTTT
319965 AGTTTAA-AGTAGGTTT
1 AGTTTAAGAGTAGGTTT
319981 TATATTAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (17 bp):
AGTTTAAGAGTAGGTTT
Found at i:320770 original size:18 final size:18
Alignment explanation
Indices: 320747--320784 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
320737 TTTCGTACAT
*
320747 TATATAT-TAGTGTGTGTA
1 TATATATATA-TGTATGTA
320765 TATATATATATGTATGTA
1 TATATATATATGTATGTA
320783 TA
1 TA
320785 AGTCATAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (18 bp):
TATATATATATGTATGTA
Found at i:322824 original size:55 final size:55
Alignment explanation
Indices: 322716--322824 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 55
322706 GCGTTCAGAT
* * * * *
322716 GATTCATGAAGAAGGACATTCGATGAATGAAGAAATTTGAACCTGACTAAAGAAC
1 GATTCATGAAGAAAGACATCCAATGAATGAAGAAATTTGAAACTGAATAAAGAAC
*
322771 GATTCATGAAGAAAGACATCCAATGAATGAAGAAATTTGAAACTGAATGAAGAA
1 GATTCATGAAGAAAGACATCCAATGAATGAAGAAATTTGAAACTGAATAAAGAA
322825 ATTTGAAACT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (55 bp):
GATTCATGAAGAAAGACATCCAATGAATGAAGAAATTTGAAACTGAATAAAGAAC
Found at i:322843 original size:20 final size:20
Alignment explanation
Indices: 322794--322834 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
322784 AGACATCCAA
322794 TGAATGAAGAAATTTGAAAC
1 TGAATGAAGAAATTTGAAAC
322814 TGAATGAAGAAATTTGAAAC
1 TGAATGAAGAAATTTGAAAC
322834 T
1 T
322835 TATTGAAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.27
Consensus pattern (20 bp):
TGAATGAAGAAATTTGAAAC
Found at i:323644 original size:72 final size:72
Alignment explanation
Indices: 323527--323676 Score: 282
Period size: 72 Copynumber: 2.1 Consensus size: 72
323517 CCCTATTACA
323527 CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
1 CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
*
323592 AAATGGT
66 AAATGAT
323599 CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
1 CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
*
323664 AATTGAT
66 AAATGAT
323671 CAAGAA
1 CAAGAA
323677 CCTGTTAGGG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (72 bp):
CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
AAATGAT
Found at i:328378 original size:37 final size:37
Alignment explanation
Indices: 328328--328452 Score: 155
Period size: 37 Copynumber: 3.4 Consensus size: 37
328318 GTCTTCACCA
* *
328328 AAGAGTAGTGAAGCATATCCTTTTTAAGCCTTCTCGG
1 AAGAGTAGTGAAGCATATCCTTTTTAAACCTTCTCAG
* * * * * *
328365 AAGAGTAGTGAAGCA-AACCATCTTAATCCTTCACCG
1 AAGAGTAGTGAAGCATATCCTTTTTAAACCTTCTCAG
328401 AAGAGTAGTGAAGCATATCCTTTTTAAACCTTCTCAG
1 AAGAGTAGTGAAGCATATCCTTTTTAAACCTTCTCAG
328438 AAGAGT-GTTGAAGCA
1 AAGAGTAG-TGAAGCA
328453 AACCATCAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
36 31 0.42
37 43 0.58
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (37 bp):
AAGAGTAGTGAAGCATATCCTTTTTAAACCTTCTCAG
Found at i:328404 original size:36 final size:37
Alignment explanation
Indices: 328320--328459 Score: 133
Period size: 37 Copynumber: 3.8 Consensus size: 37
328310 AAAGCCAAGT
* * * * *
328320 CTTCACCAAAGAGTAGTGAAGCATATCCTTTTTAAGC
1 CTTCACCGAAGAGTAGTGAAGCATAACCATCTTAAAC
* * *
328357 CTTCTCGGAAGAGTAGTGAAGCA-AACCATCTTAATC
1 CTTCACCGAAGAGTAGTGAAGCATAACCATCTTAAAC
* * *
328393 CTTCACCGAAGAGTAGTGAAGCATATCCTTTTTAAAC
1 CTTCACCGAAGAGTAGTGAAGCATAACCATCTTAAAC
* *
328430 CTTCTCAGAAGAGT-GTTGAAGCA-AACCATC
1 CTTCACCGAAGAGTAG-TGAAGCATAACCATC
328460 AGACTATCAG
Statistics
Matches: 83, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
36 35 0.42
37 48 0.58
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (37 bp):
CTTCACCGAAGAGTAGTGAAGCATAACCATCTTAAAC
Found at i:328441 original size:73 final size:73
Alignment explanation
Indices: 328320--328459 Score: 237
Period size: 73 Copynumber: 1.9 Consensus size: 73
328310 AAAGCCAAGT
* *
328320 CTTCACCAAAGAGTAGTGAAGCATATCCTTTTTAAGCCTTCTCGGAAGAGTAG-TGAAGCAAACC
1 CTTCACCAAAGAGTAGTGAAGCATATCCTTTTTAAACCTTCTCAGAAGAGT-GTTGAAGCAAACC
328384 ATCTTAATC
65 ATCTTAATC
*
328393 CTTCACCGAAGAGTAGTGAAGCATATCCTTTTTAAACCTTCTCAGAAGAGTGTTGAAGCAAACCA
1 CTTCACCAAAGAGTAGTGAAGCATATCCTTTTTAAACCTTCTCAGAAGAGTGTTGAAGCAAACCA
328458 TC
66 TC
328460 AGACTATCAG
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
72 1 0.02
73 62 0.98
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (73 bp):
CTTCACCAAAGAGTAGTGAAGCATATCCTTTTTAAACCTTCTCAGAAGAGTGTTGAAGCAAACCA
TCTTAATC
Found at i:328808 original size:37 final size:36
Alignment explanation
Indices: 328752--328823 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 36
328742 AAACAGGTCA
* *
328752 ATCTTAAGCCTTCATGGAAGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTAACGGAAGAGTAGTGAAGCAAACC
*
328788 ATCTGTAAGCCTTAACGGAAGATTAGTGAAGCAAAC
1 ATCT-TAAGCCTTAACGGAAGAGTAGTGAAGCAAAC
328824 TCATTTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 4 0.12
37 28 0.88
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (36 bp):
ATCTTAAGCCTTAACGGAAGAGTAGTGAAGCAAACC
Found at i:328982 original size:51 final size:51
Alignment explanation
Indices: 328828--329092 Score: 246
Period size: 51 Copynumber: 5.1 Consensus size: 51
328818 GCAAACTCAT
* * * *
328828 TTTAT-GAAGATCGAGTCCTATACTCTTTGAAGGAATAGGGAGCGGACACAT
1 TTTATAGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACAC-G
* *
328879 TTTATA-AAGATCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACG
1 TTTATAGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACG
* *
328929 TTTATAGAAGATCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACCCG
1 TTTATAGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACG
* * * * * *
328980 TTTGTTGAAGATTATTCGAGTCTTATACTCCCTGAACGAACAGGGAGCAAACACG
1 TTTATAGAAG---A-TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACG
* * * * ** *
329035 TTTGTTGAAGATTGTTTGAGTCTTATACTCCCTGAATTAATAGTGAGCAGACACG
1 TTTATAGAAGA----TCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACG
329090 TTT
1 TTT
329093 GCCGAAGATT
Statistics
Matches: 185, Mismatches: 20, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
50 6 0.03
51 95 0.51
52 1 0.01
54 1 0.01
55 82 0.44
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (51 bp):
TTTATAGAAGATCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACG
Found at i:329025 original size:55 final size:54
Alignment explanation
Indices: 328889--329137 Score: 254
Period size: 55 Copynumber: 4.6 Consensus size: 54
328879 TTTATAAAGA
* * * * *
328889 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATAGAAG---A-
1 TCGAGTCTTATACTCCCTGAA-GAATAGGGAGCAGACACGTTTGTTGAAGATTAT
* *
328940 TCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACCCGTTTGTTGAAGATTAT
1 TCGAGTCTTATACTCCCTGAAG-AATAGGGAGCAGACACGTTTGTTGAAGATTAT
* * *
328995 TCGAGTCTTATACTCCCTGAACGAACAGGGAGCAAACACGTTTGTTGAAGATTGT
1 TCGAGTCTTATACTCCCTGAA-GAATAGGGAGCAGACACGTTTGTTGAAGATTAT
* * * ** *
329050 TTGAGTCTTATACTCCCTGAATTAATAGTGAGCAGACACGTTTGCCGAAGATTGT
1 TCGAGTCTTATACTCCCTGAA-GAATAGGGAGCAGACACGTTTGTTGAAGATTAT
* * *
329105 CCGAGTCTTATACTCCCTAAAATAATAGGGAGC
1 TCGAGTCTTATACTCCCT-GAAGAATAGGGAGC
329138 GGACCCATCA
Statistics
Matches: 169, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
50 1 0.01
51 43 0.25
54 1 0.01
55 121 0.72
56 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (54 bp):
TCGAGTCTTATACTCCCTGAAGAATAGGGAGCAGACACGTTTGTTGAAGATTAT
Found at i:329155 original size:55 final size:55
Alignment explanation
Indices: 328940--329167 Score: 208
Period size: 55 Copynumber: 4.1 Consensus size: 55
328930 TTATAGAAGA
* * * *
328940 TCGAGTCTTATACTCTCTGAAGA-AATAGGGAGCAGACCCGTTTGTTGAAGATTAT
1 TCGAGTCTTATACTCCCT-AAAATAATAGGGAGCAGACCCATTTGTTGAAGATTGT
* ** * * * *
328995 TCGAGTCTTATACTCCCTGAACGAACAGGGAGCAAACACGTTTGTTGAAGATTGT
1 TCGAGTCTTATACTCCCTAAAATAATAGGGAGCAGACCCATTTGTTGAAGATTGT
* * * * * * **
329050 TTGAGTCTTATACTCCCTGAATTAATAGTGAGCAGACACGTTTGCCGAAGATTGT
1 TCGAGTCTTATACTCCCTAAAATAATAGGGAGCAGACCCATTTGTTGAAGATTGT
* * * *
329105 CCGAGTCTTATACTCCCTAAAATAATAGGGAGCGGACCCATCAT-TTGAAGATTTT
1 TCGAGTCTTATACTCCCTAAAATAATAGGGAGCAGACCCAT-TTGTTGAAGATTGT
*
329160 TCAAGTCT
1 TCGAGTCT
329168 CGCTTATCTA
Statistics
Matches: 141, Mismatches: 30, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
54 1 0.01
55 139 0.99
56 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (55 bp):
TCGAGTCTTATACTCCCTAAAATAATAGGGAGCAGACCCATTTGTTGAAGATTGT
Found at i:329167 original size:110 final size:110
Alignment explanation
Indices: 328943--329167 Score: 247
Period size: 110 Copynumber: 2.0 Consensus size: 110
328933 TAGAAGATCG
* * ** *
328943 AGTCTTATACTCTCTGAAGAAATAGGGAGCAGACCCGTTTGTTGAAGATTATTCGAGTCTTATAC
1 AGTCTTATACTCCCTGAAGAAATAGGGAGCAGACACGTTTGCCGAAGATTATCCGAGTCTTATAC
* * * * *
329008 TCCCTGAACGAACAGGGAGCAAACACGTTTGTTGAAGATTGTTTG
66 TCCCTAAAAGAACAGGGAGCAAACACATATGTTGAAGATTGTTTA
** * *
329053 AGTCTTATACTCCCTGAATTAATAGTGAGCAGACACGTTTGCCGAAGATTGTCCGAGTCTTATAC
1 AGTCTTATACTCCCTGAAGAAATAGGGAGCAGACACGTTTGCCGAAGATTATCCGAGTCTTATAC
* * ** *
329118 TCCCTAAAATAATAGGGAGCGGACCCATCAT-TTGAAGATT-TTTCA
66 TCCCTAAAAGAACAGGGAGCAAACACAT-ATGTTGAAGATTGTTT-A
329163 AGTCT
1 AGTCT
329168 CGCTTATCTA
Statistics
Matches: 94, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
109 3 0.03
110 90 0.96
111 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (110 bp):
AGTCTTATACTCCCTGAAGAAATAGGGAGCAGACACGTTTGCCGAAGATTATCCGAGTCTTATAC
TCCCTAAAAGAACAGGGAGCAAACACATATGTTGAAGATTGTTTA
Found at i:334221 original size:43 final size:43
Alignment explanation
Indices: 334160--334427 Score: 407
Period size: 43 Copynumber: 6.3 Consensus size: 43
334150 ACTGATTTTC
334160 AGGGGTTTCTT-ACTGACAAGCTTGAGAGACCATCGTGATATGT
1 AGGGGTTTCTTGA-TGACAAGCTTGAGAGACCATCGTGATATGT
334203 AGGGGTTTCTTGATGACAAGCTTGAGAGACCATCGTGATATGT
1 AGGGGTTTCTTGATGACAAGCTTGAGAGACCATCGTGATATGT
* *
334246 AGGGGTTCCTTGATGACATGCTTGAGAGACCATCGTGATATGT
1 AGGGGTTTCTTGATGACAAGCTTGAGAGACCATCGTGATATGT
*
334289 AGGGGTTTCTTGATGATAAGCTTGAGAGACCATCGTGATATGT
1 AGGGGTTTCTTGATGACAAGCTTGAGAGACCATCGTGATATGT
* *
334332 AGGGGTTTCTTGATGACATGCTTGAGGGACCATCGTGATATGT
1 AGGGGTTTCTTGATGACAAGCTTGAGAGACCATCGTGATATGT
* * * * *
334375 AGGGGTTCCTTGATAAC-A-CTTGAGGGATCAACGTGATATGT
1 AGGGGTTTCTTGATGACAAGCTTGAGAGACCATCGTGATATGT
*
334416 AGGGGTTCCTTG
1 AGGGGTTTCTTG
334428 GTAACAACTA
Statistics
Matches: 211, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
41 33 0.16
43 177 0.84
44 1 0.00
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.31
Consensus pattern (43 bp):
AGGGGTTTCTTGATGACAAGCTTGAGAGACCATCGTGATATGT
Found at i:334533 original size:42 final size:42
Alignment explanation
Indices: 334468--334572 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
334458 AAGAGTTTCT
334468 TGATGAGTAAGTCCTTC-GTGCCAT-TAGTAAGTCTTTCGAGCA
1 TGATG-GTAAGTCCTTCAGTGCCATCTA-TAAGTCTTTCGAGCA
334510 TGATGTGTAAGTCCTTCAG-GCCATCTATAAGTCTTTCGAGCA
1 TGATG-GTAAGTCCTTCAGTGCCATCTATAAGTCTTTCGAGCA
* * *
334552 GGATGATAAGACCTTCAGTGC
1 TGATGGTAAGTCCTTCAGTGC
334573 AAGATGTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
41 11 0.20
42 42 0.75
43 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (42 bp):
TGATGGTAAGTCCTTCAGTGCCATCTATAAGTCTTTCGAGCA
Found at i:334709 original size:89 final size:90
Alignment explanation
Indices: 334557--334992 Score: 410
Period size: 89 Copynumber: 4.9 Consensus size: 90
334547 GAGCAGGATG
*
334557 ATAAGACCTTCAGTGCAAGATGTTTTCAAATGAAATTTTAGAAACTAAGCCTTCGGGGGTTTCTT
1 ATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGGTTTCTT
* * **
334622 GATTTGTAAGTCCTTTGGGTTATCC
66 GATTTCTAAGTCCTTCGGGCCATCC
*
334647 ATAAGACCTTCAGTGCAAGATGTTTT-AAATGAGATTTTAGAAACTAAGCCTTTGGGGGTTTCTT
1 ATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGGTTTCTT
*
334711 GATTTCTAAGTCCTTCGGGCCATCT
66 GATTTCTAAGTCCTTCGGGCCATCC
* *
334736 ATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAAGAAACTAATCCTTCGGGGGTTTCT
1 ATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTT-AGAAACTAAGCCTTCGGGGGTTTCT
* * * * *
334801 TGATTTTTAAATCTTTCGGGTCATCT
65 TGATTTCTAAGTCCTTCGGGCCATCC
* * * * * * ** *** * * * *
334827 GTAAGTCTTTC-GAGCATGATG-ATT-AAAT--TCTTCGGGTTATCTGTAAGTCTTTC--GAG--
1 ATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAG-AAAC--TAAG-CCTTCGGGGGTT
** **
334883 -CAAGA-TGATAAGTCCTTCGGGCCATCC
62 TCTTGATTTCTAAGTCCTTCGGGCCATCC
*
334910 ATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAAGAAACTAAGCCTTCGGGGGTTTCT
1 ATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTT-AGAAACTAAGCCTTCGGGGGTTTCT
* *
334975 TGATTTTTAAATCCTTCG
65 TGATTTCTAAGTCCTTCG
334993 AGTCATCTGT
Statistics
Matches: 270, Mismatches: 58, Indels: 35
0.74 0.16 0.10
Matches are distributed among these distances:
83 24 0.09
84 11 0.04
85 7 0.03
86 12 0.04
87 4 0.01
88 11 0.04
89 88 0.33
90 49 0.18
91 64 0.24
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (90 bp):
ATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGAAACTAAGCCTTCGGGGGTTTCTT
GATTTCTAAGTCCTTCGGGCCATCC
Found at i:334863 original size:42 final size:42
Alignment explanation
Indices: 334807--334908 Score: 136
Period size: 42 Copynumber: 2.5 Consensus size: 42
334797 TTCTTGATTT
*
334807 TTAAA-TCTTTCGGGTCATCTGTAAGTCTTTCGAGCATGATGA
1 TTAAATTC-TTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
*
334849 TTAAATTCTTCGGGTTATCTGTAAGTCTTTCGAGCAAGATGA
1 TTAAATTCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
* * *
334891 -TAAGTCCTTCGGGCCATC
1 TTAAATTCTTCGGGTCATC
334909 CATAAGACCT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 14 0.26
42 37 0.70
43 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.36
Consensus pattern (42 bp):
TTAAATTCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
Found at i:334923 original size:174 final size:174
Alignment explanation
Indices: 334717--335096 Score: 697
Period size: 174 Copynumber: 2.2 Consensus size: 174
334707 TCTTGATTTC
*
334717 TAAGTCCTTCGGGCCATCTATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAAGAAAC
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAAGAAAC
* * *
334782 TAATCCTTCGGGGGTTTCTTGATTTTTAAATCTTTCGGGTCATCTGTAAGTCTTTCGAGCATGAT
66 TAAGCCTTCGGGGGTTTCTTGATTTTTAAATCCTTCGAGTCATCTGTAAGTCTTTCGAGCATGAT
* *
334847 GATTAAATTCTTCGGGTTATCTGTAAGTCTTTCGAGCAAGATGA
131 GATTAAATCCTTCGGGTTATATGTAAGTCTTTCGAGCAAGATGA
334891 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAAGAAAC
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAAGAAAC
*
334956 TAAGCCTTCGGGGGTTTCTTGATTTTTAAATCCTTCGAGTCATCTGTAAGTCTTTCGATCATGAT
66 TAAGCCTTCGGGGGTTTCTTGATTTTTAAATCCTTCGAGTCATCTGTAAGTCTTTCGAGCATGAT
335021 GATTAAATCCTTCGGGTTATATGTAAGTCTTTCGAGCAAGATGA
131 GATTAAATCCTTCGGGTTATATGTAAGTCTTTCGAGCAAGATGA
335065 TAAGTCCTTCGGGCCATCCATAAGACCTTCAG
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCAG
335097 CCATTATGCT
Statistics
Matches: 199, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 199 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (174 bp):
TAAGTCCTTCGGGCCATCCATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTTTAAGAAAC
TAAGCCTTCGGGGGTTTCTTGATTTTTAAATCCTTCGAGTCATCTGTAAGTCTTTCGAGCATGAT
GATTAAATCCTTCGGGTTATATGTAAGTCTTTCGAGCAAGATGA
Found at i:335046 original size:42 final size:42
Alignment explanation
Indices: 334981--335077 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
334971 TTCTTGATTT
* * * *
334981 TTAAATCCTTCGAGTCATCTGTAAGTCTTTCGATCATGATGA
1 TTAAATCCTTCGGGTCATATGTAAGTCTTTCGAGCAAGATGA
*
335023 TTAAATCCTTCGGGTTATATGTAAGTCTTTCGAGCAAGATGA
1 TTAAATCCTTCGGGTCATATGTAAGTCTTTCGAGCAAGATGA
*
335065 -TAAGTCCTTCGGG
1 TTAAATCCTTCGGG
335078 CCATCCATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
41 12 0.24
42 37 0.76
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (42 bp):
TTAAATCCTTCGGGTCATATGTAAGTCTTTCGAGCAAGATGA
Found at i:338790 original size:12 final size:12
Alignment explanation
Indices: 338775--338799 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
338765 TGTAAAAAAC
338775 AAAATTATTAAA
1 AAAATTATTAAA
338787 AAAATTATTAAA
1 AAAATTATTAAA
338799 A
1 A
338800 GGAACTTTTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTATTAAA
Found at i:348281 original size:2 final size:2
Alignment explanation
Indices: 348274--348302 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
348264 GTCTTTCAAC
348274 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
348303 GAAAAATATA
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:348413 original size:89 final size:88
Alignment explanation
Indices: 348283--348460 Score: 347
Period size: 89 Copynumber: 2.0 Consensus size: 88
348273 CTATATATAT
348283 ATATATATATATATATATATGAAAAATATAAAGAAATATATATTATAAATATTTACAATTAAATC
1 ATATATATATATATATATATGAAAAATATAAAGAAATATATATTATAAATATTTACAATTAAATC
348348 TAAACAAAAACTCGAACAACTTA
66 TAAACAAAAACTCGAACAACTTA
348371 ATATATATATATATATATATGAAAAAATATAAAGAAATATATATTATAAATATTTACAATTAAAT
1 ATATATATATATATATATATG-AAAAATATAAAGAAATATATATTATAAATATTTACAATTAAAT
348436 CTAAACAAAAACTCGAACAACTTA
65 CTAAACAAAAACTCGAACAACTTA
348460 A
1 A
348461 ATTGACTCGA
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 21 0.24
89 68 0.76
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (88 bp):
ATATATATATATATATATATGAAAAATATAAAGAAATATATATTATAAATATTTACAATTAAATC
TAAACAAAAACTCGAACAACTTA
Found at i:356098 original size:31 final size:30
Alignment explanation
Indices: 356029--356099 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
356019 AAGAAATTAA
* * *
356029 AAATTCAATAATATAAACGATACAATATCT
1 AAATTCAGTAATAAAAACGATACAATACCT
* *
356059 AAACTTCAGTAATAAAAATGATACACTACCT
1 AAA-TTCAGTAATAAAAACGATACAATACCT
356090 GAAATTCAGT
1 -AAATTCAGT
356100 GTTGTAACTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 3 0.09
31 28 0.82
32 3 0.09
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.28
Consensus pattern (30 bp):
AAATTCAGTAATAAAAACGATACAATACCT
Found at i:358218 original size:21 final size:22
Alignment explanation
Indices: 358179--358227 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
358169 ATTTAAATTT
*
358179 TTTATGTATTTTCTATTGAAAA
1 TTTATGTATTGTCTATTGAAAA
* *
358201 TTTAT-TATTGTCTCTTGAAAT
1 TTTATGTATTGTCTATTGAAAA
358222 TTTATG
1 TTTATG
358228 AAATTTTCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (22 bp):
TTTATGTATTGTCTATTGAAAA
Found at i:361584 original size:23 final size:23
Alignment explanation
Indices: 361551--361618 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
361541 ATTATTATAT
361551 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
361574 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* * *
361597 GGCGCTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTCTACG
361619 AGCTGTGGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:369960 original size:4 final size:4
Alignment explanation
Indices: 369951--369979 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
369941 AGTTTCCTCG
369951 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
369980 CTGATTAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:370193 original size:35 final size:35
Alignment explanation
Indices: 370147--370216 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
370137 AATCTACCTG
370147 GATTAAAGAAACTAGCAGATCATGCTTTAAAACTT
1 GATTAAAGAAACTAGCAGATCATGCTTTAAAACTT
370182 GATTAAAGAAACTAGCAGATCATGCTTTAAAACTT
1 GATTAAAGAAACTAGCAGATCATGCTTTAAAACTT
370217 CTTTGCTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (35 bp):
GATTAAAGAAACTAGCAGATCATGCTTTAAAACTT
Found at i:390736 original size:23 final size:23
Alignment explanation
Indices: 390709--390822 Score: 228
Period size: 23 Copynumber: 5.0 Consensus size: 23
390699 TGAAGGTGCA
390709 CCTTGAATGTGCATCGATGCACG
1 CCTTGAATGTGCATCGATGCACG
390732 CCTTGAATGTGCATCGATGCACG
1 CCTTGAATGTGCATCGATGCACG
390755 CCTTGAATGTGCATCGATGCACG
1 CCTTGAATGTGCATCGATGCACG
390778 CCTTGAATGTGCATCGATGCACG
1 CCTTGAATGTGCATCGATGCACG
390801 CCTTGAATGTGCATCGATGCAC
1 CCTTGAATGTGCATCGATGCAC
390823 AGGGCCATGT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 91 1.00
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (23 bp):
CCTTGAATGTGCATCGATGCACG
Found at i:391255 original size:13 final size:13
Alignment explanation
Indices: 391239--391278 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
391229 AAATTGAAAA
391239 TTTTAATTTAATT
1 TTTTAATTTAATT
*
391252 TTTTAATTTGATAT
1 TTTTAATTTAAT-T
*
391266 TTTTGATTTAATT
1 TTTTAATTTAATT
391279 ATGTTGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (13 bp):
TTTTAATTTAATT
Found at i:393474 original size:45 final size:45
Alignment explanation
Indices: 393425--393512 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
393415 GAACATCGAA
* * *
393425 TGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAG
1 TGCATTTGATGCATCGATACACAAACCATGCATCGATGCACTCAG
393470 TGCATTTGATGCATCGATACACAAACCATGCATCGATGCACTC
1 TGCATTTGATGCATCGATACACAAACCATGCATCGATGCACTC
393513 TGGCTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (45 bp):
TGCATTTGATGCATCGATACACAAACCATGCATCGATGCACTCAG
Found at i:398562 original size:241 final size:240
Alignment explanation
Indices: 398129--398991 Score: 1189
Period size: 241 Copynumber: 3.6 Consensus size: 240
398119 TTCCCTTCGT
* * * * * * * * *
398129 CGTGAAGTTGAAACCGTGAATGCCCCCTCCGTCGTGAAGTTGAGCCTTCAATTGGATATCCTTCA
1 CGTGGAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTCG
* * *
398194 TCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTCGAGTCCAATATCCTCTGCCGTG-AAGTTA
66 TCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTCAAGTCCAATATCCTCCGCCGTGAAATTTA
* * * * * *
398258 AAATGGATTTTGAAACTGGGAAGCCCCTTCGTTGTGAAGTTGAGCCTCAAATGGCATGATATCCT
131 AATTGG-CTCTGAAAATGGGAAGCCCCTTCGTCGTGAAGTTGAGCCTCAAATGGCACGATATCCT
*
398323 CCGTCGTGGAATTGAAATCGTGGATGTGTGGGTACGATATCCTCCAG
195 CCGTCGTGGAGTTGAAATCGTGGATGTGTGGGTACGATATCCTCC-G
*
398370 CGTGGAGTTGAAATCGTGGATGGCCCCTTCGTCATGAAGTTGA-CCATTGACTTGAATATCCTTC
1 CGTGGAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCC-TTGACTTGAATATCCTTC
* * * *
398434 GTCGTGAAGTTAAAATCTAAGTAAGTTGTATTGTTTCGAGTCTAATATCCTCCGCCGTGAAATTT
65 GTCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTCAAGTCCAATATCCTCCGCCGTGAAATTT
* * *
398499 AAATTGGCTCTGAAATTGGGAAGCCCCTTCGTCGTAAAGTTGAGCCTCAAATGACACGATATCCT
130 AAATTGGCTCTGAAAATGGGAAGCCCCTTCGTCGTGAAGTTGAGCCTCAAATGGCACGATATCCT
* * * * * * *
398564 CCATCATGTAGTTGAAATCGTGGATATGTGGGTATGGTATCCTCCTT
195 CCGTCGTGGAGTTGAAATCGTGGATGTGTGGGTACGATATCCTCC-G
* * *
398611 TGTGGAGTTGAAATCGTGGATGGCCCCTTCATCGTGAAGTTGAGCCTTGACTTGAATATCATTCG
1 CGTGGAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTCG
* *
398676 TCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTCAAGTCCAATATCCTCCGCCGTGAAGTTAA
66 TCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTCAAGTCCAATATCCTCCGCCGTGAAATTTA
*
398741 AATTGGCTCTGAAAATGAGAAGCCCCTTCGTCGTGAAGTTGAGCCTCAAATGGCACGATATCCTC
131 AATTGGCTCTGAAAATGGGAAGCCCCTTCGTCGTGAAGTTGAGCCTCAAATGGCACGATATCCTC
*
398806 CGTCGTGGAGTTGAAATCGTGGATGTGTGGATACGATATCCTCCG
196 CGTCGTGGAGTTGAAATCGTGGATGTGTGGGTACGATATCCTCCG
* **
398851 TTGTGGAGTTGAAATAATGGATGGCCCCTTCGTCGTGAAGTTGAG-CTTCGACTTGAATATCCTT
1 -CGTGGAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTT-GACTTGAATATCCTT
* * * *
398915 CGTTGTGAAGTTGAAATCCAAGT-A--TGTATTGTTTCAAGTCCAATATCCTTCGCTGTGAAGTT
64 CGTCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTCAAGTCCAATATCCTCCGCCGTGAAATT
*
398977 GAAATTGGCTCTGAA
129 TAAATTGGCTCTGAA
398992 TAAAATTGGG
Statistics
Matches: 555, Mismatches: 62, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
238 50 0.09
240 6 0.01
241 487 0.88
242 12 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (240 bp):
CGTGGAGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTCG
TCGTGAAGTTGAAATCCAAGTAAGTTGTATTGTTTCAAGTCCAATATCCTCCGCCGTGAAATTTA
AATTGGCTCTGAAAATGGGAAGCCCCTTCGTCGTGAAGTTGAGCCTCAAATGGCACGATATCCTC
CGTCGTGGAGTTGAAATCGTGGATGTGTGGGTACGATATCCTCCG
Found at i:399187 original size:111 final size:110
Alignment explanation
Indices: 398951--399374 Score: 649
Period size: 110 Copynumber: 3.9 Consensus size: 110
398941 TATTGTTTCA
* * **
398951 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATAAAATTGGGAAGTTGTTTGTTGA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTGA
* * *
399016 CAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTATCTCG
66 CAGTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
*
399061 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAATTGAAAAGTTGTTTGTTTG
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTG-TTG
*
399126 ACAGTCAGTCACCCCTTCGCTGTGAAGTTGATCTTGTGTTGTCTCG
65 ACAGTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
* * ** * *
399172 AGTCCAATATCCTTCGATATGAAGTTGAAATTGACTCTGAAGGAAACTGAAAAGTTATTTGTTTA
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTGA
*
399237 CTGTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
66 CAGTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
*
399282 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTG-
1 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTGA
*
399346 -A-T-AGTCTCCCCTTCGCTGTGAAGTTGAGC
66 CAGTCAGTCACCCCTTCGCTGTGAAGTTGAGC
399375 AACCACCATC
Statistics
Matches: 290, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
106 26 0.09
107 1 0.00
110 163 0.56
111 100 0.34
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.34
Consensus pattern (110 bp):
AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTGA
CAGTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCG
Found at i:399212 original size:221 final size:216
Alignment explanation
Indices: 398951--399372 Score: 646
Period size: 221 Copynumber: 1.9 Consensus size: 216
398941 TATTGTTTCA
* * * * * ** *
398951 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATAAAATTGGGAAGTTGTTTGTTGA
1 AGTCCAATATCCTTCGATATGAAGTTGAAATTGACTCTGAAGAAAACTGAAAAGTTATTTGTTGA
*
399016 CAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTATCTCGAGTCCAATATCCTTCGCTGT
66 CAGTCAGCCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTATCTCGAGTCCAATATCCTTCGCTGT
*
399081 GAAGTTGAAATTGACTCTGAATAAAATTGAAAAGTTGTTTGTTTGACAGTCAGTCACCCCTTCGC
131 GAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTG-TTG--A-T-AGTCACCCCTTCGC
399146 TGTGAAGTTGATCTTGTGTTGTCTCG
191 TGTGAAGTTGATCTTGTGTTGTCTCG
* *
399172 AGTCCAATATCCTTCGATATGAAGTTGAAATTGACTCTGAAGGAAACTGAAAAGTTATTTGTTTA
1 AGTCCAATATCCTTCGATATGAAGTTGAAATTGACTCTGAAGAAAACTGAAAAGTTATTTGTTGA
* * *
399237 CTGTCAGTCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGT
66 CAGTCAGCCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTATCTCGAGTCCAATATCCTTCGCTGT
* *
399302 GAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTTGTTTGTTGATAGTCTCCCCTTCGCTGTGA
131 GAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTGATAGTCACCCCTTCGCTGTGA
399367 AGTTGA
196 AGTTGA
399373 GCAACCACCA
Statistics
Matches: 184, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
216 24 0.13
217 1 0.01
218 1 0.01
220 3 0.02
221 155 0.84
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (216 bp):
AGTCCAATATCCTTCGATATGAAGTTGAAATTGACTCTGAAGAAAACTGAAAAGTTATTTGTTGA
CAGTCAGCCACCCCTTCGCTGTGAAGTTGAGCTTGTGTTATCTCGAGTCCAATATCCTTCGCTGT
GAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTGATAGTCACCCCTTCGCTGTGA
AGTTGATCTTGTGTTGTCTCG
Found at i:403702 original size:33 final size:33
Alignment explanation
Indices: 403665--403745 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 33
403655 AGTCCTACTT
* *
403665 GGACTCAAATGC-TTCAGTTTTAGTGTTTTAATA
1 GGACTCAAATACGTT-AGTTTTAGTGTTTCAATA
*
403698 GGACTCAAATACGTTGGTTTTAGTGTTTCAATA
1 GGACTCAAATACGTTAGTTTTAGTGTTTCAATA
*
403731 AGACTCAAATACGTT
1 GGACTCAAATACGTT
403746 GATTTATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 41 0.95
34 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (33 bp):
GGACTCAAATACGTTAGTTTTAGTGTTTCAATA
Found at i:403746 original size:33 final size:33
Alignment explanation
Indices: 403681--403746 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
403671 AAATGCTTCA
* *
403681 GTTTTAGTGTTTTAATAGGACTCAAATACGTTG
1 GTTTTAGTGTTTCAATAAGACTCAAATACGTTG
403714 GTTTTAGTGTTTCAATAAGACTCAAATACGTTG
1 GTTTTAGTGTTTCAATAAGACTCAAATACGTTG
403747 ATTTATTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.41
Consensus pattern (33 bp):
GTTTTAGTGTTTCAATAAGACTCAAATACGTTG
Found at i:403815 original size:3 final size:3
Alignment explanation
Indices: 403807--403849 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
403797 AACAAAAGAA
403807 AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT -AT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
403850 TTTTTGTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 6 0.16
3 31 0.84
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:403821 original size:9 final size:9
Alignment explanation
Indices: 403807--403849 Score: 65
Period size: 8 Copynumber: 5.1 Consensus size: 9
403797 AACAAAAGAA
403807 AATAATAAT
1 AATAATAAT
403816 AATAATAAT
1 AATAATAAT
403825 AATAAT-AT
1 AATAATAAT
403833 AATAAT-AT
1 AATAATAAT
403841 AATAA-AAT
1 AATAATAAT
403849 A
1 A
403850 TTTTTGTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 18 0.55
9 15 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AATAATAAT
Found at i:410684 original size:63 final size:62
Alignment explanation
Indices: 410605--410728 Score: 160
Period size: 63 Copynumber: 2.0 Consensus size: 62
410595 GGTATTTATT
**
410605 ATCTATTTAACTTTGAATATTAAATA-TAATTATATCCTTTTGAATATTTCAAATTAAAATAAA
1 ATCTATTTAACTTTGAATAGGAAA-AGTAATTATAT-CTTTTGAATATTTCAAATTAAAATAAA
* ** *
410668 ATCTATTTAAGTTTGAATAGGAAAAGGTGTTTATATCTTTTGAATATTTTAAATTAAAATA
1 ATCTATTTAACTTTGAATAGGAAAA-GTAATTATATCTTTTGAATATTTCAAATTAAAATA
410729 CATTATTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
62 1 0.02
63 45 0.85
64 7 0.13
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (62 bp):
ATCTATTTAACTTTGAATAGGAAAAGTAATTATATCTTTTGAATATTTCAAATTAAAATAAA
Found at i:413179 original size:27 final size:27
Alignment explanation
Indices: 413125--413180 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
413115 CATTAATGGA
* *
413125 TTTAATATTTAAATTAAAATCATTTTT
1 TTTAATATTCAAATTAAAATCATATTT
*
413152 TTTAATATTACAAATTAAAA-GATATTT
1 TTTAATATT-CAAATTAAAATCATATTT
413179 TT
1 TT
413181 AATTTAGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (27 bp):
TTTAATATTCAAATTAAAATCATATTT
Found at i:413746 original size:31 final size:30
Alignment explanation
Indices: 413686--413748 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
413676 CTCTTTTATT
*
413686 TAAGTACCTAAAATATTTTTTTGAACAAAA
1 TAAGTACCTAAAATATCTTTTTGAACAAAA
* **
413716 TAAGTACCTAAAGTTATCTTTTTGGTCAAAA
1 TAAGTACCTAAA-ATATCTTTTTGAACAAAA
413747 TA
1 TA
413749 GATACGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (30 bp):
TAAGTACCTAAAATATCTTTTTGAACAAAA
Found at i:413924 original size:31 final size:28
Alignment explanation
Indices: 413847--413937 Score: 92
Period size: 31 Copynumber: 3.0 Consensus size: 28
413837 AATACTTTGG
*
413847 GTACCTATTTTGACCCAAAAAATATTTTA
1 GTACCTATTTTGA-CCAAAAAATAATTTA
*
413876 GCTACCTATTTTAACCAAAAAGATAATTCTA
1 G-TACCTATTTTGACCAAAAA-ATAATT-TA
* *
413907 TGTACTTATTTTGACCAAAAAAATACTTTA
1 -GTACCTATTTTGACC-AAAAAATAATTTA
413937 G
1 G
413938 GTACTTAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
29 9 0.17
30 18 0.35
31 19 0.37
32 6 0.12
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (28 bp):
GTACCTATTTTGACCAAAAAATAATTTA
Found at i:413944 original size:30 final size:30
Alignment explanation
Indices: 413836--413941 Score: 122
Period size: 30 Copynumber: 3.5 Consensus size: 30
413826 AAATAAAAGT
* *
413836 AAATACTTTGGGTACCTATTTTGACCCAAA
1 AAATACTTTAGGTACCTATTTTGACCAAAA
* * *
413866 AAATATTTTAGCTACCTATTTTAACCAAAA
1 AAATACTTTAGGTACCTATTTTGACCAAAA
* * * *
413896 AGATAATTCTATGTACTTATTTTGACCAAAA
1 AAATACTT-TAGGTACCTATTTTGACCAAAA
413927 AAATACTTTAGGTAC
1 AAATACTTTAGGTAC
413942 TTAAATGAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
30 37 0.61
31 24 0.39
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (30 bp):
AAATACTTTAGGTACCTATTTTGACCAAAA
Found at i:421295 original size:35 final size:35
Alignment explanation
Indices: 421232--421331 Score: 119
Period size: 35 Copynumber: 2.7 Consensus size: 35
421222 TTTCGTCCTA
*
421232 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
1 CTAGGATTC-AACTC-CTAAAATAGGATAGAATTCTG
*
421269 CTAGGATTCAACTCCTAAAATAGGATAGAATTTTG
1 CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
** *
421304 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTCAACTCCTAAA-ATAGGAT
421332 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 16 0.29
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (35 bp):
CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
Found at i:421729 original size:21 final size:23
Alignment explanation
Indices: 421700--421742 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
421690 TTTCTATTAA
421700 TTTTATTATTA-TG-TATATATG
1 TTTTATTATTAGTGTTATATATG
*
421721 TTTTTTTATTAGTGTTATATAT
1 TTTTATTATTAGTGTTATATAT
421743 ATATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 2 0.11
23 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (23 bp):
TTTTATTATTAGTGTTATATATG
Found at i:421741 original size:2 final size:2
Alignment explanation
Indices: 421736--421781 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
421726 TTATTAGTGT
*
421736 TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
421777 TA TA T
1 TA TA T
421782 TATTTATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:421911 original size:16 final size:18
Alignment explanation
Indices: 421890--421924 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
421880 TTTACTCATT
421890 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
421906 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
421924 T
1 T
421925 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:425598 original size:7 final size:8
Alignment explanation
Indices: 425581--425625 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
425571 CAATCAGAAC
*
425581 AAAAAGGG
1 AAAAAAGG
425589 AAAAAA-G
1 AAAAAAGG
425596 AAAAAA-G
1 AAAAAAGG
425603 AAAAGAAGG
1 AAAA-AAGG
425612 AAAAAAGG
1 AAAAAAGG
425620 AAAAAA
1 AAAAAA
425626 CAAGAACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
7 12 0.35
8 17 0.50
9 5 0.15
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:425639 original size:32 final size:31
Alignment explanation
Indices: 425581--425650 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
425571 CAATCAGAAC
* * *
425581 AAAAAGGGAAAAAAGAAAAAAGAAAAGAAGG
1 AAAAAAGGAAAAAACAAAAAAGAAAAGAAAG
425612 AAAAAAGGAAAAAACAAGAACAA-AAAAGAAAG
1 AAAAAAGGAAAAAACAA-AA-AAGAAAAGAAAG
425644 AACAAAA
1 AA-AAAA
425651 ATAAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 15 0.45
32 12 0.36
33 6 0.18
ACGTcount: A:0.77, C:0.04, G:0.19, T:0.00
Consensus pattern (31 bp):
AAAAAAGGAAAAAACAAAAAAGAAAAGAAAG
Found at i:426767 original size:18 final size:18
Alignment explanation
Indices: 426744--426779 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
426734 TCAACATCAA
*
426744 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
426762 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
426780 GGATTCAACA
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:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:427303 original size:36 final size:36
Alignment explanation
Indices: 427260--427632 Score: 255
Period size: 36 Copynumber: 10.6 Consensus size: 36
427250 ACTAGAAGAG
427260 TTTTGTCTCTCCTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCCTGAGACAGTTTCCCTTGAAACAAA
*
427296 TTTTGTCTC-CCTTGAGACAGTTTCTCTTGAAACATAA
1 TTTTGTCTCTCC-TGAGACAGTTTCCCTTGAAACA-AA
* * * *
427333 -----AC-AT--TGAAAACA-TTTCCCTTGAAATAAA
1 TTTTGTCTCTCCTG-AGACAGTTTCCCTTGAAACAAA
* * *
427361 TTTTCGTCTCTCTTGAGATAATTTCCCTTGAAACAAAA
1 TTTT-GTCTCTCCTGAGACAGTTTCCCTTGAAAC-AAA
* *
427399 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCCTGAGACAGTTTCCCTTGAAACAAA
* * *
427435 TTTTGTCTCTCTTGAGACATTTTCCCTTGAAATAAA
1 TTTTGTCTCTCCTGAGACAGTTTCCCTTGAAACAAA
*
427471 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCCTGAGACAGTTTCCCTTGAAACAAA
* * * * * *
427507 ----ATAT-T--T-AAATATGTTTTCTTTGAAACAAA
1 TTTTGTCTCTCCTGAGACA-GTTTCCCTTGAAACAAA
* * ** * *
427536 TTTCGTC-CCCCTTGAGACAGTTTCTTTTGGAACTAAG
1 TTTTGTCTCTCC-TGAGACAGTTTCCCTTGAAAC-AAA
**
427573 TTTTGTCTCTCTCTTGAGACAGTTTCTGTTGAAACAAA
1 TTTTGTCTCTC-C-TGAGACAGTTTCCCTTGAAACAAA
427611 TTTTGTCTC-CCTTGAGACAGTT
1 TTTTGTCTCTCC-TGAGACAGTT
427633 ATTCTTGAAA
Statistics
Matches: 272, Mismatches: 37, Indels: 56
0.75 0.10 0.15
Matches are distributed among these distances:
28 5 0.02
29 30 0.11
30 4 0.01
31 1 0.00
32 3 0.01
33 1 0.00
34 1 0.00
35 3 0.01
36 129 0.47
37 54 0.20
38 20 0.07
39 21 0.08
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCTCCTGAGACAGTTTCCCTTGAAACAAA
Found at i:427453 original size:175 final size:175
Alignment explanation
Indices: 427260--427632 Score: 480
Period size: 175 Copynumber: 2.1 Consensus size: 175
427250 ACTAGAAGAG
* *
427260 TTTTGTCTCTCCTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTG
* * * *
427325 AAACATAAACATTGAAA-ACATTTCCCTTGAAATAAATTTTCGTCTCTCTTGAGATAATTTCCCT
66 AAACA-AAACATTGAAATACATTTCCCTTGAAACAAA-TTTCGTCCCCCTTGAGACAATTTCCCT
*
427389 TGAAACAAAATTTTG-TCTCTCTTGAGACAGTTTCCCTTGAAATAAA
129 TGAAACAAAATTTTGCTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
427435 TTTTGTCTCTCTTGAGACATTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTG
* * ** * * * **
427500 AAACAAAATATTTAAATATGTTTTCTTTGAAACAAATTTCGTCCCCCTTGAGACAGTTTCTTTTG
66 AAACAAAACATTGAAATACATTTCCCTTGAAACAAATTTCGTCCCCCTTGAGACAATTTCCCTTG
* * * **
427565 GAACTAAGTTTTGTCTCTCTCTTGAGACAGTTTCTGTTGAAACAAA
131 AAACAAAATTTTG-CTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
427611 TTTTGTCTCCCTTGAGACAGTT
1 TTTTGTCTCTCTTGAGACAGTT
427633 ATTCTTGAAA
Statistics
Matches: 169, Mismatches: 26, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
174 42 0.25
175 79 0.47
176 48 0.28
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (175 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTG
AAACAAAACATTGAAATACATTTCCCTTGAAACAAATTTCGTCCCCCTTGAGACAATTTCCCTTG
AAACAAAATTTTGCTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:427591 original size:39 final size:36
Alignment explanation
Indices: 427521--427632 Score: 145
Period size: 39 Copynumber: 3.1 Consensus size: 36
427511 TTAAATATGT
* *
427521 TTTCT-TTGAAACAAATTTCGTCCCCCTTGAGACAG
1 TTTCTGTTGAAACAAATTTTGTCTCCCTTGAGACAG
* * *
427556 TTTCTTTTGGAACTAAGTTTTGTCTCTCTCTTGAGACAG
1 TTTCTGTTGAAAC-AAATTTTGTCTC-C-CTTGAGACAG
427595 TTTCTGTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCTGTTGAAACAAATTTTGTCTCCCTTGAGACAG
427631 TT
1 TT
427633 ATTCTTGAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
35 5 0.08
36 18 0.27
37 10 0.15
38 12 0.18
39 21 0.32
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCTGTTGAAACAAATTTTGTCTCCCTTGAGACAG
Found at i:428592 original size:109 final size:108
Alignment explanation
Indices: 428316--428824 Score: 487
Period size: 109 Copynumber: 4.8 Consensus size: 108
428306 GGGCCATCCG
* * * * * *
428316 CGATTTCAACTCCACGACGGAGGATATTGTGGCATTC-AGACAACGCAAGCTCAACTTCACAGCG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAACG
* ** * * **
428380 AAGGGGCGGCTGACTGT---C-GACAA---GCAATTTCGGAGC
66 AAGGGACGGCTGGTTGTCAACAAACAATTTCCAATTTCATAGC
* * * * * *
428416 CAATCTCAACTTCAC-AGCGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTTCACAGC
1 CGATTTCAACTCCACGA-CGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAAC
* * *
428477 GAAGGGATGACTGGTTGTCAACAAACAATTTCCCAATTCCATAGC
65 GAAGGGACGGCTGGTTGTCAACAAACAATTT-CCAATTTCATAGC
* *
428522 CGATTTCAACTCCACGACGGAGGATATCGTGCTACCCGAGACAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAACG
* * * *
428587 AAGGGACGGCTGGTTGTCAACGAACAACTTTTCAGTTTCAT-CC
66 AAGGGACGGCTGGTTGTCAACAAACAA-TTTCCAATTTCATAGC
*
428630 GCGATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCATAAC
1 -CGATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAAC
* * *
428695 GAAGGGACGGCTGGTTGTCAACAAACATTTTTCAAATTTCAGAGC
65 GAAGGGACGGCTGGTTGTCAACAAACA-ATTTCCAATTTCATAGC
** * * *
428740 AAATTTCAACT--TCGTAGCGAAGGATAT--TG-GACTCGAGACAACACAAGTTCAACTTCACAA
1 CGATTTCAACTCCACG-A-CGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAA
*
428800 CGAAGGGACGGCTGATTGTCAACAA
64 CGAAGGGACGGCTGGTTGTCAACAA
428825 GATTTCGTTC
Statistics
Matches: 340, Mismatches: 49, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
97 3 0.01
98 39 0.11
99 1 0.00
100 21 0.06
101 1 0.00
102 4 0.01
106 83 0.24
107 5 0.01
108 4 0.01
109 175 0.51
110 4 0.01
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (108 bp):
CGATTTCAACTCCACGACGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTTCACAACG
AAGGGACGGCTGGTTGTCAACAAACAATTTCCAATTTCATAGC
Found at i:428819 original size:106 final size:105
Alignment explanation
Indices: 428404--428980 Score: 576
Period size: 109 Copynumber: 5.4 Consensus size: 105
428394 TGTCGACAAG
* *
428404 CAATTTCGGAGCCAATCTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAAC
* * * *
428469 TTCACAGCGAAGGGATGACTGGTTGTCAACAAACAATTTCC
66 TTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTT-T
* * * * * * *
428510 CAATTCCATAGCCGATTTCAACTCCAC-GACGGAGGATATCGTGCTACCCGAGACAACACAAGTT
1 CAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATAT--TG-GACTCGAGACAACACAAGTT
*
428574 CAACTTCACAACGAAGGGACGGCTGGTTGTCAACGAACAACTTTT
62 CAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA-TTTT
* ** * * * *
428619 CAGTTTCA-TCCGCGATTTCAACTCCAC-GACGGAGGATATCGTGCCACTCGAGACAACACAAGT
1 CAATTTCAGAGC-CAATTTCAACTTCACAG-CGAAGGATAT--TG-GACTCGAGACAACACAAGT
* *
428682 TCAACTTCATAACGAAGGGACGGCTGGTTGTCAACAAACATTTTT
61 TCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTT
* **
428727 CAAATTTCAGAGCAAATTTCAACTTCGTAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAA
1 C-AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAA
* *
428792 CTTCACAACGAAGGGACGGCTGATTGTCAAC-AA-GA-TTT
65 CTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTT
* * * * * * *
428830 C--GTTCAGAGTCAATTTCATCTTCACAGTGAAGGATATTAGACTCGAGACAGCACAAGCTCAAC
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAAC
* * * ** *
428893 TTCACAACAAAGGGGCGACTGACTGTCAACAAACAATTTCC
66 TTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTT-T
* * * *
428934 CAGTTCCAGAACCAATTTCAACTTCACAGCGGAGGATATTGGACTCG
1 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
428981 GAACAATATT
Statistics
Matches: 395, Mismatches: 61, Indels: 30
0.81 0.13 0.06
Matches are distributed among these distances:
100 78 0.20
101 2 0.01
102 1 0.00
103 6 0.02
104 1 0.00
105 3 0.01
106 117 0.30
107 2 0.01
108 8 0.02
109 172 0.44
110 5 0.01
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (105 bp):
CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAAC
TTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTT
Found at i:429504 original size:35 final size:35
Alignment explanation
Indices: 429441--429540 Score: 119
Period size: 35 Copynumber: 2.7 Consensus size: 35
429431 TTTCGTCCTA
*
429441 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
1 CTAGGATTC-AACTC-CTAAAATAGGATAGAATTCTG
*
429478 CTAGGATTCAACTCCTAAAATAGGATAGAATTTTG
1 CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
** *
429513 CTATGTTTTAAACTCCTAAAGATAGGAT
1 CTA-GGATTCAACTCCTAAA-ATAGGAT
429541 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 16 0.29
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (35 bp):
CTAGGATTCAACTCCTAAAATAGGATAGAATTCTG
Found at i:429958 original size:2 final size:2
Alignment explanation
Indices: 429953--429996 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
429943 TTAGTGTTAT
429953 TA TA TA TA 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 TA
429994 TA T
1 TA T
429997 TTCCTATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:430129 original size:16 final size:18
Alignment explanation
Indices: 430108--430142 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
430098 TTTACTCATT
430108 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
430124 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
430142 T
1 T
430143 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:431763 original size:2 final size:2
Alignment explanation
Indices: 431756--431813 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
431746 TCTAACCAAA
431756 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
431798 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
431814 TCCAGATTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:434469 original size:71 final size:74
Alignment explanation
Indices: 434392--434536 Score: 179
Period size: 71 Copynumber: 2.0 Consensus size: 74
434382 TAAATAGTGT
* * **
434392 TCGACTCGTGCTTGTTAAAAAAAATTGTT-GCTCG-AATCGGTTCGTT-CTCGTTAAGCTCATTA
1 TCGACTCGTGCTCGTTAAAAAAAATCGTTAGCTCGTAATCGGTTCGTTGCTCGTTAAGCTCACCA
434454 AAATTTTGC
66 AAATTTTGC
* * * *
434463 TCGACTCGTGCTCGTTAAGAAAACTCGTTAAGCTCGTTACTCGTTTCGTTGCTCGTTAAGCTCAC
1 TCGACTCGTGCTCGTTAAAAAAAATCGTT-AGCTCG-TAATCGGTTCGTTGCTCGTTAAGCTCAC
434528 CAAAATTTT
64 CAAAATTTT
434537 TATCTTATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
71 25 0.41
73 5 0.08
75 10 0.16
76 21 0.34
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (74 bp):
TCGACTCGTGCTCGTTAAAAAAAATCGTTAGCTCGTAATCGGTTCGTTGCTCGTTAAGCTCACCA
AAATTTTGC
Found at i:435717 original size:14 final size:15
Alignment explanation
Indices: 435688--435719 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
435678 TATAGTTTAT
435688 ATAGTATATTATATA
1 ATAGTATATTATATA
435703 ATAG-ATATTATATA
1 ATAGTATATTATATA
435717 ATA
1 ATA
435720 TTTAGATAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
ATAGTATATTATATA
Found at i:435904 original size:24 final size:24
Alignment explanation
Indices: 435840--435906 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 24
435830 CTTTATAGAC
*
435840 TTTTAAA-AGTTAAATTTTTAAAGT
1 TTTTAAATAATTAAA-TTTTAAAGT
*
435864 TTTTACTATAATT--ATTTTAAA-T
1 TTTTA-AATAATTAAATTTTAAAGT
435886 ATTTTAAATAATTAAATTTTA
1 -TTTTAAATAATTAAATTTTA
435907 TAAAATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
22 7 0.20
23 12 0.34
24 12 0.34
25 1 0.03
26 3 0.09
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (24 bp):
TTTTAAATAATTAAATTTTAAAGT
Found at i:436080 original size:21 final size:19
Alignment explanation
Indices: 436054--436125 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 19
436044 GACATAGTGA
*
436054 ATATATATTTATATTTATATT
1 ATATATA-TTATA-GTATATT
436075 ATATATATTATAGTATATT
1 ATATATATTATAGTATATT
* *
436094 ATGCTACATTATA-TAGTAATT
1 AT-ATATATTATAGTA-T-ATT
436115 ATATATATTAT
1 ATATATATTAT
436126 GGTACAAGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 10 0.23
20 21 0.49
21 12 0.28
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (19 bp):
ATATATATTATAGTATATT
Found at i:436934 original size:2 final size:2
Alignment explanation
Indices: 436927--437037 Score: 156
Period size: 2 Copynumber: 55.5 Consensus size: 2
436917 TTTATCTTTT
*
436927 TA TA TA TA TA GTA TA TA TA -A TA TA TT TA GTA TA T- TA TA TA GT-
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA
*
436969 TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
437011 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 T
437038 TAATGAGATT
Statistics
Matches: 99, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
1 3 0.03
2 91 0.92
3 5 0.05
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Done.