Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 32
Found at i:422254 original size:11 final size:11
Alignment explanation
Indices: 422192--422261 Score: 58
Period size: 10 Copynumber: 6.5 Consensus size: 11
422182 CAATCATAAC
422192 AAAAAGAAA-A
1 AAAAAGAAAGA
* *
422202 AAAAACAAAAA
1 AAAAAGAAAGA
422213 AGAAAAG-AAGCA
1 A-AAAAGAAAG-A
422225 AAAAAG-AAGA
1 AAAAAGAAAGA
*
422235 AAACA-AAAGA
1 AAAAAGAAAGA
422245 AAAAAGAAAGA
1 AAAAAGAAAGA
422256 ACAAAA
1 A-AAAA
422262 ATCAAAAAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
10 21 0.43
11 18 0.37
12 10 0.20
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:422254 original size:24 final size:22
Alignment explanation
Indices: 422193--422261 Score: 75
Period size: 24 Copynumber: 3.0 Consensus size: 22
422183 AATCATAACA
* *
422193 AAAAGAAAAAAAAACAAAAAAG
1 AAAAGAAAAAAAAAGAAAAAAC
*
422215 AAAAGAAGCAAAAAAGAAGAAAAC
1 AAAAGAA-AAAAAAAGAA-AAAAC
422239 AAAAGAAAAAAGAAAGAACAAAA
1 AAAAGAAAAAA-AAAGAA-AAAA
422262 ATCAAAAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
22 7 0.18
23 11 0.28
24 21 0.54
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (22 bp):
AAAAGAAAAAAAAAGAAAAAAC
Found at i:422255 original size:21 final size:20
Alignment explanation
Indices: 422194--422273 Score: 62
Period size: 20 Copynumber: 4.2 Consensus size: 20
422184 ATCATAACAA
*
422194 AAAG-AAAAAAA-AACAAA-
1 AAAGAAAAAAAAGAAAAAAG
*
422211 AAAG-AAAAGAAGCAAAAAAG
1 AAAGAAAAAAAAG-AAAAAAG
422231 -AAGAAAACAAAAGAAAAAAG
1 AAAGAAAA-AAAAGAAAAAAG
* **
422251 AAAGAACAAAAATCAAAAAG
1 AAAGAAAAAAAAGAAAAAAG
422271 AAA
1 AAA
422274 AGGGACAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
17 10 0.20
19 8 0.16
20 23 0.45
21 10 0.20
ACGTcount: A:0.80, C:0.06, G:0.12, T:0.01
Consensus pattern (20 bp):
AAAGAAAAAAAAGAAAAAAG
Found at i:422274 original size:13 final size:13
Alignment explanation
Indices: 422201--422274 Score: 60
Period size: 13 Copynumber: 5.3 Consensus size: 13
422191 CAAAAAGAAA
422201 AAAAAACAAAAAAG
1 AAAAAAC-AAAAAG
422215 AAAAGAAGCAAAAAAG
1 AAAA-AA-C-AAAAAG
422231 AAGAAAAC-AAAAG
1 AA-AAAACAAAAAG
* *
422244 AAAAAAGAAAGAAC
1 AAAAAACAAA-AAG
*
422258 AAAAATCAAAAAG
1 AAAAAACAAAAAG
422271 AAAA
1 AAAA
422275 GGGACAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
12 4 0.08
13 15 0.30
14 14 0.28
15 3 0.06
16 12 0.24
17 2 0.04
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.01
Consensus pattern (13 bp):
AAAAAACAAAAAG
Found at i:422275 original size:21 final size:19
Alignment explanation
Indices: 422192--422285 Score: 67
Period size: 17 Copynumber: 5.1 Consensus size: 19
422182 CAATCATAAC
*
422192 AAAAAGAAAA-AA-AAACA
1 AAAAAGAAAAGAACAAAAA
422209 AAAAAGAAAAGAAGC-AAAA
1 AAAAAGAAAAGAA-CAAAAA
*
422228 AAGAAG--AA-AACAAAAGA
1 AAAAAGAAAAGAACAAAA-A
422245 AAAAAG-AAAGAACAAAAA
1 AAAAAGAAAAGAACAAAAA
*
422263 TCAAAAAGAAAAGGGACAAAAA
1 --AAAAAGAAAA-GAACAAAAA
422285 A
1 A
422286 GCACATGCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
15 1 0.02
16 5 0.08
17 18 0.29
18 5 0.08
19 15 0.24
20 7 0.11
21 3 0.05
22 8 0.13
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (19 bp):
AAAAAGAAAAGAACAAAAA
Found at i:423727 original size:21 final size:21
Alignment explanation
Indices: 423698--423750 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
423688 CCTTGAGACA
*
423698 GTCTTCCTTGAAACAAATTTT
1 GTCTCCCTTGAAACAAATTTT
423719 GTCTCCCTTGAAACAAATTTT
1 GTCTCCCTTGAAACAAATTTT
423740 GTCTCCCTTGA
1 GTCTCCCTTGA
423751 GACAGTTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.40
Consensus pattern (21 bp):
GTCTCCCTTGAAACAAATTTT
Found at i:425139 original size:106 final size:106
Alignment explanation
Indices: 423761--425138 Score: 2165
Period size: 106 Copynumber: 13.0 Consensus size: 106
423751 GACAGTTTCT
* *
423761 CTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
423826 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * * * * ** * *
423867 CTCAAGACAGCACAAGCTCAACTTCAC-AGCGAAGGGGCGGCTGACTGTCAACAAAC-ATCTTCT
1 CTCCAGACAACGCAAGTTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAATAAACAAT-TTCC
423930 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
64 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * *
423973 ATCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAACTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
*
424038 ATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
424079 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG-CAA-AAACAATTTCCTA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
* *
424142 ATTTCGGAGCTAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * **
424183 CTCCAGACAACGCAATTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTATCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
* *
424248 ATTTCAGAGCCAATTTCAAATTCACAACGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * * * *
424289 CTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA-CAATAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
**
424353 ATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * *
424394 CTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCTCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
424459 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
424500 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
*
424565 ATTTCAGAGCCAATTTCAACTTCAGAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
424606 CTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
424671 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* *
424712 CTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
424777 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * *
424818 CTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGGCTGCTGGTTGTCAATAAACAACTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
*
424883 ATTTCAGAGCTAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * *
424924 CTCTAGACAACGCAAGTTCAACTTCACGTCGAAGGGACCGATGGTTGTCAATAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
424989 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * * * *
425030 CTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCG
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
* * *
425095 GTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGGA
425136 CTC
1 CTC
425139 GGAACAATGC
Statistics
Matches: 1172, Mismatches: 92, Indels: 16
0.92 0.07 0.01
Matches are distributed among these distances:
104 95 0.08
105 105 0.09
106 970 0.83
107 2 0.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (106 bp):
CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
Found at i:425890 original size:37 final size:37
Alignment explanation
Indices: 425837--425941 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
425827 GCTTTTCGTC
425837 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * * *
425874 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * *
425911 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
425942 CCACAAGCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:426782 original size:2 final size:2
Alignment explanation
Indices: 426775--426806 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
426765 TTTACTCATT
426775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
426807 TTCATTTATT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:426836 original size:16 final size:16
Alignment explanation
Indices: 426815--426855 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
426805 ATTTCATTTA
*
426815 TTTATTTATTTTTCCT
1 TTTATTTATTTTTACT
426831 TTTATTT-TTTTTACT
1 TTTATTTATTTTTACT
426846 TATT-TTTATT
1 T-TTATTTATT
426856 CTTCATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTATTTTTACT
Found at i:430054 original size:20 final size:21
Alignment explanation
Indices: 430017--430057 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
430007 TGCAGAGATT
430017 TCATCCCCAAACGGCTAGAAA
1 TCATCCCCAAACGGCTAGAAA
*
430038 TCATTCCCAAA-GGCTAGAAA
1 TCATCCCCAAACGGCTAGAAA
430058 CGGACACAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.39, C:0.29, G:0.15, T:0.17
Consensus pattern (21 bp):
TCATCCCCAAACGGCTAGAAA
Found at i:431312 original size:12 final size:12
Alignment explanation
Indices: 431276--431313 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
431266 GGAAGATGAA
431276 GAAGAAAAGAAG
1 GAAGAAAAGAAG
431288 GAA-AAGAAGAAG
1 GAAGAA-AAGAAG
*
431300 GAAGAAAAAAAG
1 GAAGAAAAGAAG
431312 GA
1 GA
431314 GGTAAGCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
GAAGAAAAGAAG
Found at i:431312 original size:24 final size:23
Alignment explanation
Indices: 431268--431313 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
431258 AAGGAAGAGG
* *
431268 AAGATGAAGAAGAAAAGAAGGAA
1 AAGAAGAAGAAGAAAAAAAGGAA
431291 AAGAAGAAGGAAGAAAAAAAGGA
1 AAGAAGAA-GAAGAAAAAAAGGA
431314 GGTAAGCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (23 bp):
AAGAAGAAGAAGAAAAAAAGGAA
Found at i:434975 original size:24 final size:22
Alignment explanation
Indices: 434924--434977 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
434914 ATTTTACTAC
434924 TAAAAT-TTAAATTTATTCAAT
1 TAAAATATTAAATTTATTCAAT
**
434945 TTTAATATTAAATTTAAATTCAAT
1 TAAAATATTAAATTT--ATTCAAT
434969 TAAAATATT
1 TAAAATATT
434978 GAACCTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 4 0.15
22 8 0.31
24 14 0.54
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAAATATTAAATTTATTCAAT
Found at i:439213 original size:21 final size:21
Alignment explanation
Indices: 439184--439223 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
439174 TTTTTATTAT
* *
439184 TTTATTAAAAGAATTGGTATG
1 TTTAGTAAAACAATTGGTATG
*
439205 TTTAGTAAAACACTTGGTA
1 TTTAGTAAAACAATTGGTA
439224 CATTTAGACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (21 bp):
TTTAGTAAAACAATTGGTATG
Found at i:441366 original size:30 final size:30
Alignment explanation
Indices: 441303--441528 Score: 298
Period size: 30 Copynumber: 7.6 Consensus size: 30
441293 ACCCGATACA
*
441303 GTGACATTCTGAGAATTATTTTG-AAAAAG
1 GTGACATTCTGAGAATTATTTTGAAAAAAT
* *
441332 GTGACATTTTGGGAATTATTTTGAAAAAAT
1 GTGACATTCTGAGAATTATTTTGAAAAAAT
441362 GTGACATTCT-AGGAATTATTTTGAAAAAAT
1 GTGACATTCTGA-GAATTATTTTGAAAAAAT
* *
441392 GTGATATTCTGGGAATTATTTTGAAAAAAT
1 GTGACATTCTGAGAATTATTTTGAAAAAAT
* *
441422 GTGATATTCTGAGAATTATTTTGAAAAAAAG
1 GTGACATTCTGAGAATTATTTTG-AAAAAAT
* * *
441453 GTGAAATTTATG-GAATTATTTTTAAAAAAT
1 GTGACA-TTCTGAGAATTATTTTGAAAAAAT
441483 GTGACATTCTGAGAATTATTTTG-AAAAAT
1 GTGACATTCTGAGAATTATTTTGAAAAAAT
*
441512 GTGACATTTTGAGAATT
1 GTGACATTCTGAGAATT
441529 TTCGAATGTG
Statistics
Matches: 174, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
29 47 0.27
30 102 0.59
31 21 0.12
32 4 0.02
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.38
Consensus pattern (30 bp):
GTGACATTCTGAGAATTATTTTGAAAAAAT
Found at i:441472 original size:61 final size:59
Alignment explanation
Indices: 441303--441528 Score: 305
Period size: 61 Copynumber: 3.8 Consensus size: 59
441293 ACCCGATACA
*
441303 GTGACATTCTGAGAATTATTTTG-AAAAAGGTGACATTTTGGGAATTATTTTGAAAAAAT
1 GTGACATTCTGAGAATTATTTTGAAAAAAGGTGAAATTTT-GGAATTATTTTGAAAAAAT
* * *
441362 GTGACATTCT-AGGAATTATTTTGAAAAAATGTGATATTCTGGGAATTATTTTGAAAAAAT
1 GTGACATTCTGA-GAATTATTTTGAAAAAAGGTGAAATT-TTGGAATTATTTTGAAAAAAT
* *
441422 GTGATATTCTGAGAATTATTTTGAAAAAAAGGTGAAATTTATGGAATTATTTTTAAAAAAT
1 GTGACATTCTGAGAATTATTTTG-AAAAAAGGTGAAATTT-TGGAATTATTTTGAAAAAAT
* *
441483 GTGACATTCTGAGAATTATTTTG-AAAAATGTGACATTTTGAGAATT
1 GTGACATTCTGAGAATTATTTTGAAAAAAGGTGAAATTTTG-GAATT
441529 TTCGAATGTG
Statistics
Matches: 149, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
58 3 0.02
59 39 0.26
60 52 0.35
61 55 0.37
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.38
Consensus pattern (59 bp):
GTGACATTCTGAGAATTATTTTGAAAAAAGGTGAAATTTTGGAATTATTTTGAAAAAAT
Found at i:448835 original size:17 final size:17
Alignment explanation
Indices: 448798--448839 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
448788 GACCGGTCTA
*
448798 ACCCGACCCGTTTACCCG
1 ACCCGA-CCGTTGACCCG
*
448816 ACCCGACCGTTGACCTG
1 ACCCGACCGTTGACCCG
448833 ACCCGAC
1 ACCCGAC
448840 TCAGTGACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.19, C:0.48, G:0.19, T:0.14
Consensus pattern (17 bp):
ACCCGACCGTTGACCCG
Found at i:448887 original size:29 final size:29
Alignment explanation
Indices: 448843--448975 Score: 194
Period size: 29 Copynumber: 4.6 Consensus size: 29
448833 ACCCGACTCA
*
448843 GTGACATTCTGAGAATTATTTTGAAAAAG
1 GTGACATTCTGGGAATTATTTTGAAAAAG
448872 GTGACATTCTGGGAATTATTTTGAAAAAG
1 GTGACATTCTGGGAATTATTTTGAAAAAG
* * *
448901 GTGACATTTTGGAAATTATTTTGAAAAAT
1 GTGACATTCTGGGAATTATTTTGAAAAAG
***
448930 GTGACATTCAAAGAATTATTTTGAAAAAG
1 GTGACATTCTGGGAATTATTTTGAAAAAG
*
448959 GTGACATTTTGGGAATT
1 GTGACATTCTGGGAATT
448976 TTCGAATGTG
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.36
Consensus pattern (29 bp):
GTGACATTCTGGGAATTATTTTGAAAAAG
Found at i:452892 original size:21 final size:22
Alignment explanation
Indices: 452845--452890 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
452835 TTTATATGAA
452845 ATAATTTATAAAAAATATATTT
1 ATAATTTATAAAAAATATATTT
* *
452867 ATAATATTATAAAATATTTATTT
1 ATAAT-TTATAAAAAATATATTT
452890 A
1 A
452891 ATTTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAATTTATAAAAAATATATTT
Found at i:453031 original size:23 final size:23
Alignment explanation
Indices: 452999--453076 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 23
452989 AATATAACAA
*
452999 TATTTAAAATAAATAATTAATAT
1 TATTTAAAATAAATAAATAATAT
*
453022 TATTTCAAATAAATAAATAATAT
1 TATTTAAAATAAATAAATAATAT
* * * *
453045 GATTTTAAA-AATTAAATAAAAT
1 TATTTAAAATAAATAAATAATAT
453067 T-TTTAAAATA
1 TATTTAAAATA
453077 GTTTCATAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
21 6 0.13
22 12 0.26
23 28 0.61
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (23 bp):
TATTTAAAATAAATAAATAATAT
Found at i:453118 original size:22 final size:23
Alignment explanation
Indices: 453084--453150 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
453074 ATAGTTTCAT
453084 AATAT-TATAAATATAATTTTTAG
1 AATATATAT-AATATAATTTTTAG
* * *
453107 AATA-ATTTAATATAAATTTTAT
1 AATATATATAATATAATTTTTAG
453129 AATATATATAA-ATAATTATTTA
1 AATATATATAATATAATT-TTTA
453151 ATTGTTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
22 21 0.58
23 15 0.42
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (23 bp):
AATATATATAATATAATTTTTAG
Found at i:454062 original size:31 final size:34
Alignment explanation
Indices: 454010--454083 Score: 91
Period size: 32 Copynumber: 2.2 Consensus size: 34
454000 ATTTTTATTA
454010 AAAATAATAATAATTACATTATTATT-ATATTTTG
1 AAAATAATAATAATTA-ATTATTATTAATATTTTG
* *
454044 AAAATAATAAT-ATT-ATTATTTTTAATATTTTT
1 AAAATAATAATAATTAATTATTATTAATATTTTG
*
454076 AATATAAT
1 AAAATAAT
454084 CACATAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 8 0.22
32 14 0.39
33 3 0.08
34 11 0.31
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (34 bp):
AAAATAATAATAATTAATTATTATTAATATTTTG
Found at i:457121 original size:24 final size:20
Alignment explanation
Indices: 457074--457134 Score: 122
Period size: 20 Copynumber: 3.0 Consensus size: 20
457064 AATATCACAG
457074 TAAATAAATATACTTACAAC
1 TAAATAAATATACTTACAAC
457094 TAAATAAATATACTTACAAC
1 TAAATAAATATACTTACAAC
457114 TAAATAAATATACTTACAAC
1 TAAATAAATATACTTACAAC
457134 T
1 T
457135 GAGTTCAAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAATAAATATACTTACAAC
Found at i:459864 original size:30 final size:30
Alignment explanation
Indices: 459830--459893 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
459820 TATAGTATTG
*
459830 GTCACTGAACGATTATCATCTTTCTATTTA
1 GTCACTAAACGATTATCATCTTTCTATTTA
*
459860 GTCACTAAACGATTATCATCTTTCTATTTG
1 GTCACTAAACGATTATCATCTTTCTATTTA
459890 GTCA
1 GTCA
459894 TCAAACTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (30 bp):
GTCACTAAACGATTATCATCTTTCTATTTA
Found at i:459914 original size:30 final size:31
Alignment explanation
Indices: 459827--459925 Score: 109
Period size: 30 Copynumber: 3.3 Consensus size: 31
459817 CATTATAGTA
*
459827 TTGGTCA-CTGAACGATTATCATCTTTCTAT
1 TTGGTCATCTAAACGATTATCATCTTTCTAT
*
459857 TTAGTCA-CTAAACGATTATCATCTTTCTAT
1 TTGGTCATCTAAACGATTATCATCTTTCTAT
* *
459887 TTGGTCATC-AAACTATTA-CGATTTTTCTACT
1 TTGGTCATCTAAACGATTATC-ATCTTTCTA-T
459918 TTGG-CATC
1 TTGGTCATC
459926 CATTTTTCGG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
29 1 0.02
30 54 0.89
31 6 0.10
ACGTcount: A:0.25, C:0.20, G:0.11, T:0.43
Consensus pattern (31 bp):
TTGGTCATCTAAACGATTATCATCTTTCTAT
Found at i:460269 original size:12 final size:13
Alignment explanation
Indices: 460252--460280 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
460242 TAATTGCGAA
460252 AAAATTAAAA-TT
1 AAAATTAAAATTT
460264 AAAATTAAAATTT
1 AAAATTAAAATTT
460277 AAAA
1 AAAA
460281 ACTCGATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:460389 original size:15 final size:15
Alignment explanation
Indices: 460368--460402 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
460358 AAAGAAAATG
460368 AAATAAAATAAATAA
1 AAATAAAATAAATAA
*
460383 TAATAAAATAAATAA
1 AAATAAAATAAATAA
460398 AAATA
1 AAATA
460403 TACAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAAATAAATAA
Found at i:462507 original size:106 final size:105
Alignment explanation
Indices: 462322--463934 Score: 2277
Period size: 106 Copynumber: 16.0 Consensus size: 105
462312 TATTGTTCCA
* *** * * * *
462322 AGTCCAATATCCTCCACCGTGAAGTTGAAATTGGCTCTGGAACTGGAAAATTATTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAAATTGAGAATTGTTTATTGACAAC
* *
462387 CAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG-CATGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGG
462428 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTGTTTATTGACAAC
*
462493 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
462534 AGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTATTGACAACC
*
462599 AGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
462639 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTATTGACAACC
462704 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
462744 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGTTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTGTTTATTGACAAC
462809 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
462850 AGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCCGAAATTGAGAAGTTGGTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTGTTTATTGACAAC
462915 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
462956 AGTCCAATATCCTTCGTTGTGAAGTTGAAATT-G----G-----GA-AATTG-TTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTATTGACAACC
463009 AGCGGT-CCTTCGTCGTGAAGTTGAA-TTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
463047 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTGTTTATTGACAAC
*
463112 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
463153 AG-----TATCCTTCGTTGTGAAGTTGAAATT-G----G-----GA-AATTGTTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTATTGACAACC
463202 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
463242 AATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTGTTTATTGACAAC
*
463307 CAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
463348 AGTCC-A-AT-CTTCGTTGTGAAGTTGAAATTGG----GAAATT----A---TTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTATTGACAACC
463399 AGCGGTCCCTTCGTCGTGAAGTTGAA-TTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
463438 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTGTTTATTGACAAC
463503 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
463544 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATT----A---TTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTATTGACAACC
*
463598 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
463638 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-TTGTTTATTGACAAC
463703 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
463744 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG----GAAATT----A---TTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTATTGACAACC
463798 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
463838 AGTCCAATATCCTTCGTTGTGAAGTTGAAATT-G----G-----GA-AATTGTTTATTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTATTGACAACC
* *
463892 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTTG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
463932 AGT
1 AGT
463935 GGCACGATAT
Statistics
Matches: 1393, Mismatches: 45, Indels: 150
0.88 0.03 0.09
Matches are distributed among these distances:
89 55 0.04
90 20 0.01
91 87 0.06
92 22 0.02
93 43 0.03
94 252 0.18
95 4 0.00
96 4 0.00
97 6 0.00
98 8 0.01
99 7 0.01
100 1 0.00
101 29 0.02
102 15 0.01
103 26 0.02
104 22 0.02
105 268 0.19
106 523 0.38
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTGTTTATTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:462984 original size:43 final size:42
Alignment explanation
Indices: 462923--463075 Score: 144
Period size: 43 Copynumber: 3.5 Consensus size: 42
462913 ACCAGCGGTC
462923 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAA-TTGCGTTGTCTGGAGTCCAATAT
* * * * ** ***
462966 CCTTCGTTGTGAAGTTGAAATTGGGAAATTGTTATTGACAACCAGCGGT
1 CCTTCGTCGTGAAGTTG-AATTGCG---TTG-TCTGGA-GTCCA-ATAT
463015 CCTTCGTCGTGAAGTTGAATTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAATTGCGTTGTCTGGAGTCCAATAT
*
463057 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
463076 ATTGGCTCTG
Statistics
Matches: 84, Mismatches: 19, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
42 19 0.23
43 23 0.27
44 6 0.07
45 3 0.04
46 3 0.04
47 4 0.05
48 9 0.11
49 17 0.20
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (42 bp):
CCTTCGTCGTGAAGTTGAATTGCGTTGTCTGGAGTCCAATAT
Found at i:463572 original size:43 final size:43
Alignment explanation
Indices: 463511--463666 Score: 132
Period size: 43 Copynumber: 3.4 Consensus size: 43
463501 ACCAGCGGTC
*
463511 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGTCCAATAT
* * * * * ** ***
463554 CCTTCGTTGTGAAGTTGAAATTGGGAAATTATTTATTGACAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTTGCG---TTA--TCTGGA-GTCCA-ATAT
463604 CCCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGTCCAATAT
*
463648 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
463667 ATTGGCTCTG
Statistics
Matches: 83, Mismatches: 22, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
43 40 0.48
44 1 0.01
45 3 0.04
46 6 0.07
48 7 0.08
49 3 0.04
50 1 0.01
51 22 0.27
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGTCCAATAT
Found at i:463637 original size:94 final size:94
Alignment explanation
Indices: 462904--463934 Score: 1465
Period size: 94 Copynumber: 10.6 Consensus size: 94
462894 GAGAAGTTGG
462904 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
1 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
*
462969 TCGTTGTGAAGTTGAAATTGGGAAATT-G
66 TCGTTGTGAAGTTGAAATTGGGAAATTAT
462997 TTATTGACAACCAGCGGT-CCTTCGTCGTGAAGTTGAA-TTGCGTTGTCTGGAGTCCAATATCCT
1 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
463060 TCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
66 TCGTTGTGAAGTTGAAATTGG----GAAATT----A--T
*
463099 GGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAG-----TATC
1 --TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
*
463159 CTTCGTTGTGAAGTTGAAATTGGGAAATTGT
64 CTTCGTTGTGAAGTTGAAATTGGGAAATTAT
*
463190 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCT
1 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
463255 TCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGT
66 TCGTTGTGAAGTTGAAATTGG----GAAATT----A----T
*
463296 TTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC-A-AT-CT
1 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
463358 TCGTTGTGAAGTTGAAATTGGGAAATTAT
66 TCGTTGTGAAGTTGAAATTGGGAAATTAT
463387 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA-TTGCGTTGTCTGGAGTCCAATATCCT
1 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
463451 TCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
66 TCGTTGTGAAGTTGAAATTGG----GAAATT----A--T
463490 GGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
1 --TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATC
463555 CTTCGTTGTGAAGTTGAAATTGGGAAATTAT
64 CTTCGTTGTGAAGTTGAAATTGGGAAATTAT
*
463586 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGTCCAATATCCT
1 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
463651 TCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGT
66 TCGTTGTGAAGTTGAAATTGG----GAAATT----A----T
463692 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
1 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
463757 TCGTTGTGAAGTTGAAATTGGGAAATTAT
66 TCGTTGTGAAGTTGAAATTGGGAAATTAT
463786 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
1 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
*
463851 TCGTTGTGAAGTTGAAATTGGGAAATTGT
66 TCGTTGTGAAGTTGAAATTGGGAAATTAT
* *
463880 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTTGAGT
1 TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
463935 GGCACGATAT
Statistics
Matches: 864, Mismatches: 14, Indels: 119
0.87 0.01 0.12
Matches are distributed among these distances:
89 52 0.06
90 18 0.02
91 87 0.10
92 21 0.02
93 41 0.05
94 259 0.30
95 7 0.01
96 1 0.00
97 12 0.01
98 14 0.02
99 6 0.01
101 28 0.03
102 13 0.02
103 24 0.03
104 20 0.02
105 58 0.07
106 203 0.23
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (94 bp):
TTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCT
TCGTTGTGAAGTTGAAATTGGGAAATTAT
Found at i:463698 original size:200 final size:200
Alignment explanation
Indices: 462369--463934 Score: 2491
Period size: 200 Copynumber: 7.8 Consensus size: 200
462359 TGGAACTGGA
* *
462369 AAATTATTTATTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG-CATGGAGTCC
1 AAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCC
462433 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCG
65 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCG
* *
462498 GTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGGAGTCCAATATTCTTCGTTGTGAAGTTGAA
130 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
462563 ATTGGCTCTG
195 ATTGG----G
* * *
462573 AATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
1 AAATT-----A--TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
462638 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAA-ATGTTTGTTGACAA
59 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
462702 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAA
124 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
462767 GTTGAAATTGGTTCTG
189 GTTGAAATTGG----G
*
462783 AAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
1 AAATT----A----TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
462848 GGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCCGAAATTGAGAAGTTGGTTATTGACA
58 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACA
462913 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
123 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
462978 AGTTGAAATTGGG
188 AGTTGAAATTGGG
*
462991 AAATT-GTTATTGACAACCAGCGGT-CCTTCGTCGTGAAGTTGAA-TTGCGTTGTCTGGAGTCCA
1 AAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
463053 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGG
*
463118 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGAG-----TATCCTTCGTTGTGAAGTTGAAA
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
463178 TTGGG
196 TTGGG
* *
463183 AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCA
1 AAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
463248 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCAG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGG
463313 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC-A-AT-CTTCGTTGTGAAGTTGAAA
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
463375 TTGGG
196 TTGGG
463380 AAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA-TTGCGTTGTCTGGAGTCCA
1 AAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
463444 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGGTTATTGACAACCAGCGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGG
463509 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
463574 TTGGG
196 TTGGG
*
463579 AAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTATCTGGAGTCCA
1 AAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
463644 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGG
463709 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
463774 TTGGG
196 TTGGG
463779 AAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
463844 ATATCCTTCGTTGTGAAGTTGAAATT-G----G-----GA-AA-TTGTTTATTGACAACCAGCGG
66 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGG
* *
463897 TCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTTGAGT
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
463935 GGCACGATAT
Statistics
Matches: 1293, Mismatches: 47, Indels: 60
0.92 0.03 0.04
Matches are distributed among these distances:
188 57 0.04
189 2 0.00
190 2 0.00
192 33 0.03
193 18 0.01
194 19 0.01
195 118 0.09
196 121 0.09
197 186 0.14
198 23 0.02
199 87 0.07
200 242 0.19
204 4 0.00
208 6 0.00
209 3 0.00
210 93 0.07
211 192 0.15
212 87 0.07
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (200 bp):
AAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
TTGGG
Found at i:463772 original size:43 final size:43
Alignment explanation
Indices: 463711--463866 Score: 132
Period size: 43 Copynumber: 3.4 Consensus size: 43
463701 ACCAGCGGTC
463711 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* * * * * * ** ***
463754 CCTTCGTTGTGAAGTTGAAATTGGGAAATTATTTATTGACAACCAGCGGT
1 CCTTCGTCGTGAAGTTGAACTTGCG----T-TGTCTGGA-GTCCA-ATAT
463804 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 -CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
463848 CCTTCGTTGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
463867 ATTGGGAAAT
Statistics
Matches: 82, Mismatches: 23, Indels: 16
0.68 0.19 0.13
Matches are distributed among these distances:
43 40 0.49
44 1 0.01
45 3 0.04
46 5 0.06
47 2 0.02
48 5 0.06
49 3 0.04
50 1 0.01
51 22 0.27
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (43 bp):
CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
Found at i:468008 original size:12 final size:13
Alignment explanation
Indices: 467991--468019 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
467981 TAATTGCGAA
467991 AAAATTAAAA-TT
1 AAAATTAAAATTT
468003 AAAATTAAAATTT
1 AAAATTAAAATTT
468016 AAAA
1 AAAA
468020 ACTCGATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:468128 original size:15 final size:15
Alignment explanation
Indices: 468107--468141 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
468097 AAAGAAAACG
468107 AAATAAAATAAATAA
1 AAATAAAATAAATAA
*
468122 TAATAAAATAAATAA
1 AAATAAAATAAATAA
468137 AAATA
1 AAATA
468142 TACAAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAAATAAATAA
Found at i:470239 original size:3 final size:3
Alignment explanation
Indices: 470231--470256 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
470221 GAATTATTTG
470231 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
470257 TTATTATTAT
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):
TAA
Found at i:478454 original size:20 final size:19
Alignment explanation
Indices: 478390--478459 Score: 86
Period size: 20 Copynumber: 3.6 Consensus size: 19
478380 AAAATGTTTT
478390 TATGAATAGTACTATATTG
1 TATGAATAGTACTATATTG
* *
478409 TATAAATAGTACCAATATTG
1 TATGAATAGTA-CTATATTG
*
478429 TATGAATAGTATCTATACTG
1 TATGAATAGTA-CTATATTG
*
478449 TGTGAATAGTA
1 TATGAATAGTA
478460 ATGAACAATA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 10 0.23
20 33 0.77
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (19 bp):
TATGAATAGTACTATATTG
Found at i:478527 original size:20 final size:20
Alignment explanation
Indices: 478502--478541 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
478492 TGCAAAATGG
478502 GTATCGATACCT-CTACAGTA
1 GTATCGATA-CTGCTACAGTA
478522 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
478542 AAATCAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (20 bp):
GTATCGATACTGCTACAGTA
Found at i:481886 original size:23 final size:23
Alignment explanation
Indices: 481823--481887 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 23
481813 ATAGATTTGA
* * *
481823 CCCGAAGGACCGCGTATAATTGT
1 CCCGAAGGACCACGTAGAATTAT
* ** *
481846 CTCGAATAACCACATAGAATTAT
1 CCCGAAGGACCACGTAGAATTAT
*
481869 CCCGAAGGACCTCGTAGAA
1 CCCGAAGGACCACGTAGAA
481888 CCCTCGATTT
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (23 bp):
CCCGAAGGACCACGTAGAATTAT
Found at i:482032 original size:15 final size:15
Alignment explanation
Indices: 481989--482058 Score: 86
Period size: 15 Copynumber: 4.7 Consensus size: 15
481979 AATTATCAAT
* *
481989 TATTCATATAGAATA
1 TATTCACATAGAACA
***
482004 TATTCGTGTAGAACA
1 TATTCACATAGAACA
*
482019 TATTCACATTGAACA
1 TATTCACATAGAACA
482034 TATTCACATAGAACA
1 TATTCACATAGAACA
482049 TATTCACATA
1 TATTCACATA
482059 ATAATAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 47 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (15 bp):
TATTCACATAGAACA
Found at i:482556 original size:20 final size:20
Alignment explanation
Indices: 482526--482577 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
482516 TTTTCAATTA
*
482526 CAGTATTGATACCT-TACTAT
1 CAGTATCGATACCTCT-CTAT
**
482546 TGGTATCGATACCTCTCTAT
1 CAGTATCGATACCTCTCTAT
482566 CAGTATCGATAC
1 CAGTATCGATAC
482578 TACTTCATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (20 bp):
CAGTATCGATACCTCTCTAT
Found at i:486388 original size:32 final size:33
Alignment explanation
Indices: 486336--486404 Score: 95
Period size: 32 Copynumber: 2.1 Consensus size: 33
486326 CAGATACTAA
* * * *
486336 CAATGTTTGTATTTATATAATGCACATCAACGT
1 CAATGTTTGCATTCATATAATGCACAACAACAT
486369 CAATG-TTGCATTCATATAATGCACAACAACAT
1 CAATGTTTGCATTCATATAATGCACAACAACAT
486401 CAAT
1 CAAT
486405 ATTATATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 27 0.84
33 5 0.16
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (33 bp):
CAATGTTTGCATTCATATAATGCACAACAACAT
Found at i:486420 original size:32 final size:32
Alignment explanation
Indices: 486345--486421 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
486335 ACAATGTTTG
* * * *
486345 TATTTATATAATGCACATCAACGTCAATGTTG
1 TATTTATATAATGCACAACAACATCAATATTA
* *
486377 CATTCATATAATGCACAACAACATCAATATTA
1 TATTTATATAATGCACAACAACATCAATATTA
*
486409 TATTTAGATAATG
1 TATTTATATAATG
486422 TATCGTAGTA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (32 bp):
TATTTATATAATGCACAACAACATCAATATTA
Found at i:490577 original size:39 final size:41
Alignment explanation
Indices: 490492--490578 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 41
490482 TAAAATCATG
*
490492 TTACCATGATCAAAATAATATAACTAAATAATATCCAATATT
1 TTACCATGATCAAAATAATATAACTAAATAATA-CAAATATT
490534 TTACCATGATCAAAATAATATAACTAAAT-ATA-AAAT-TT
1 TTACCATGATCAAAATAATATAACTAAATAATACAAATATT
490572 CTTACCA
1 -TTACCA
490579 ATATACTTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
38 2 0.05
39 9 0.21
41 3 0.07
42 29 0.67
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.33
Consensus pattern (41 bp):
TTACCATGATCAAAATAATATAACTAAATAATACAAATATT
Found at i:490894 original size:40 final size:40
Alignment explanation
Indices: 490729--490878 Score: 237
Period size: 40 Copynumber: 3.8 Consensus size: 40
490719 GCCGTAGTGC
* * *
490729 TACAAATAAGGTCGTGCGCACCATATACACCGAACTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
490769 TACACATAAGGTCGTGCCAACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
490809 TACACATAAGGTCGTGTCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
490849 TACACATAAGATCGTACCCACCATATACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
490879 TTAGTGTCCT
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:494717 original size:25 final size:26
Alignment explanation
Indices: 494689--494771 Score: 75
Period size: 29 Copynumber: 3.1 Consensus size: 26
494679 TTTCCTATTG
494689 TTTTTCAT-TTCTTTTTCTT-TTTTTC
1 TTTTT-ATCTTCTTTTTCTTCTTTTTC
*
494714 TTTTTTTCTTCTTTTTCTTCTTTTTC
1 TTTTTATCTTCTTTTTCTTCTTTTTC
494740 TTCTAGTTAT-TCTCTTTTT-TTCTTTTTTC
1 TT-T--TTATCT-TCTTTTTCTTC-TTTTTC
494769 TTT
1 TTT
494772 CTTCTTTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
24 1 0.02
25 16 0.33
26 8 0.16
27 1 0.02
28 5 0.10
29 18 0.37
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.78
Consensus pattern (26 bp):
TTTTTATCTTCTTTTTCTTCTTTTTC
Found at i:494718 original size:9 final size:9
Alignment explanation
Indices: 494673--494781 Score: 69
Period size: 9 Copynumber: 11.1 Consensus size: 9
494663 GAATCTCTCA
494673 TCTTTTTTT
1 TCTTTTTTT
*
494682 CCTATTGTTTT
1 TCT-TT-TTTT
494693 TCATTTCTTTT
1 TC-TTT-TTTT
494704 TC-TTTTTT
1 TCTTTTTTT
494712 TC-TTTTTT
1 TCTTTTTTT
*
494720 TCTTCTTTT
1 TCTTTTTTT
*
494729 TCTTCTTTT
1 TCTTTTTTT
*
494738 TCTTCTAGTTAT
1 TCTT-T--TTTT
494750 TCTCTTTTTT
1 TCT-TTTTTT
494760 TCTTTTTTCTT
1 TC-TTTTT-TT
494771 TCTTCTTTTT
1 TCTT-TTTTT
494781 T
1 T
494782 AGCTCTTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
8 14 0.17
9 22 0.27
10 16 0.20
11 21 0.26
12 8 0.10
13 1 0.01
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:497783 original size:40 final size:40
Alignment explanation
Indices: 497540--497769 Score: 388
Period size: 40 Copynumber: 5.8 Consensus size: 40
497530 ACCGTAGTGC
*
497540 TACACATAAGGTCGTGCGCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
497580 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
497620 TACACATAAGGTCGTGTCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
497660 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
497700 TACACATAAGGTCTTGTCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
497740 TACATATAAGATCGTGCCCACCATATACAC
1 TACACATAAGGTCGTGCCCACCATATACAC
497770 TTAGTGTCCT
Statistics
Matches: 177, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:499514 original size:30 final size:29
Alignment explanation
Indices: 499480--499552 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
499470 GACCAATTGT
* *
499480 AACTTTTCAAAATTACCATTTTGGTCCCTA
1 AACTTTTCAAAATTA-CACTTTGGTCACTA
* *
499510 AACTTTTCAAAGTTTATACTTTGGTCACTA
1 AACTTTTCAAA-ATTACACTTTGGTCACTA
*
499540 AACTTTACAAAAT
1 AACTTTTCAAAAT
499553 CTTATAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 1 0.03
30 32 0.89
31 3 0.08
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (29 bp):
AACTTTTCAAAATTACACTTTGGTCACTA
Found at i:499564 original size:31 final size:30
Alignment explanation
Indices: 499499--499569 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
499489 AAATTACCAT
* * * *
499499 TTTGGTCCCTAAACTTTTCAAAGTTTATAC
1 TTTGGTCACTAAACTTTACAAAATTTATAA
499529 TTTGGTCACTAAACTTTACAAAATCTTATAA
1 TTTGGTCACTAAACTTTACAAAAT-TTATAA
499560 TTTGGTCACT
1 TTTGGTCACT
499570 CACTAAATCC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 21 0.58
31 15 0.42
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (30 bp):
TTTGGTCACTAAACTTTACAAAATTTATAA
Found at i:501705 original size:32 final size:32
Alignment explanation
Indices: 501664--501782 Score: 139
Period size: 32 Copynumber: 3.7 Consensus size: 32
501654 ATTGGCAATA
501664 TGTTGCATTTAGATAATGCACAATAGCGTTAG
1 TGTTGCATTTAGATAATGCACAATAGCGTTAG
* * *
501696 TGTTGCATTTAGATAATGCACAGTAGCGTCAA
1 TGTTGCATTTAGATAATGCACAATAGCGTTAG
** * * **
501728 TGTTGCATTTATTTAATGAACAACAATGTTAG
1 TGTTGCATTTAGATAATGCACAATAGCGTTAG
* *
501760 TGTTGCATTCAGACAATGCACAA
1 TGTTGCATTTAGATAATGCACAA
501783 CAATATAAAT
Statistics
Matches: 70, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (32 bp):
TGTTGCATTTAGATAATGCACAATAGCGTTAG
Found at i:501783 original size:32 final size:32
Alignment explanation
Indices: 501663--501808 Score: 121
Period size: 32 Copynumber: 4.6 Consensus size: 32
501653 TATTGGCAAT
* *
501663 ATGTTGCATTTAGATAATGCACAATAGCGTTA
1 ATGTTGCATTTAGATAATGCACAACAACGTTA
* ** * *
501695 GTGTTGCATTTAGATAATGCACAGTAGCGTCA
1 ATGTTGCATTTAGATAATGCACAACAACGTTA
** * *
501727 ATGTTGCATTTATTTAATGAACAACAATGTTA
1 ATGTTGCATTTAGATAATGCACAACAACGTTA
* * * ** *
501759 GTGTTGCATTCAGACAATGCACAACAATATAA
1 ATGTTGCATTTAGATAATGCACAACAACGTTA
* *
501791 ATTTTGCATTCAGATAAT
1 ATGTTGCATTTAGATAAT
501809 TCATAGCAGT
Statistics
Matches: 91, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 91 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (32 bp):
ATGTTGCATTTAGATAATGCACAACAACGTTA
Found at i:506462 original size:12 final size:12
Alignment explanation
Indices: 506445--506470 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
506435 AATATGGAGT
506445 GAGGGGATCTTG
1 GAGGGGATCTTG
506457 GAGGGGATCTTG
1 GAGGGGATCTTG
506469 GA
1 GA
506471 CAAAGATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.08, G:0.50, T:0.23
Consensus pattern (12 bp):
GAGGGGATCTTG
Found at i:509935 original size:18 final size:20
Alignment explanation
Indices: 509914--509951 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
509904 ATTAAATGAT
*
509914 TTTAC-AGATATAAA-ATAA
1 TTTACAAGAAATAAAGATAA
509932 TTTACAAGAAATAAAGATAA
1 TTTACAAGAAATAAAGATAA
509952 ATAATTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (20 bp):
TTTACAAGAAATAAAGATAA
Found at i:515875 original size:18 final size:18
Alignment explanation
Indices: 515852--515895 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
515842 AAGATGGGAG
515852 TTTTAGAAGGGTTTTGGA
1 TTTTAGAAGGGTTTTGGA
515870 TTTTAGAAGGGTTTTGGA
1 TTTTAGAAGGGTTTTGGA
515888 TTTTAGAA
1 TTTTAGAA
515896 CTCTTGGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (18 bp):
TTTTAGAAGGGTTTTGGA
Found at i:522851 original size:17 final size:18
Alignment explanation
Indices: 522829--522870 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
522819 GTATCGATTC
*
522829 TACTCAGG-TGCTATCGA
1 TACTCAGGTTGATATCGA
*
522846 TACTCAAGGTTTATATCGA
1 TACTC-AGGTTGATATCGA
522865 TACTCA
1 TACTCA
522871 AGGGCTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 4 0.19
19 12 0.57
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (18 bp):
TACTCAGGTTGATATCGA
Found at i:523156 original size:24 final size:23
Alignment explanation
Indices: 523109--523170 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
523099 TGTGAGATAA
523109 CATAAGATCTTTATGAGTAAGATTC
1 CATAAGA-C-TTATGAGTAAGATTC
523134 CATAAGACTTATGAGGTAAGATTC
1 CATAAGACTTATGA-GTAAGATTC
* *
523158 TATAAGATTTATG
1 CATAAGACTTATG
523171 CCTTGGTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 6 0.18
24 21 0.62
25 7 0.21
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (23 bp):
CATAAGACTTATGAGTAAGATTC
Found at i:526760 original size:12 final size:12
Alignment explanation
Indices: 526740--526781 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
526730 GGCAGTAAAG
526740 AATAATAATATA
1 AATAATAATATA
*
526752 AATACTAATATA
1 AATAATAATATA
526764 AA-AATACATATA
1 AATAATA-ATATA
526776 AA-AATA
1 AATAATA
526782 GTGGTTCGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 3 0.11
12 24 0.89
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATAATATA
Found at i:528161 original size:21 final size:21
Alignment explanation
Indices: 528137--528189 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
528127 ATTCTGACTA
528137 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * * *
528158 TCGCGTTGCGCTTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
528179 TCGCAATGCGA
1 TCGCATTGCGA
528190 ATACGTAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:528204 original size:20 final size:20
Alignment explanation
Indices: 528179--528292 Score: 147
Period size: 20 Copynumber: 5.7 Consensus size: 20
528169 TTTTCCTAAT
528179 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
528199 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
528220 TCACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
528240 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
**
528260 TTACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
528280 TCGCAATGCGAAT
1 TCGCAATGCGAAT
528293 CTGACTATCG
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
20 62 0.81
21 15 0.19
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:528277 original size:40 final size:40
Alignment explanation
Indices: 528182--528290 Score: 164
Period size: 40 Copynumber: 2.7 Consensus size: 40
528172 TCCTAATTCG
* **
528182 CAATGCGAATACGTAAATCGCAACGCGAATTTGGAAAATCA
1 CAATGCGAATACGTAAATCGCAATGCG-ATTACGAAAATCA
* *
528223 CAATGCGAATACGTAAATCGCAATGCGATTACGTAAATTA
1 CAATGCGAATACGTAAATCGCAATGCGATTACGAAAATCA
528263 CAATGCGAATACGTAAATCGCAATGCGA
1 CAATGCGAATACGTAAATCGCAATGCGA
528291 ATCTGACTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
40 37 0.59
41 26 0.41
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (40 bp):
CAATGCGAATACGTAAATCGCAATGCGATTACGAAAATCA
Found at i:528307 original size:40 final size:39
Alignment explanation
Indices: 528182--528310 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 39
528172 TCCTAATTCG
* **
528182 CAATGCGAATACGTAAATCGCAACGCGAATTTGGAAAATCA
1 CAATGCGAATACGTAAATCGCAATGCGAA-TT-GACTATCA
*
528223 CAATGCGAATACGTAAATCGCAATGCG-ATT-ACGTAAATTA
1 CAATGCGAATACGTAAATCGCAATGCGAATTGAC-T--ATCA
*
528263 CAATGCGAATACGTAAATCGCAATGCGAATCTGACTATCG
1 CAATGCGAATACGTAAATCGCAATGCGAAT-TGACTATCA
528303 CAATGCGA
1 CAATGCGA
528311 TTTACATAGC
Statistics
Matches: 76, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
37 1 0.01
39 2 0.03
40 41 0.54
41 28 0.37
42 2 0.03
43 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (39 bp):
CAATGCGAATACGTAAATCGCAATGCGAATTGACTATCA
Found at i:528513 original size:22 final size:22
Alignment explanation
Indices: 528488--528549 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
528478 GGCGACATCC
528488 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
528510 GTCCCCA----CGACGATAA-CA
1 GTCCCCATCTCCGACGA-AATCA
* *
528528 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
528550 TTCACGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 14 0.44
19 2 0.06
21 2 0.06
22 14 0.44
ACGTcount: A:0.27, C:0.39, G:0.16, T:0.18
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:528925 original size:33 final size:34
Alignment explanation
Indices: 528888--528951 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
528878 GCGATTCTGT
**
528888 CGTTGCGATTTTCA-TTTCGTGTTGCGATTTTTG
1 CGTTGCGATAGTCATTTTCGTGTTGCGATTTTTG
528921 CGTTGCGATAGTCATTTTCGTGTTGCGATTT
1 CGTTGCGATAGTCATTTTCGTGTTGCGATTT
528952 AAAGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 12 0.43
34 16 0.57
ACGTcount: A:0.11, C:0.16, G:0.25, T:0.48
Consensus pattern (34 bp):
CGTTGCGATAGTCATTTTCGTGTTGCGATTTTTG
Found at i:530845 original size:20 final size:20
Alignment explanation
Indices: 530820--530923 Score: 130
Period size: 20 Copynumber: 5.5 Consensus size: 20
530810 ATAATAGTTT
530820 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
530840 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
530860 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
530876 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
530894 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
530914 ACTATCGCAA
1 ACTATCGCAA
530924 CGAAAGAATC
Statistics
Matches: 73, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
14 7 0.10
16 4 0.05
17 4 0.05
18 4 0.05
20 54 0.74
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:530909 original size:54 final size:54
Alignment explanation
Indices: 530823--530961 Score: 208
Period size: 54 Copynumber: 2.6 Consensus size: 54
530813 ATAGTTTACT
* *
530823 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAGA
**
530877 ATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAGA
** *
530931 ATCGCAATGCG-AAATGAAAATCGCATTGCGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGA
530962 TTCTCTCGTT
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 17 0.22
54 61 0.78
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.18
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAGA
Found at i:530995 original size:20 final size:20
Alignment explanation
Indices: 530970--531080 Score: 92
Period size: 20 Copynumber: 5.9 Consensus size: 20
530960 GATTCTCTCG
*
530970 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAATTTCGCA
* *
530990 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAATTTCGCA
**
531010 TTGCGATTTTC-ATTTCGCA
1 TTGCGATAGTCAATTTCGCA
*
531029 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCAATTTCGCA
* *
531043 TTGCGATAGTCATTTTCACA
1 TTGCGATAGTCAATTTCGCA
*
531063 TTGCGATAGTCATTTTCG
1 TTGCGATAGTCAATTTCG
531081 TGTTGTGATT
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
14 7 0.09
16 6 0.08
17 2 0.03
18 3 0.04
19 13 0.18
20 43 0.58
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.41
Consensus pattern (20 bp):
TTGCGATAGTCAATTTCGCA
Found at i:531091 original size:73 final size:73
Alignment explanation
Indices: 530951--531092 Score: 239
Period size: 73 Copynumber: 1.9 Consensus size: 73
530941 GAAATGAAAA
*
530951 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCGTTGCGA
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCACATTGCGATAGTCATTTTCGCGTTGCGA
531016 TTTTCATT
66 TTTTCATT
** * *
531024 TCGCATTGCGATTCTCTCGTTGCGATAGTCATTTTCACATTGCGATAGTCATTTTCGTGTTGTGA
1 TCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCACATTGCGATAGTCATTTTCGCGTTGCGA
531089 TTTT
66 TTTT
531093 AAGTTTCAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 64 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (73 bp):
TCGCATTGCGATTCTCTCGTTGCGATAGTCAAATTCACATTGCGATAGTCATTTTCGCGTTGCGA
TTTTCATT
Found at i:531613 original size:18 final size:19
Alignment explanation
Indices: 531574--531615 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
531564 CTCACCTGTC
531574 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
531595 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
531613 ATC
1 ATC
531616 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:531674 original size:40 final size:41
Alignment explanation
Indices: 531572--531675 Score: 106
Period size: 42 Copynumber: 2.5 Consensus size: 41
531562 GACTCACCTG
* * *
531572 TCATCGTTCAAGAGG-CCTCCCCTATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGTCC-CTCCTACCGTTCAAGAGGCCAC-A
**
531614 TCATCCCTCAAGA-GTCCCCTCCTACCGTTCAAGAGGCCAC-
1 TCATCGTTCAAGAGGT-CCCTCCTACCGTTCAAGAGGCCACA
*
531654 TCATCGTTGAAGAGGTCCCTCC
1 TCATCGTTCAAGAGGTCCCTCC
531676 CAACATTCTA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
40 16 0.31
41 3 0.06
42 30 0.59
43 2 0.04
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.23
Consensus pattern (41 bp):
TCATCGTTCAAGAGGTCCCTCCTACCGTTCAAGAGGCCACA
Found at i:532966 original size:14 final size:14
Alignment explanation
Indices: 532947--532982 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
532937 ATTGTTTAAT
532947 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
532961 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
532975 TGATTTGT
1 TGATTTGT
532983 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:532991 original size:27 final size:28
Alignment explanation
Indices: 532961--533030 Score: 65
Period size: 31 Copynumber: 2.5 Consensus size: 28
532951 TTGTAAAAGA
532961 TGATTTGTAAATGTTG-ATTTGTTTAAT
1 TGATTTGTAAATGTTGTATTTGTTTAAT
* * *
532988 TGATGTGTACATAATATTGTGTTTGTTTAAT
1 TGATTTGT--A-AATGTTGTATTTGTTTAAT
533019 TGA-TTG-AAATGT
1 TGATTTGTAAATGT
533031 ATAGTTGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
26 4 0.12
27 8 0.24
29 1 0.03
30 8 0.24
31 13 0.38
ACGTcount: A:0.27, C:0.01, G:0.20, T:0.51
Consensus pattern (28 bp):
TGATTTGTAAATGTTGTATTTGTTTAAT
Found at i:533177 original size:20 final size:20
Alignment explanation
Indices: 533152--533244 Score: 136
Period size: 20 Copynumber: 4.7 Consensus size: 20
533142 GCGATTCTCT
533152 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* *
533172 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTTCG
533192 CGTTGCGATAGTCA-TTTC-
1 CGTTGCGATAGTCATTTTCG
*
533210 CGTATGCGATAGTCATATTCG
1 CGT-TGCGATAGTCATTTTCG
533231 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
533245 AATGAATGTC
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
18 3 0.05
19 14 0.21
20 46 0.70
21 3 0.05
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:533233 original size:39 final size:40
Alignment explanation
Indices: 533152--533244 Score: 147
Period size: 39 Copynumber: 2.4 Consensus size: 40
533142 GCGATTCTCT
533152 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCAATTCCG
533192 CGTTGCGATAGTCA-TTTC-CGTATGCGATAGTCATATT-CG
1 CGTTGCGATAGTCATTTTCGCGT-TGCGATAGTCA-ATTCCG
533231 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
533245 AATGAATGTC
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
38 3 0.06
39 31 0.61
40 17 0.33
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (40 bp):
CGTTGCGATAGTCATTTTCGCGTTGCGATAGTCAATTCCG
Found at i:535597 original size:24 final size:24
Alignment explanation
Indices: 535546--535597 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
535536 ATCTGAGTAT
** *
535546 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
535570 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
535594 TGAC
1 TGAC
535598 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:536458 original size:20 final size:20
Alignment explanation
Indices: 536435--536551 Score: 98
Period size: 20 Copynumber: 5.8 Consensus size: 20
536425 TTGCGATAGT
* *
536435 CAGAATCTCGTTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
536455 CAGATTCGCATTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
536475 C-GTAACCGCATTGCGATTTA
1 CAG-AATCGCATTGCGATTTA
*
536495 C-GTAATCGCATTGCGATTTTC
1 CAG-AATCGCATTGCGA-TTTA
*
536516 CA-AATTCGCGTTGCGATTTA
1 CAGAA-TCGCATTGCGATTTA
*
536536 C-GTATTCGCATTGCGA
1 CAG-AATCGCATTGCGA
536552 ATTAGGAAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
19 1 0.01
20 64 0.80
21 15 0.19
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (20 bp):
CAGAATCGCATTGCGATTTA
Found at i:536539 original size:41 final size:40
Alignment explanation
Indices: 536443--536551 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
536433 GTCAGAATCT
**
536443 CGTTGCGATTTACAG-ATTCGCATTGCGATTTACGTAACCG
1 CGTTGCGATTTAC-GTATTCGCATTGCGATTTACCAAACCG
* * * *
536483 CATTGCGATTTACGTAATCGCATTGCGATTTTCCAAATTCG
1 CGTTGCGATTTACGTATTCGCATTGCGATTTACCAAA-CCG
536524 CGTTGCGATTTACGTATTCGCATTGCGA
1 CGTTGCGATTTACGTATTCGCATTGCGA
536552 ATTAGGAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
39 1 0.02
40 30 0.51
41 28 0.47
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (40 bp):
CGTTGCGATTTACGTATTCGCATTGCGATTTACCAAACCG
Found at i:536573 original size:21 final size:21
Alignment explanation
Indices: 536549--536588 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
536539 ATTCGCATTG
536549 CGAATTAGGAAAATCGCAACA
1 CGAATTAGGAAAATCGCAACA
*
536570 CGAATTTGGAAAATCGCAA
1 CGAATTAGGAAAATCGCAA
536589 TGCGATAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (21 bp):
CGAATTAGGAAAATCGCAACA
Found at i:537307 original size:21 final size:21
Alignment explanation
Indices: 537281--537321 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
537271 GTAAAAAAAT
537281 TATTTAAAATATTATTATTTA
1 TATTTAAAATATTATTATTTA
537302 TATTTAAAATATTATTATTT
1 TATTTAAAATATTATTATTT
537322 TTTAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTAAAATATTATTATTTA
Found at i:538302 original size:15 final size:15
Alignment explanation
Indices: 538282--538328 Score: 85
Period size: 15 Copynumber: 3.1 Consensus size: 15
538272 GAAATTTCTA
538282 ATGAAAATGTGAATG
1 ATGAAAATGTGAATG
538297 ATGAAAATGTGAATG
1 ATGAAAATGTGAATG
*
538312 ATGAAAATTTGAATG
1 ATGAAAATGTGAATG
538327 AT
1 AT
538329 AATAATTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (15 bp):
ATGAAAATGTGAATG
Found at i:540295 original size:24 final size:23
Alignment explanation
Indices: 540169--540309 Score: 90
Period size: 23 Copynumber: 6.0 Consensus size: 23
540159 GTCAAAATTG
*
540169 CCACATAGAATTG-CACCGAAGTA
1 CCACATAGAATTGTC-CCGAAGGA
* * *
540192 CCGCACAGAATATG-CACTGAAGTGA
1 CCACATAGAAT-TGTC-CCGAAG-GA
* *
540217 -CACGTAGAAATGTCCCGAAGGA
1 CCACATAGAATTGTCCCGAAGGA
* *
540239 CCACATAGAAATGTCCCGAAAGAA
1 CCACATAGAATTGTCCCG-AAGGA
*** *
540263 CCGTGTAGAATTTGTCCTGAAGGA
1 CCACATAGAA-TTGTCCCGAAGGA
*
540287 CCACATAGAATTGTCCCAAAGGA
1 CCACATAGAATTGTCCCGAAGGA
540310 AAGCGTAGAA
Statistics
Matches: 90, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
22 2 0.02
23 43 0.48
24 38 0.42
25 7 0.08
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (23 bp):
CCACATAGAATTGTCCCGAAGGA
Found at i:544047 original size:19 final size:19
Alignment explanation
Indices: 544023--544060 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
544013 CTTAGTTGCG
* *
544023 AAAAATTGAAATTTAAATT
1 AAAAATTAAAAATTAAATT
544042 AAAAATTAAAAATTAAATT
1 AAAAATTAAAAATTAAATT
544061 CAAATTACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAAATTAAAAATTAAATT
Found at i:546241 original size:24 final size:24
Alignment explanation
Indices: 546211--546266 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
546201 ATCGGCCTAC
* *
546211 AAATAATTGTAATATATAAATTAAT
1 AAATAATAGTAATA-ATAAATAAAT
546236 -AATAATAGTAATAATAAATAAAT
1 AAATAATAGTAATAATAAATAAAT
546259 AAATAATA
1 AAATAATA
546267 AATGTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATAATAGTAATAATAAATAAAT
Found at i:546263 original size:15 final size:14
Alignment explanation
Indices: 546220--546269 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
546210 CAAATAATTG
*
546220 TAATATATAAATTAA
1 TAATAAATAAA-TAA
*
546235 TAAT-AAT-AGTAA
1 TAATAAATAAATAA
546247 TAATAAATAAATAAA
1 TAATAAATAAAT-AA
546262 TAATAAAT
1 TAATAAAT
546270 GTTTTAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 7 0.24
13 4 0.14
14 4 0.14
15 14 0.48
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
TAATAAATAAATAA
Found at i:546361 original size:2 final size:2
Alignment explanation
Indices: 546356--546391 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
546346 TTTTAAAAAC
*
546356 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
546392 AAATAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:550217 original size:61 final size:62
Alignment explanation
Indices: 550133--550281 Score: 164
Period size: 61 Copynumber: 2.5 Consensus size: 62
550123 GGAATGTGCA
* * * * * *
550133 AAAATTTTGTGGACCAATTTAGAATGAAGATAAT-ATAGTTTGGGGATAAAATT-GAA-TTTT
1 AAAAGTTTGAGGACTAATTTAGAATG-AGATAATCATAGTTTAGGGATAAAATTAAAACATTT
550193 CAAAAGTTTGAGGACTAATTTAGAAT--GATAATCATAGTTTAGGGATAAAATTAAAACATTT
1 -AAAAGTTTGAGGACTAATTTAGAATGAGATAATCATAGTTTAGGGATAAAATTAAAACATTT
* * *
550254 AAAAGTTTAAGGATTAATTTAAAATGAG
1 AAAAGTTTGAGGACTAATTTAGAATGAG
550282 GGTCATACTT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
58 6 0.08
59 18 0.24
60 24 0.32
61 25 0.34
62 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.34
Consensus pattern (62 bp):
AAAAGTTTGAGGACTAATTTAGAATGAGATAATCATAGTTTAGGGATAAAATTAAAACATTT
Found at i:550238 original size:59 final size:59
Alignment explanation
Indices: 550133--550280 Score: 156
Period size: 60 Copynumber: 2.5 Consensus size: 59
550123 GGAATGTGCA
* * * * * *
550133 AAAATTTTGTGGACCAATTTAGAATGAAGATAATATAGTTTGGGGATAAAATT-GAA-TTTT
1 AAAAGTTTGAGGACTAATTTAGAAT---GATAATATAGTTTAGGGATAAAATTAAAACATTT
550193 CAAAAGTTTGAGGACTAATTTAGAATGATAATCATAGTTTAGGGATAAAATTAAAACATTT
1 -AAAAGTTTGAGGACTAATTTAGAATGATAAT-ATAGTTTAGGGATAAAATTAAAACATTT
* * *
550254 AAAAGTTTAAGGATTAATTTAAAATGA
1 AAAAGTTTGAGGACTAATTTAGAATGA
550281 GGGTCATACT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
58 6 0.08
59 18 0.24
60 26 0.35
61 25 0.33
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.34
Consensus pattern (59 bp):
AAAAGTTTGAGGACTAATTTAGAATGATAATATAGTTTAGGGATAAAATTAAAACATTT
Found at i:551080 original size:42 final size:42
Alignment explanation
Indices: 551034--551116 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
551024 ATTGCCCGAA
* ** *
551034 ATACAAATTCAACCCAAAAGGATTCGTTTGTAATTTTCCAAC
1 ATACAAATCCAACCCAAAAGGATTCCATTGTAATTTCCCAAC
551076 ATACAAATCCAACCCAAAAGGATTCCATTGTAATTTCCCAA
1 ATACAAATCCAACCCAAAAGGATTCCATTGTAATTTCCCAA
551117 ATAATAAGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.40, C:0.24, G:0.08, T:0.28
Consensus pattern (42 bp):
ATACAAATCCAACCCAAAAGGATTCCATTGTAATTTCCCAAC
Found at i:551931 original size:250 final size:252
Alignment explanation
Indices: 551488--551989 Score: 958
Period size: 250 Copynumber: 2.0 Consensus size: 252
551478 ATTTTCGGTT
551488 CATTTCTTGAAAGATTTCCCCAGTTTTTCTCAATGGAGGTTGCGAAGAATTCAAAACTGGGGACT
1 CATTTCTTGAAAGATTTCCCCAGTTTTTCTCAATGGAGGTTGCGAAGAATTCAAAACTGGGGACT
551553 CCTGTGAAAGACCCAGAAGGTTATTCTCGATTGAAAACTCCAAAAGATTCGAAACATTCTGAGAA
66 CCTGTGAAAGACCCAGAAGGTTATTCTCGATTGAAAACTCCAAAAGATTCGAAACATTCTGAGAA
551618 TTCAAATCCAAATATTTCCGATTCAACTTCTCCATTAACAAGATCTTCAAAATCCAAGAAACATT
131 TTCAAATCCAAATATTTCCGATTCAACTTCTCCATTAACAAGATCTTCAAAATCCAAGAAACATT
551683 CTTCCAAGAATACACTCATCTATTCACCGGGTAACAAGCTTAGGGAAAGGAAGTTTG
196 CTTCCAAGAATACACTCATCTATTCACCGGGTAACAAGCTTAGGGAAAGGAAGTTTG
551740 CATTTCTTGAAAGATTTCCCCAG-TTTTCTCAATGGAGGTTGCGAAGAATTC-AAACTGGGGACT
1 CATTTCTTGAAAGATTTCCCCAGTTTTTCTCAATGGAGGTTGCGAAGAATTCAAAACTGGGGACT
551803 -CTGTGAAAGACCCCAGAAGGTTATTCTCGATTG-AAACTCCAAAAAGATTCGAAACATTCTGAG
66 CCTGTGAAAGA-CCCAGAAGGTTATTCTCGATTGAAAACTCC-AAAAGATTCGAAACATTCTGAG
551866 AATTCAAATCCAAATATTTCCGATTCAACTTCTCCATTAACAAGATCTTCAAAATCCAAGAAACA
129 AATTCAAATCCAAATATTTCCGATTCAACTTCTCCATTAACAAGATCTTCAAAATCCAAGAAACA
551931 TTCTTCCAAGAATACACTCATCTATTCACCGGGTAACAAGCTTAGGGAAAGGAAGTTTG
194 TTCTTCCAAGAATACACTCATCTATTCACCGGGTAACAAGCTTAGGGAAAGGAAGTTTG
551990 TGGTGGTGGC
Statistics
Matches: 248, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
249 17 0.07
250 180 0.73
251 28 0.11
252 23 0.09
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (252 bp):
CATTTCTTGAAAGATTTCCCCAGTTTTTCTCAATGGAGGTTGCGAAGAATTCAAAACTGGGGACT
CCTGTGAAAGACCCAGAAGGTTATTCTCGATTGAAAACTCCAAAAGATTCGAAACATTCTGAGAA
TTCAAATCCAAATATTTCCGATTCAACTTCTCCATTAACAAGATCTTCAAAATCCAAGAAACATT
CTTCCAAGAATACACTCATCTATTCACCGGGTAACAAGCTTAGGGAAAGGAAGTTTG
Found at i:556289 original size:71 final size:71
Alignment explanation
Indices: 556173--556316 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
556163 TAAAAATGTC
556173 AACTTTGTGGAAGATATATGATTTTTAAGGAACGTTCGACGAAAATGATTATTGGGGAGAAGAAG
1 AACTTTGTGGAAGATATATGATTTTTAAGGAACGTTCGACGAAAATGATTATTGGGGAGAAGAAG
556238 GATATA
66 GATATA
556244 AACTTTGTGGAAGATATATGATTTTTAAGGAACGTTCGACGAAAATGATTATTGGGGAGAAGAAG
1 AACTTTGTGGAAGATATATGATTTTTAAGGAACGTTCGACGAAAATGATTATTGGGGAGAAGAAG
556309 GATATA
66 GATATA
556315 AA
1 AA
556317 TTCAACAACG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.39, C:0.06, G:0.26, T:0.29
Consensus pattern (71 bp):
AACTTTGTGGAAGATATATGATTTTTAAGGAACGTTCGACGAAAATGATTATTGGGGAGAAGAAG
GATATA
Found at i:560901 original size:74 final size:74
Alignment explanation
Indices: 560812--560962 Score: 302
Period size: 74 Copynumber: 2.0 Consensus size: 74
560802 GTTACTTTCT
560812 AGGAATTAAGGTGAAGAGATATGGTGATGGAGTTGTTCTCAGTTAGCGTAAATTCATTCTCGAAT
1 AGGAATTAAGGTGAAGAGATATGGTGATGGAGTTGTTCTCAGTTAGCGTAAATTCATTCTCGAAT
560877 TACTGATGA
66 TACTGATGA
560886 AGGAATTAAGGTGAAGAGATATGGTGATGGAGTTGTTCTCAGTTAGCGTAAATTCATTCTCGAAT
1 AGGAATTAAGGTGAAGAGATATGGTGATGGAGTTGTTCTCAGTTAGCGTAAATTCATTCTCGAAT
560951 TACTGATGA
66 TACTGATGA
560960 AGG
1 AGG
560963 TAGGAATGAG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (74 bp):
AGGAATTAAGGTGAAGAGATATGGTGATGGAGTTGTTCTCAGTTAGCGTAAATTCATTCTCGAAT
TACTGATGA
Found at i:563480 original size:2 final size:2
Alignment explanation
Indices: 563473--563500 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
563463 AGTTTATTTC
563473 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
563501 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:563796 original size:159 final size:160
Alignment explanation
Indices: 563506--563825 Score: 633
Period size: 159 Copynumber: 2.0 Consensus size: 160
563496 TATATGTGTG
563506 TGTGTGTGTTTAGGTCCAAGTTAAGTGTGAGTAACGAGTGAGAAAAAATTAGAGAGAATTGTAAG
1 TGTGTGTGTTTAGGTCCAAGTTAAGTGTGAGTAACGAGTGAGAAAAAATTAGAGAGAATTGTAAG
563571 AAAAGCTTAGCAAAGCTATAAGTATTTTGTGAACAAACATAAGCTAGTATTGTAATATTGAGAGT
66 AAAAGCTTAGCAAAGCTATAAGTATTTTGTGAACAAACATAAGCTAGTATTGTAATATTGAGAGT
563636 GTAGTTGTAACGTATTTTGTTTCGTATCAA
131 GTAGTTGTAACGTATTTTGTTTCGTATCAA
563666 TGTGTGTGTTTAGGTCCAAGTTAAGTGTGAGTAACGAGTGAG-AAAAATTAGAGAGAATTGTAAG
1 TGTGTGTGTTTAGGTCCAAGTTAAGTGTGAGTAACGAGTGAGAAAAAATTAGAGAGAATTGTAAG
563730 AAAAGCTTAGCAAAGCTATAAGTATTTTGTGAACAAACATAAGCTAGTATTGTAATATTGAGAGT
66 AAAAGCTTAGCAAAGCTATAAGTATTTTGTGAACAAACATAAGCTAGTATTGTAATATTGAGAGT
563795 GTAGTTGTAACGTATTTTGTTTCGTATCAA
131 GTAGTTGTAACGTATTTTGTTTCGTATCAA
563825 T
1 T
563826 AAAAAGTTCG
Statistics
Matches: 160, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
159 118 0.74
160 42 0.26
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.33
Consensus pattern (160 bp):
TGTGTGTGTTTAGGTCCAAGTTAAGTGTGAGTAACGAGTGAGAAAAAATTAGAGAGAATTGTAAG
AAAAGCTTAGCAAAGCTATAAGTATTTTGTGAACAAACATAAGCTAGTATTGTAATATTGAGAGT
GTAGTTGTAACGTATTTTGTTTCGTATCAA
Found at i:570562 original size:22 final size:21
Alignment explanation
Indices: 570528--570577 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
570518 ATAATTATTT
570528 AAAAA-ATTAAATAAAAACACC
1 AAAAACATTAAATAAAAA-ACC
* *
570549 AAAAACATTTAATAAAAAACT
1 AAAAACATTAAATAAAAAACC
570570 AAAAACAT
1 AAAAACAT
570578 CCTCACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAAACATTAAATAAAAAACC
Found at i:583933 original size:42 final size:42
Alignment explanation
Indices: 583886--584034 Score: 149
Period size: 42 Copynumber: 3.5 Consensus size: 42
583876 ATTCCAGAAC
* * *
583886 CTTTAGTGGCTTTTTTTTATTAAATGCCGCAATTTATTAGTA
1 CTTTAGTGGCTTTTTTTTAATAAATGCCGCAATTTGTCAGTA
* ** *
583928 CTTTAGTGGAGTTTTTTTTAAATAAATGTTGCAATTTGTCGGTA
1 CTTTAGTGG-CTTTTTTTT-AATAAATGCCGCAATTTGTCAGTA
* * *
583972 CTTTAGTGAC-GTTTTTTAGATAAACGCCGCAATTTGTCAGTA
1 CTTTAGTGGCTTTTTTTTA-ATAAATGCCGCAATTTGTCAGTA
* *
584014 TTTTAGTGG-TTTTTTTAAATA
1 CTTTAGTGGCTTTTTTTTAATA
584035 CACGACTCAA
Statistics
Matches: 85, Mismatches: 18, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
41 4 0.05
42 47 0.55
43 8 0.09
44 26 0.31
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (42 bp):
CTTTAGTGGCTTTTTTTTAATAAATGCCGCAATTTGTCAGTA
Found at i:586063 original size:43 final size:42
Alignment explanation
Indices: 585919--586091 Score: 172
Period size: 43 Copynumber: 4.1 Consensus size: 42
585909 AAGATAATTA
* * *
585919 GCGGCGTTTATAAGAAAAAATCGCTATATAGCTTGACCA-TTC
1 GCGGCGTTTGTAAGAAAAAATCGCTATAGAGCTTGA-CATTTT
*** * * *
585961 GCGGCGTTTGTAA-AAAATGCCTCTTTAGAGCTTGACCTTTT
1 GCGGCGTTTGTAAGAAAAAATCGCTATAGAGCTTGACATTTT
*
586002 AGTGGCGTTTGTAAGAAAAAAGTCGCTATAGAGCTTGACATTTT
1 -GCGGCGTTTGTAAGAAAAAA-TCGCTATAGAGCTTGACATTTT
* *
586046 GCGGCGTTTGTAAGAAAAACA-CAGCTATAGAGCTTCACCTTTT
1 GCGGCGTTTGTAAGAAAAA-ATC-GCTATAGAGCTTGACATTTT
586089 GCG
1 GCG
586092 ATGTTTTCTC
Statistics
Matches: 106, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
40 1 0.01
41 18 0.17
42 25 0.24
43 43 0.41
44 19 0.18
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (42 bp):
GCGGCGTTTGTAAGAAAAAATCGCTATAGAGCTTGACATTTT
Found at i:588674 original size:2 final size:2
Alignment explanation
Indices: 588667--588732 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
588657 TTTAAAGGGG
588667 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
588709 GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA
588733 AACTTTAGTG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:590165 original size:2 final size:2
Alignment explanation
Indices: 590158--590182 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
590148 GGTGGTTTAT
590158 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
590183 TATCTGTAAA
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:597481 original size:35 final size:32
Alignment explanation
Indices: 597427--597497 Score: 97
Period size: 35 Copynumber: 2.1 Consensus size: 32
597417 CCTTACAAAC
597427 TCCCTAGTTTTTCCGGGCTAAACTAGAACATT
1 TCCCTAGTTTTTCCGGGCTAAACTAGAACATT
* *
597459 TCCCTAGCTTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTT-C-CGGGCTAAACTAGAACATT
597494 TCCC
1 TCCC
597498 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 1 0.03
35 21 0.62
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (32 bp):
TCCCTAGTTTTTCCGGGCTAAACTAGAACATT
Found at i:598825 original size:2 final size:2
Alignment explanation
Indices: 598818--598853 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
598808 TCTAACCATA
598818 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
598854 TATTCTTTCA
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:598884 original size:18 final size:19
Alignment explanation
Indices: 598822--598886 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 19
598812 ACCATAATAT
*
598822 ATATATATATATATATATATA
1 ATATATATA-ATAT-TATTTA
* * *
598843 TATATATATATTATTCTTTC
1 -ATATATATAATATTATTTA
598863 ATAT-TATAATATTATTTA
1 ATATATATAATATTATTTA
598881 ATATAT
1 ATATAT
598887 CAAATACAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
18 15 0.43
19 5 0.14
20 3 0.09
21 3 0.09
22 9 0.26
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATATATAATATTATTTA
Found at i:602509 original size:23 final size:22
Alignment explanation
Indices: 602463--602544 Score: 94
Period size: 23 Copynumber: 3.7 Consensus size: 22
602453 CAGAACCCCG
* *
602463 GGGGGTATCGATTCCCCTAC-A
1 GGGGGAATCGATTCCCCTTCAA
* *
602484 GGGGGAATCGGTTTCCCTTCAAA
1 GGGGGAATCGATTCCCCTTC-AA
*
602507 GGGAGAATCGATTCCCCTTCAA
1 GGGGGAATCGATTCCCCTTCAA
*
602529 GGGGGTATCGATTCCC
1 GGGGGAATCGATTCCC
602545 TCTGCACCAA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
21 16 0.32
22 16 0.32
23 18 0.36
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (22 bp):
GGGGGAATCGATTCCCCTTCAA
Found at i:602521 original size:22 final size:22
Alignment explanation
Indices: 602463--602545 Score: 80
Period size: 22 Copynumber: 3.8 Consensus size: 22
602453 CAGAACCCCG
* * *
602463 GGGGGTATCGATTCCCCT-ACA
1 GGGGGAATCGATTCCCTTCAAA
*
602484 GGGGGAATCGGTTTCCCTTCAAA
1 GGGGGAATC-GATTCCCTTCAAA
*
602507 GGGAGAATCGATTCCCCTTC-AA
1 GGGGGAATCGATT-CCCTTCAAA
*
602529 GGGGGTATCGATTCCCT
1 GGGGGAATCGATTCCCT
602546 CTGCACCAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
21 12 0.24
22 23 0.45
23 16 0.31
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.25
Consensus pattern (22 bp):
GGGGGAATCGATTCCCTTCAAA
Found at i:608537 original size:13 final size:13
Alignment explanation
Indices: 608519--608543 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
608509 TCGAATATAC
608519 TTAGAAAATCTTT
1 TTAGAAAATCTTT
608532 TTAGAAAATCTT
1 TTAGAAAATCTT
608544 AAAATTCATT
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTAGAAAATCTTT
Found at i:615638 original size:25 final size:25
Alignment explanation
Indices: 615610--615663 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
615600 TTTTTCCTTA
615610 CATACCATATTATTTAATAATAATG
1 CATACCATATTATTTAATAATAATG
615635 CATACCATATTATTTAATAATAATG
1 CATACCATATTATTTAATAATAATG
615660 CATA
1 CATA
615664 TAAAATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.39
Consensus pattern (25 bp):
CATACCATATTATTTAATAATAATG
Found at i:620772 original size:24 final size:24
Alignment explanation
Indices: 620740--620787 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
620730 ATGATCAGTT
620740 GCCCCCACAGTTTTATGTCAAAGC
1 GCCCCCACAGTTTTATGTCAAAGC
620764 GCCCCCACAGTTTTATGTCAAAGC
1 GCCCCCACAGTTTTATGTCAAAGC
620788 AAAAACTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (24 bp):
GCCCCCACAGTTTTATGTCAAAGC
Found at i:621597 original size:15 final size:17
Alignment explanation
Indices: 621577--621608 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
621567 AATAATATAA
621577 TAAATT-CAAG-TAGAT
1 TAAATTGCAAGATAGAT
621592 TAAATTGCAAGATAGAT
1 TAAATTGCAAGATAGAT
621609 AAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (17 bp):
TAAATTGCAAGATAGAT
Found at i:622701 original size:17 final size:15
Alignment explanation
Indices: 622679--622724 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
622669 TTGCACGATG
622679 ACTTTATTTATTATTTA
1 ACTTTATTTATTA--TA
622696 ACTTTATTTATTCATA
1 ACTTTATTTATT-ATA
*
622712 TCTTTATTTATTA
1 ACTTTATTTATTA
622725 ATTTTATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 1 0.04
16 13 0.48
17 12 0.44
18 1 0.04
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (15 bp):
ACTTTATTTATTATA
Found at i:622883 original size:23 final size:23
Alignment explanation
Indices: 622831--622886 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
622821 ATTGTTTTCC
622831 TTAT-TTTATTTTATTTATTTATG
1 TTATATTTA-TTTATTTATTTATG
* *
622854 TTATATTTATTTGTTTATTT-TT
1 TTATATTTATTTATTTATTTATG
622876 TTAGTATTTAT
1 TTA-TATTTAT
622887 ATCACATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 4 0.14
23 21 0.72
24 4 0.14
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.73
Consensus pattern (23 bp):
TTATATTTATTTATTTATTTATG
Found at i:624034 original size:20 final size:20
Alignment explanation
Indices: 623994--624034 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
623984 AATCATGCTT
*
623994 GAAATTAAAAGAAAAATAAA
1 GAAATTAAAAGAAAAAGAAA
624014 GAAATTGAAAAG-AAAAGAAA
1 GAAATT-AAAAGAAAAAGAAA
624034 G
1 G
624035 CTATACTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (20 bp):
GAAATTAAAAGAAAAAGAAA
Found at i:624050 original size:20 final size:20
Alignment explanation
Indices: 624027--624074 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
624017 ATTGAAAAGA
624027 AAAGAAAGCTATACTTGACT
1 AAAGAAAGCTATACTTGACT
624047 AAAGAAAGCTATACTTGACT
1 AAAGAAAGCTATACTTGACT
*
624067 AAATAAAG
1 AAAGAAAG
624075 TAAAGAACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (20 bp):
AAAGAAAGCTATACTTGACT
Found at i:625536 original size:21 final size:21
Alignment explanation
Indices: 625511--625556 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
625501 TATGTTGCAT
* *
625511 GTTCTAGCATGCTATGAACTA
1 GTTCTAGAATGCTAAGAACTA
625532 GTTCTAGAATGCTAAGAACTA
1 GTTCTAGAATGCTAAGAACTA
625553 GTTC
1 GTTC
625557 GACACACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (21 bp):
GTTCTAGAATGCTAAGAACTA
Found at i:628391 original size:3 final size:3
Alignment explanation
Indices: 628383--628473 Score: 103
Period size: 3 Copynumber: 30.3 Consensus size: 3
628373 AATTTTTATT
** * * * *
628383 TAA TAA TAA TTAA TTG TAA TAA TAA TAA TTA TTA TCA TAT TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
628429 TAA T-A TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
628474 CATATGCAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
2 2 0.03
3 70 0.93
4 3 0.04
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:628712 original size:79 final size:79
Alignment explanation
Indices: 628576--628773 Score: 222
Period size: 79 Copynumber: 2.5 Consensus size: 79
628566 GTCATTGTTG
* * * * *
628576 AGTTCTTCTCATTACGAAC-TCTT-TTACTGGAAATGCTGATCCAACTTCTTCTGTGATGGAATC
1 AGTTCTTCTCATTATGAACTTCTTCTT--TGGAAATGTTGATCCAACTCCTTCTATGATGAAATC
* ** *
628639 GA-ACATAGGTTGAGCA
64 GAGA-AAACATTGAACA
* * *
628655 TGTTCTTCTCATTATGAACTTCTTCTTTGGAAATGTTGATTCAACTCCTTTTATGATGAAATCGA
1 AGTTCTTCTCATTATGAACTTCTTCTTTGGAAATGTTGATCCAACTCCTTCTATGATGAAATCGA
628720 GAAAACATTGAACA
66 GAAAACATTGAACA
* *
628734 AGTTCTTCTCATTATGAACTTCTTCATTAGAAATGTTGAT
1 AGTTCTTCTCATTATGAACTTCTTCTTTGGAAATGTTGAT
628774 ACACCGTATT
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
79 94 0.93
80 5 0.05
81 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (79 bp):
AGTTCTTCTCATTATGAACTTCTTCTTTGGAAATGTTGATCCAACTCCTTCTATGATGAAATCGA
GAAAACATTGAACA
Found at i:629949 original size:21 final size:21
Alignment explanation
Indices: 629925--629977 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
629915 TAATAATTGT
*
629925 AATAACAATAACA-ACAACAAC
1 AATAAAAATAA-AGACAACAAC
*
629946 AATAATAATAAAGACAACAAC
1 AATAAAAATAAAGACAACAAC
*
629967 GATAAAAATAA
1 AATAAAAATAA
629978 TAAAAATCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.68, C:0.15, G:0.04, T:0.13
Consensus pattern (21 bp):
AATAAAAATAAAGACAACAAC
Found at i:629962 original size:24 final size:24
Alignment explanation
Indices: 629935--629981 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
629925 AATAACAATA
*
629935 ACAACAACAACAATAATAATAAAG
1 ACAACAACAACAAAAATAATAAAG
* *
629959 ACAACAACGATAAAAATAATAAA
1 ACAACAACAACAAAAATAATAAA
629982 AATCATACGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.68, C:0.15, G:0.04, T:0.13
Consensus pattern (24 bp):
ACAACAACAACAAAAATAATAAAG
Found at i:631260 original size:18 final size:17
Alignment explanation
Indices: 631237--631272 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
631227 TTTAGGGCAA
631237 TTTATGATTTTTTATTAT
1 TTTATGATTTTTT-TTAT
631255 TTTATGATTTTTTTTAT
1 TTTATGATTTTTTTTAT
631272 T
1 T
631273 AATTAAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (17 bp):
TTTATGATTTTTTTTAT
Found at i:631533 original size:11 final size:11
Alignment explanation
Indices: 631509--631542 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
631499 GTGTAAGTCT
631509 TTTTATTCTCTTC
1 TTTTATT-T-TTC
631522 TTTTATTTTTC
1 TTTTATTTTTC
631533 TTTTATTTTT
1 TTTTATTTTT
631543 ACTATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 13 0.62
12 1 0.05
13 7 0.33
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTC
Found at i:633546 original size:5 final size:6
Alignment explanation
Indices: 633520--633552 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
633510 TTTCAAGAAT
*
633520 AAAAA- AAACAC AAAAAC AAAAAC AAAAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
633553 TGATACATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Done.