Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006917.1 Hibiscus syriacus cultivar Beakdansim tig00017725_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: 182325
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Found at i:8286 original size:2 final size:2
Alignment explanation
Indices: 8281--8314 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8271 ATATAGACTC
8281 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
8315 TGTTTCAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10960 original size:2 final size:2
Alignment explanation
Indices: 10953--10984 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10943 CTTTGAAACA
10953 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
10985 GAGTCTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:20241 original size:26 final size:26
Alignment explanation
Indices: 20207--20259 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
20197 TTTAAGAATA
20207 TATTATCCAAATCAAACAATGATAAT
1 TATTATCCAAATCAAACAATGATAAT
20233 TATTATCCAAATCAAACAATGATAAT
1 TATTATCCAAATCAAACAATGATAAT
20259 T
1 T
20260 TAAATTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (26 bp):
TATTATCCAAATCAAACAATGATAAT
Found at i:22666 original size:21 final size:23
Alignment explanation
Indices: 22642--22685 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
22632 AATAATCTAA
*
22642 ATTAATTTAA-TTTA-AGAATAT
1 ATTAATATAATTTTATAGAATAT
22663 ATTAATATAATTTTATAGAATAT
1 ATTAATATAATTTTATAGAATAT
22686 GATTGGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
ATTAATATAATTTTATAGAATAT
Found at i:23902 original size:19 final size:20
Alignment explanation
Indices: 23874--23917 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
23864 AATTTAAGAA
*
23874 TAAATTATATAAAAAT-ATT
1 TAAATAATATAAAAATAATT
* *
23893 TAAATAATATTATAATAATT
1 TAAATAATATAAAAATAATT
23913 TAAAT
1 TAAAT
23918 CAATTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAATATAAAAATAATT
Found at i:23960 original size:13 final size:14
Alignment explanation
Indices: 23942--23970 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23932 AATATACTAA
23942 TATAATTTAAA-AT
1 TATAATTTAAATAT
23955 TATAATTTAAATAT
1 TATAATTTAAATAT
23969 TA
1 TA
23971 ATATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATAATTTAAATAT
Found at i:24243 original size:21 final size:20
Alignment explanation
Indices: 24217--24270 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
24207 TTTATAAATT
24217 AATTAATTTAAATTAAGAATA
1 AATTAATTTAAATTAAG-ATA
* *
24238 AATTAATTTAATTTATGATA
1 AATTAATTTAAATTAAGATA
**
24258 TTTTAATTTAAAT
1 AATTAATTTAAAT
24271 AAATAATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (20 bp):
AATTAATTTAAATTAAGATA
Found at i:29135 original size:26 final size:25
Alignment explanation
Indices: 29071--29135 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
29061 AAATAGCATA
* *
29071 AAATCAAA-ATTCATATCATAGTCC
1 AAATCAAACATTAATATCATAATCC
* * *
29095 ATATCAACCAATAATAATCATAATCC
1 AAATCAAACATTAAT-ATCATAATCC
29121 AAATCAAACATTAAT
1 AAATCAAACATTAAT
29136 CAGTCCTAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
24 6 0.19
25 4 0.13
26 21 0.68
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.28
Consensus pattern (25 bp):
AAATCAAACATTAATATCATAATCC
Found at i:34214 original size:15 final size:15
Alignment explanation
Indices: 34194--34223 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34184 GTTCTTGCTG
34194 AAACTGCTCACTGCA
1 AAACTGCTCACTGCA
34209 AAACTGCTCACTGCA
1 AAACTGCTCACTGCA
34224 TCTGTTCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.13, T:0.20
Consensus pattern (15 bp):
AAACTGCTCACTGCA
Found at i:35201 original size:14 final size:14
Alignment explanation
Indices: 35182--35210 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35172 CAAATATATA
35182 ATAATTTATAGTTT
1 ATAATTTATAGTTT
35196 ATAATTTATAGTTT
1 ATAATTTATAGTTT
35210 A
1 A
35211 AATATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
ATAATTTATAGTTT
Found at i:35408 original size:21 final size:23
Alignment explanation
Indices: 35384--35427 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
35374 AATAATCTAA
*
35384 ATTAATTTAA-TTTA-AGAATAT
1 ATTAATATAATTTTATAGAATAT
35405 ATTAATATAATTTTATAGAATAT
1 ATTAATATAATTTTATAGAATAT
35428 GATTGGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
ATTAATATAATTTTATAGAATAT
Found at i:37951 original size:13 final size:13
Alignment explanation
Indices: 37933--37957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37923 AACATATTTA
37933 TATAATTTAAATC
1 TATAATTTAAATC
37946 TATAATTTAAAT
1 TATAATTTAAAT
37958 ATTAATATTA
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAATTTAAATC
Found at i:38261 original size:19 final size:20
Alignment explanation
Indices: 38233--38276 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
38223 AATTTAAGAA
*
38233 TAAATTATATAAAAAT-ATT
1 TAAATAATATAAAAATAATT
* *
38252 TAAATAATATTATAATAATT
1 TAAATAATATAAAAATAATT
38272 TAAAT
1 TAAAT
38277 CAATTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAATATAAAAATAATT
Found at i:38285 original size:26 final size:26
Alignment explanation
Indices: 38256--38319 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
38246 AATATTTAAA
38256 TAATATTATAATA-ATTTAA-ATCAATT
1 TAATATTATAATATA-TTAATAT-AATT
*
38282 TAAT-TTAAGAATATATTAATATAATT
1 TAATATT-ATAATATATTAATATAATT
*
38308 TAAAATTATAAT
1 TAATATTATAAT
38320 TTAAATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
25 2 0.06
26 24 0.77
27 5 0.16
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (26 bp):
TAATATTATAATATATTAATATAATT
Found at i:38319 original size:13 final size:14
Alignment explanation
Indices: 38301--38329 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
38291 AATATATTAA
38301 TATAATTTAAA-AT
1 TATAATTTAAATAT
38314 TATAATTTAAATAT
1 TATAATTTAAATAT
38328 TA
1 TA
38330 ATATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATAATTTAAATAT
Found at i:38510 original size:367 final size:367
Alignment explanation
Indices: 37875--38583 Score: 907
Period size: 369 Copynumber: 1.9 Consensus size: 367
37865 TAATTTAATT
* * *
37875 TAAAAATATTTCAATAATATTAGAATAATTTAAATTATTTATGTTAAGAACATATTTATATAATT
1 TAAAAATATTTAAATAATATTAGAATAATTTAAATAATTTATGTTAAGAACATATTAATATAATT
** * *
37940 TAAATCTATAATTTAAATATTAATATTATTATATAGGGCATGATCTAATTATATTGTGTAAAACT
66 TAAATCTATAATTTAAATATTAATATTATTATATAGGGCAAAATCCAATTATAGTGTGTAAAACT
* * ** * * *
38005 CTTTTAGTTTATACCATTTTAAAACCAGTAGATGGGAGAAATTAAAGAGTGAAATTAATCGTGGA
131 CTTTAAGTTTACACCATTTTAAAACCAGTAGATGAAAGAAATTAAAGACTGAAATTAACCATGGA
* * *
38070 AAATGAAAAGATATTCACTAAAAAAATGAATTAATCTCAATCTTTGATTTATCTTAATCCAATGG
196 AAATGAAAAGATATTCACT-AAAAAACGAATTAATCTCAACCTTTGATTTATCTCAATCCAATGG
* * *
38135 CTCTAAAAATG-TG-A-CTAAAAGAGTTTTACATAGTATAAATGGATCCTAATCCTAATTATATT
260 CACTAAAAA-GATGAACCTAAAAGAGTTTTACACAATATAAATGGATCCTAATCCTAATTATATT
38197 TA-AAATTTATATTAATTAATTAATTTAATTTAAGAATAAATTATA
324 TATAAA-TTA-ATTAATTAATTAATTTAATTTAAGAATAAATTATA
* *
38242 TAAAAATATTTAAATAATATTATAATAATTTAAATCAATTTAAT-TTAAGAATATATTAATATAA
1 TAAAAATATTTAAATAATATTAGAATAATTTAAAT-AATTT-ATGTTAAGAACATATTAATATAA
*
38306 TTTAAAAT-TATAATTTAAATATTAATATTATTATATGGGGGCAAAATCCAATTATAGTGTGTAA
64 TTT-AAATCTATAATTTAAATATTAATATTATTATAT-AGGGCAAAATCCAATTATAGTGTGTAA
* * ** * * *
38370 AACTCTTTAATTTTACATCATTTTAGGACCA-TTGAATGAAATAAATTAAAGACT-AAGATTGAC
127 AACTCTTTAAGTTTACACCATTTTAAAACCAGTAG-ATGAAAGAAATTAAAGACTGAA-ATTAAC
* * *
38433 CATGGAAAATGAACAGATATTCACT-AAAAACGAATTAATCTGAACCTTTGATTTCTCTCAATCC
190 CATGGAAAATGAAAAGATATTCACTAAAAAACGAATTAATCTCAACCTTTGATTTATCTCAATCC
* * *
38497 AATGAG-ACTAAAAAGATGCAAACCTAAAAGAGTTTTACACAATATAAGTGGATCCTAATTCTTA
255 AATG-GCACTAAAAAGATG--AACCTAAAAGAGTTTTACACAATATAAATGGATCCTAATCCTAA
38561 TTATATTTATAAATTAATTAATT
317 TTATATTTATAAATTAATTAATT
38584 TAAATTAAGA
Statistics
Matches: 293, Mismatches: 36, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
366 1 0.00
367 80 0.27
368 58 0.20
369 95 0.32
370 8 0.03
371 48 0.16
372 3 0.01
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.38
Consensus pattern (367 bp):
TAAAAATATTTAAATAATATTAGAATAATTTAAATAATTTATGTTAAGAACATATTAATATAATT
TAAATCTATAATTTAAATATTAATATTATTATATAGGGCAAAATCCAATTATAGTGTGTAAAACT
CTTTAAGTTTACACCATTTTAAAACCAGTAGATGAAAGAAATTAAAGACTGAAATTAACCATGGA
AAATGAAAAGATATTCACTAAAAAACGAATTAATCTCAACCTTTGATTTATCTCAATCCAATGGC
ACTAAAAAGATGAACCTAAAAGAGTTTTACACAATATAAATGGATCCTAATCCTAATTATATTTA
TAAATTAATTAATTAATTAATTTAATTTAAGAATAAATTATA
Found at i:38702 original size:13 final size:13
Alignment explanation
Indices: 38684--38711 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38674 AAAAAGCAAA
38684 AATTTGATATAGC
1 AATTTGATATAGC
38697 AATTTGATATAGC
1 AATTTGATATAGC
38710 AA
1 AA
38712 ATAAACTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (13 bp):
AATTTGATATAGC
Found at i:38726 original size:27 final size:27
Alignment explanation
Indices: 38696--38758 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
38686 TTTGATATAG
38696 CAATTTGATATAGCAAATAAACTTCAT
1 CAATTTGATATAGCAAATAAACTTCAT
38723 CAATTTGATATAGCAAATAAACTTCAT
1 CAATTTGATATAGCAAATAAACTTCAT
38750 CAATTTGAT
1 CAATTTGAT
38759 TGAAAAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (27 bp):
CAATTTGATATAGCAAATAAACTTCAT
Found at i:44061 original size:26 final size:25
Alignment explanation
Indices: 44041--44095 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
44031 CACAATTCAC
44041 ATCATAATCCAAATCAAACAATGATA
1 ATCATAATCCAAATCAAACAAT-ATA
* *
44067 ATCATTATCCAAATCAAACATTAATA
1 ATCATAATCCAAATCAAACAAT-ATA
44093 ATC
1 ATC
44096 CGAGTTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (25 bp):
ATCATAATCCAAATCAAACAATATA
Found at i:44160 original size:26 final size:26
Alignment explanation
Indices: 44130--44180 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
44120 TTAAGAATAA
44130 ATTATCCAAATCAAACAATGATAATC
1 ATTATCCAAATCAAACAATGATAATC
*
44156 ATTATCCAAATGAAACAATGATAAT
1 ATTATCCAAATCAAACAATGATAAT
44181 TTAAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.27
Consensus pattern (26 bp):
ATTATCCAAATCAAACAATGATAATC
Found at i:44290 original size:36 final size:34
Alignment explanation
Indices: 44203--44290 Score: 88
Period size: 36 Copynumber: 2.5 Consensus size: 34
44193 CATTTAAGAA
*
44203 TATATTAATATAATT-TAAATTAATGTATTCTTAT
1 TATATTAATA-AATTATAAATTAATGTATTATTAT
* * * *
44237 GATATTTTATAATTTATAATTTAAATGTTATTATTAT
1 TATA-TTAATAAATTATAAATT-AATG-TATTATTAT
44274 TATATTAATAAATTATA
1 TATATTAATAAATTATA
44291 TAAATAATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
34 6 0.14
35 10 0.24
36 15 0.36
37 11 0.26
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (34 bp):
TATATTAATAAATTATAAATTAATGTATTATTAT
Found at i:44806 original size:21 final size:20
Alignment explanation
Indices: 44776--44817 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
44766 TAATTTAAAT
*
44776 TTAATTTAATTTAAGAATTTA
1 TTAATATAATTTAA-AATTTA
*
44797 TTAATATAATTTTAAATTTA
1 TTAATATAATTTAAAATTTA
44817 T
1 T
44818 AATTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAATATAATTTAAAATTTA
Found at i:45182 original size:88 final size:88
Alignment explanation
Indices: 45078--45270 Score: 354
Period size: 88 Copynumber: 2.2 Consensus size: 88
45068 AAATTATATA
45078 AATTAAT-TAAT-TTATGAATAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTAATT
1 AATTAATATAATCTTATGAATAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTAATT
45141 TAAGAATATATTAACATAATTTC
66 TAAGAATATATTAACATAATTTC
* *
45164 AATTAATATAATCTTATGAATAAATTATATAAAAATATTTTAAATAATATTAGAAAATTTTCATT
1 AATTAATATAATCTTATGAATAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTAATT
45229 TAAGAATATATTAACATAATTTC
66 TAAGAATATATTAACATAATTTC
45252 AATTAATATAATCTTATGA
1 AATTAATATAATCTTATGA
45271 TATTTTATAA
Statistics
Matches: 103, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
86 7 0.07
87 4 0.04
88 92 0.89
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (88 bp):
AATTAATATAATCTTATGAATAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTAATT
TAAGAATATATTAACATAATTTC
Found at i:49844 original size:21 final size:22
Alignment explanation
Indices: 49747--49844 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 22
49737 CTATATAAAC
*
49747 AATATAATTTAAGAATA-AATT
1 AATATAATTTAAGAATATATTT
*
49768 AATTTAATTTAA-AA-ATATTT
1 AATATAATTTAAGAATATATTT
49788 AA-ATAATATT-AGAATA-ATTT
1 AATATAAT-TTAAGAATATATTT
* *
49808 AAATTATTTATGTTAAGAACATA-TT
1 -AA-TA-TAAT-TTAAGAATATATTT
49833 AATATAATTTAA
1 AATATAATTTAA
49845 ATCTATAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
19 6 0.10
20 15 0.25
21 18 0.30
22 3 0.05
23 3 0.05
24 7 0.12
25 7 0.12
26 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (22 bp):
AATATAATTTAAGAATATATTT
Found at i:49853 original size:13 final size:13
Alignment explanation
Indices: 49835--49859 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49825 AACATATTAA
49835 TATAATTTAAATC
1 TATAATTTAAATC
49848 TATAATTTAAAT
1 TATAATTTAAAT
49860 ATTAATATTA
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAATTTAAATC
Found at i:50167 original size:19 final size:20
Alignment explanation
Indices: 50139--50182 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
50129 AATTTAAGAA
*
50139 TAAATTATATAAAAAT-ATT
1 TAAATAATATAAAAATAATT
* *
50158 TAAATAATATTATAATAATT
1 TAAATAATATAAAAATAATT
50178 TAAAT
1 TAAAT
50183 CAATTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAATATAAAAATAATT
Found at i:50219 original size:60 final size:55
Alignment explanation
Indices: 50094--50223 Score: 131
Period size: 60 Copynumber: 2.3 Consensus size: 55
50084 TCCTAATCCT
*
50094 TATTAT-ATTT-AA-AAATTATATAAATTAATTAATTTAATTTAAGAATAAATTA
1 TATTATAATTTAAATAAATTATATAAATTAATCAATTTAATTTAAGAATAAATTA
* * * *
50146 TATAAAAATATTTAAATAATATTATAATAATTTAAATCAATTTAATTTAAGAAATATATTAA
1 TAT-TATA-ATTTAAATAA-ATTAT-ATAAATT-AATCAATTTAATTTAAG-AATAAATT-A
50208 TATTATAATTTAAATA
1 TATTATAATTTAAATA
50224 TTAATATTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
52 3 0.05
53 1 0.02
55 4 0.07
56 2 0.03
57 2 0.03
58 5 0.08
59 6 0.10
60 25 0.41
61 9 0.15
62 4 0.07
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.45
Consensus pattern (55 bp):
TATTATAATTTAAATAAATTATATAAATTAATCAATTTAATTTAAGAATAAATTA
Found at i:50408 original size:363 final size:369
Alignment explanation
Indices: 49777--50474 Score: 918
Period size: 363 Copynumber: 1.9 Consensus size: 369
49767 TAATTTAATT
*
49777 TAAAAATATTTAAATAATATTAGAATAATTTAAATTATTTATGTTAAGAACATATTAATATAATT
1 TAAAAATATTTAAATAATATTAGAATAATTTAAATAATTTATGTTAAGAACATATTAATATAA-T
** *
49842 TAAATCTATAATTTAAATATTAATATTATTATATAGGGCAGGATCTAATTATACTGAGTAAAACT
65 T-AATCTATAATTTAAATATTAATATTATTATATAGGGCAAAATCCAATTATACTGAGTAAAACT
* * ** * ***
49907 CTTTTAGTTTATACCATTTTAAGACCAGTAGATGGGAGAAATTAAAGAGTGAAATTAATTGTGGA
129 CTTTAAGTTTACACCATTTTAAGACCAGTAGATGAAAGAAATTAAAGACTGAAATTAACCATGGA
* *
49972 AAATGAAAAGATATTCACTAAAAAAACGAATTAATCTCAATCTTTGATTTATCTCAATCCAATGG
194 AAATGAAAAGATATTCACTAAAAAAACAAATTAATATCAATCTTTGATTTATCTCAATCCAATGG
* * * *
50037 CTCTAAAAATG-TGTAAAACTAAAAGAGTTTTACATAGTATAAATGGATCCTAATCCTTATTATA
259 CACTAAAAA-GATGCAAAACTAAAAGAGTTTTACACAATATAAATGGATCCTAATCCTTATTATA
50101 TTTAAAAATTATATAAATTAATTAATTTAATTTAAGAATAAATTATA
323 TTTAAAAATTATATAAATTAATTAATTTAATTTAAGAATAAATTATA
*
50148 TAAAAATATTTAAATAATATTATAATAATTTAAATCAATTTAAT-TTAAGAA-ATA-T-AT-TAA
1 TAAAAATATTTAAATAATATTAGAATAATTTAAAT-AATTT-ATGTTAAGAACATATTAATATAA
* * *
50208 -T-AT-TATAATTTAAATATTAATATTATTATATGGGGGCAAAATCCAATTATAGTGTGTAAAAC
64 TTAATCTATAATTTAAATATTAATATTATTATAT-AGGGCAAAATCCAATTATACTGAGTAAAAC
* * * * * *
50270 TCTTTAATTTTACATCATTTTAGGATCATTGGATGAAAGAAATTAAAGACT-AAGATTAACCATG
128 TCTTTAAGTTTACACCATTTTAAGACCAGTAGATGAAAGAAATTAAAGACTGAA-ATTAACCATG
* *
50334 GAAAATGAACAGATATTCACT-AAAAAACAAATTAATATC-ATCCTTTGATTTCTCTCAATCCAA
192 GAAAATGAAAAGATATTCACTAAAAAAACAAATTAATATCAAT-CTTTGATTTATCTCAATCCAA
* * *
50397 TGAG-ACTAAAAAGATGCAAACCTAAAAGTGTTTTACACAATATAAGTGGATCCTAATCCTTATT
256 TG-GCACTAAAAAGATGCAAAACTAAAAGAGTTTTACACAATATAAATGGATCCTAATCCTTATT
*
50461 ATATTTATAAATTA
320 ATATTTAAAAATTA
50475 ATTAATTTAA
Statistics
Matches: 286, Mismatches: 34, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
362 3 0.01
363 132 0.46
364 94 0.33
366 1 0.00
368 3 0.01
369 2 0.01
370 1 0.00
371 37 0.13
372 11 0.04
373 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.37
Consensus pattern (369 bp):
TAAAAATATTTAAATAATATTAGAATAATTTAAATAATTTATGTTAAGAACATATTAATATAATT
AATCTATAATTTAAATATTAATATTATTATATAGGGCAAAATCCAATTATACTGAGTAAAACTCT
TTAAGTTTACACCATTTTAAGACCAGTAGATGAAAGAAATTAAAGACTGAAATTAACCATGGAAA
ATGAAAAGATATTCACTAAAAAAACAAATTAATATCAATCTTTGATTTATCTCAATCCAATGGCA
CTAAAAAGATGCAAAACTAAAAGAGTTTTACACAATATAAATGGATCCTAATCCTTATTATATTT
AAAAATTATATAAATTAATTAATTTAATTTAAGAATAAATTATA
Found at i:54593 original size:15 final size:17
Alignment explanation
Indices: 54569--54605 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
54559 TAATCTGATC
*
54569 CAAATGTAAAAA-AATT
1 CAAATATAAAAATAATT
54585 -AAATATAAAAATAATT
1 CAAATATAAAAATAATT
54601 CAAAT
1 CAAAT
54606 GCATCGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 10 0.56
16 4 0.22
17 4 0.22
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (17 bp):
CAAATATAAAAATAATT
Found at i:56687 original size:26 final size:26
Alignment explanation
Indices: 56658--56712 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
56648 CACAATTCAC
** *
56658 ATCATAATCTGAATCAAACAATGATA
1 ATCATAATCCAAATCAAACAATAATA
* *
56684 ATCATTATCCAAATCAAACATTAATA
1 ATCATAATCCAAATCAAACAATAATA
56710 ATC
1 ATC
56713 CGAGTTTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (26 bp):
ATCATAATCCAAATCAAACAATAATA
Found at i:57239 original size:21 final size:20
Alignment explanation
Indices: 57209--57250 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
57199 TAATTTAAAT
*
57209 TTAATTTAATTTAAGAATTTA
1 TTAATATAATTTAA-AATTTA
*
57230 TTAATATAATTTTAAATTTA
1 TTAATATAATTTAAAATTTA
57250 T
1 T
57251 AATTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAATATAATTTAAAATTTA
Found at i:57623 original size:88 final size:88
Alignment explanation
Indices: 57512--57705 Score: 338
Period size: 88 Copynumber: 2.2 Consensus size: 88
57502 AAATTATATA
*
57512 AATTAAT-TAAAT-TTATGATTAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTAAT
1 AATTAATAT-AATCTTATGAATAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTAAT
57575 TTAAGAATATATTAACAAAATTTC
65 TTAAGAATATATTAACAAAATTTC
*
57599 AATTAATATAATCTTATGAATAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTCATT
1 AATTAATATAATCTTATGAATAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTAATT
*
57664 TAAGAATATATTAACATAATTTC
66 TAAGAATATATTAACAAAATTTC
57687 AATTAATATAATCTTATGA
1 AATTAATATAATCTTATGA
57706 TATTTTATAA
Statistics
Matches: 102, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
87 10 0.10
88 92 0.90
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (88 bp):
AATTAATATAATCTTATGAATAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTAATT
TAAGAATATATTAACAAAATTTC
Found at i:57741 original size:16 final size:16
Alignment explanation
Indices: 57723--57756 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57713 TAATTTATAA
*
57723 TTTATAAATAATTTAAT
1 TTTA-AAATAAATTAAT
57740 TTTAAAATAAATTAAT
1 TTTAAAATAAATTAAT
57756 T
1 T
57757 AAACTATACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTAAAATAAATTAAT
Found at i:65933 original size:21 final size:22
Alignment explanation
Indices: 65836--65933 Score: 66
Period size: 21 Copynumber: 4.5 Consensus size: 22
65826 CTATATAAAC
*
65836 AATATAATTTAAGAATA-AATT
1 AATATAATTTAAGAATATATTT
*
65857 AATTTAATTTAA-AA-ATATTT
1 AATATAATTTAAGAATATATTT
65877 AA-ATAATATT-AGAATA-ATTT
1 AATATAAT-TTAAGAATATATTT
* *
65897 AAATTATTTATGTTAAGAACATA-TT
1 -AA-TA-TAAT-TTAAGAATATATTT
65922 AATATAATTTAA
1 AATATAATTTAA
65934 ATCTATAATT
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
19 6 0.10
20 15 0.25
21 18 0.30
22 3 0.05
23 3 0.05
24 7 0.12
25 7 0.12
26 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (22 bp):
AATATAATTTAAGAATATATTT
Found at i:65942 original size:13 final size:13
Alignment explanation
Indices: 65924--65948 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65914 AACATATTAA
65924 TATAATTTAAATC
1 TATAATTTAAATC
65937 TATAATTTAAAT
1 TATAATTTAAAT
65949 ATTAATATTA
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAATTTAAATC
Found at i:66255 original size:19 final size:20
Alignment explanation
Indices: 66227--66270 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
66217 AATTTAAGAA
*
66227 TAAATTATATAAAAAT-ATT
1 TAAATAATATAAAAATAATT
* *
66246 TAAATAATATTATAATAATT
1 TAAATAATATAAAAATAATT
66266 TAAAT
1 TAAAT
66271 CAATTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATAATATAAAAATAATT
Found at i:66483 original size:363 final size:370
Alignment explanation
Indices: 65866--66564 Score: 888
Period size: 363 Copynumber: 1.9 Consensus size: 370
65856 TAATTTAATT
*
65866 TAAAAATATTTAAATAATATTAGAATAATTTAAATTATTTATGTTAAGAACATATTAATATAATT
1 TAAAAATATTTAAATAATATTAGAATAATTTAAATAATTTATGTTAAGAACATATTAATATAA-T
** *
65931 TAAATCTATAATTTAAATATTAATATTATTATATAGGGCAGGATCTAATTATACTGAGTAAAACT
65 T-AATCTATAATTTAAATATTAATATTATTATATAGGGCAAAATCCAATTATACTGAGTAAAACT
* * ** * ***
65996 CTTTTAGTTTATACCATTTTAAGACCAGTAGATGGGAGAAATTAAAGAGTGAAATTAATTGTGGA
129 CTTTAAGTTTACACCATTTTAAGACCAGTAGATGAAAGAAATTAAAGACTGAAATTAACCATGGA
* *
66061 AAATGAAAAGATATTCACTAAAAAAACGAATTAATCTCAATCTTTGATTTATTCAATCCAATG-G
194 AAATGAAAAGATATTCACTAAAAAAACAAATTAATATCAATCTTTGATTTATTCAATCCAATGAG
* * * * *
66125 -CTCTAAAAATG-TGTAAAACTAAAAGAGTTTTACATAGTATAAATGGATCCTAATCCTTATTAT
259 ACT-AAAAAAAGATGCAAAACTAAAAGAGTTTTACACAATATAAATGGATCCTAATCCTTATTAT
66188 ATTTAAAAATTATATAAATTAATTAATTTAATTTAAGAATAAATTATA
323 ATTTAAAAATTATATAAATTAATTAATTTAATTTAAGAATAAATTATA
*
66236 TAAAAATATTTAAATAATATTATAATAATTTAAATCAATTTAAT-TTAAG-A-ATA-T-AT-TAA
1 TAAAAATATTTAAATAATATTAGAATAATTTAAAT-AATTT-ATGTTAAGAACATATTAATATAA
* * *
66295 -T-AT-TATAATTTAAATATTAATATTATTATATGGGGGGCAAAATCCAATTATAGTGTGTAAAA
64 TTAATCTATAATTTAAATATTAATATTATTATAT--AGGGCAAAATCCAATTATACTGAGTAAAA
* * * * * *
66357 CTCTTTAATTTTACATCATTTTAGGATCATTGGATGAAAGAAATTAAAGACT-AAGATTAACCAT
127 CTCTTTAAGTTTACACCATTTTAAGACCAGTAGATGAAAGAAATTAAAGACTGAA-ATTAACCAT
* *
66421 GGAAAATGAACAGATATTCACT-AAAAAACAAATTAATATC-ATCCTTTGATTTCTCTCAATCCA
191 GGAAAATGAAAAGATATTCACTAAAAAAACAAATTAATATCAAT-CTTTGATTTAT-TCAATCCA
* * *
66484 ATGAGACTAAAAAAAGATGCAAACCTAAAAGTGTTTTACACAATATAAGTGGATCCTAATCCTTA
254 ATGAGACTAAAAAAAGATGCAAAACTAAAAGAGTTTTACACAATATAAATGGATCCTAATCCTTA
*
66549 TTATATTTATAAATTA
319 TTATATTTAAAAATTA
66565 ATTAATTTAA
Statistics
Matches: 284, Mismatches: 35, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
361 30 0.11
362 30 0.11
363 102 0.36
364 8 0.03
365 59 0.21
366 3 0.01
367 2 0.01
368 1 0.00
369 3 0.01
370 35 0.12
371 9 0.03
372 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.36
Consensus pattern (370 bp):
TAAAAATATTTAAATAATATTAGAATAATTTAAATAATTTATGTTAAGAACATATTAATATAATT
AATCTATAATTTAAATATTAATATTATTATATAGGGCAAAATCCAATTATACTGAGTAAAACTCT
TTAAGTTTACACCATTTTAAGACCAGTAGATGAAAGAAATTAAAGACTGAAATTAACCATGGAAA
ATGAAAAGATATTCACTAAAAAAACAAATTAATATCAATCTTTGATTTATTCAATCCAATGAGAC
TAAAAAAAGATGCAAAACTAAAAGAGTTTTACACAATATAAATGGATCCTAATCCTTATTATATT
TAAAAATTATATAAATTAATTAATTTAATTTAAGAATAAATTATA
Found at i:72751 original size:26 final size:26
Alignment explanation
Indices: 72722--72776 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
72712 CACAATTCAC
** *
72722 ATCATAATCTGAATCAAACAATGATA
1 ATCATAATCCAAATCAAACAATAATA
* *
72748 ATCATTATCCAAATCAAACATTAATA
1 ATCATAATCCAAATCAAACAATAATA
72774 ATC
1 ATC
72777 CGAGTTTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (26 bp):
ATCATAATCCAAATCAAACAATAATA
Found at i:73301 original size:21 final size:20
Alignment explanation
Indices: 73271--73312 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
73261 TAATTTAAAT
*
73271 TTAATTTAATTTAAGAATTTA
1 TTAATATAATTTAA-AATTTA
*
73292 TTAATATAATTTTAAATTTA
1 TTAATATAATTTAAAATTTA
73312 T
1 T
73313 AATTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAATATAATTTAAAATTTA
Found at i:73678 original size:88 final size:88
Alignment explanation
Indices: 73574--73767 Score: 347
Period size: 88 Copynumber: 2.2 Consensus size: 88
73564 AAATTATATA
73574 AATTAAT-TAAT-TTATGATTAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTAATT
1 AATTAATATAATCTTATGATTAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTAATT
73637 TAAGAATATATTAACAAAATTTC
66 TAAGAATATATTAACAAAATTTC
* *
73660 AATTAATATAATCTTATGAATAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTCATT
1 AATTAATATAATCTTATGATTAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTAATT
*
73725 TAAGAATATATTAACATAATTTC
66 TAAGAATATATTAACAAAATTTC
73748 AATTAATATAATCTTATGAT
1 AATTAATATAATCTTATGAT
73768 ATTTTATAAT
Statistics
Matches: 102, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
86 7 0.07
87 4 0.04
88 91 0.89
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (88 bp):
AATTAATATAATCTTATGATTAAATTATATAAAAATATTTTAAATAATATTAGAAAAATTTAATT
TAAGAATATATTAACAAAATTTC
Found at i:73802 original size:16 final size:16
Alignment explanation
Indices: 73784--73817 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
73774 TAATTTATAA
*
73784 TTTATAAATAATTTAAT
1 TTTA-AAATAAATTAAT
73801 TTTAAAATAAATTAAT
1 TTTAAAATAAATTAAT
73817 T
1 T
73818 AAACTATACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTAAAATAAATTAAT
Found at i:78441 original size:52 final size:53
Alignment explanation
Indices: 78360--78465 Score: 146
Period size: 52 Copynumber: 2.0 Consensus size: 53
78350 TTATATTTAA
*
78360 AAATTATATAAATTAATTAATTTAATTTAAG-A-ATT-ATATAAAATTTAAAT
1 AAATTATATAAATTAATCAATTTAATTTAAGAATATTAATATAAAATTTAAAT
* *
78410 AAATTATAATAATTTAAATCAATTTAATTTAAGAATATTAATATATAATTTAAAT
1 AAATTAT-ATAAATT-AATCAATTTAATTTAAGAATATTAATATAAAATTTAAAT
78465 A
1 A
78466 TTAATATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
50 7 0.15
51 6 0.12
52 16 0.33
53 1 0.02
54 3 0.06
55 15 0.31
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (53 bp):
AAATTATATAAATTAATCAATTTAATTTAAGAATATTAATATAAAATTTAAAT
Found at i:78467 original size:19 final size:19
Alignment explanation
Indices: 78382--78472 Score: 63
Period size: 19 Copynumber: 4.9 Consensus size: 19
78372 TTAATTAATT
78382 TAATTTAAGA-ATT-ATATA
1 TAATTTAA-ATATTAATATA
*
78400 AAATTTAAATA--AATTATAA
1 TAATTTAAATATTAA-TAT-A
*
78419 TAATTT-AA-ATCAAT-T-
1 TAATTTAAATATTAATATA
78434 TAATTTAAGAATATTAATATA
1 TAATTT-A-AATATTAATATA
78455 TAATTTAAATATTAATAT
1 TAATTTAAATATTAATAT
78473 TATTATGGGG
Statistics
Matches: 58, Mismatches: 3, Indels: 23
0.69 0.04 0.27
Matches are distributed among these distances:
15 6 0.10
17 4 0.07
18 16 0.28
19 24 0.41
20 2 0.03
21 6 0.10
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (19 bp):
TAATTTAAATATTAATATA
Found at i:78500 original size:126 final size:129
Alignment explanation
Indices: 78359--78620 Score: 410
Period size: 130 Copynumber: 2.0 Consensus size: 129
78349 ATTATATTTA
78359 AAAATTATATAAATTAATTAATTTAATTTAAG-AATTATAT-AAAAT-TTAAATAAATTATAATA
1 AAAATTATATAAATTAATTAATTTAATTTAAGAAATTATATAAAAATATTAAAT-AATTATAATA
*
78421 ATTTAAATCAATTTAATTTAAG-A-ATATTAATA-TATAATTTAAATATTAATATTATTATGGGG
65 ATTTAAATCAATTTAATTTAAGAATATATTAAAATTATAATTTAAATATTAATATTA-TAT-GGG
78483 GC
128 GC
*
78485 AAAATTATATAAATTAATTAATTTAATTTAAGATAAATTATATAAAAATATTTAATAATTATAAT
1 AAAATTATATAAATTAATTAATTTAATTTAAG--AAATTATATAAAAATATTAAATAATTATAAT
*
78550 AATTTAAATCAATTTAATTTAAGAATATATTAAAATTATAATTTAAATATTATTATTATATGGGG
64 AATTTAAATCAATTTAATTTAAGAATATATTAAAATTATAATTTAAATATTAATATTATATGGGG
78615 C
129 C
78616 AAAAT
1 AAAAT
78621 CCAATTATAG
Statistics
Matches: 125, Mismatches: 3, Indels: 11
0.90 0.02 0.08
Matches are distributed among these distances:
126 32 0.26
129 8 0.06
130 37 0.30
131 16 0.13
132 11 0.09
133 21 0.17
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (129 bp):
AAAATTATATAAATTAATTAATTTAATTTAAGAAATTATATAAAAATATTAAATAATTATAATAA
TTTAAATCAATTTAATTTAAGAATATATTAAAATTATAATTTAAATATTAATATTATATGGGGC
Found at i:82901 original size:15 final size:17
Alignment explanation
Indices: 82877--82913 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
82867 TAATCTGATC
*
82877 CAAATGTAAAAA-AATT
1 CAAATATAAAAATAATT
82893 -AAATATAAAAATAATT
1 CAAATATAAAAATAATT
82909 CAAAT
1 CAAAT
82914 GCATCGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 10 0.56
16 4 0.22
17 4 0.22
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (17 bp):
CAAATATAAAAATAATT
Found at i:84907 original size:26 final size:26
Alignment explanation
Indices: 84878--84932 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
84868 CACAATTCAC
* *
84878 ATCATAATTCAAATCAAACAATGATA
1 ATCATAATCCAAATCAAACAATAATA
* *
84904 ATCATTATCCAAATCAAACATTAATA
1 ATCATAATCCAAATCAAACAATAATA
84930 ATC
1 ATC
84933 CGAGTTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.29
Consensus pattern (26 bp):
ATCATAATCCAAATCAAACAATAATA
Found at i:84997 original size:26 final size:26
Alignment explanation
Indices: 84967--85017 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
84957 TTAAGAATAA
84967 ATTATCCAAATCAAACAATGATAATC
1 ATTATCCAAATCAAACAATGATAATC
*
84993 ATTATCCAAATGAAACAATGATAAT
1 ATTATCCAAATCAAACAATGATAAT
85018 TTAAATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.51, C:0.16, G:0.06, T:0.27
Consensus pattern (26 bp):
ATTATCCAAATCAAACAATGATAATC
Found at i:85647 original size:21 final size:20
Alignment explanation
Indices: 85617--85658 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
85607 TAATTTAAAT
*
85617 TTAATTTAATTTAAGAATTTA
1 TTAATATAATTTAA-AATTTA
*
85638 TTAATATAATTTTAAATTTA
1 TTAATATAATTTAAAATTTA
85658 T
1 T
85659 AATTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAATATAATTTAAAATTTA
Found at i:87247 original size:17 final size:17
Alignment explanation
Indices: 87222--87255 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
87212 AAATTCACAA
*
87222 CATTCAAATAGTAATAG
1 CATTCAAATAATAATAG
*
87239 CATTTAAATAATAATAG
1 CATTCAAATAATAATAG
87256 GATAAAAAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (17 bp):
CATTCAAATAATAATAG
Found at i:88240 original size:49 final size:49
Alignment explanation
Indices: 88168--88265 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
88158 CAAATACATA
88168 GACAAATGATCCACGTTGTTACCTGTATGAAATTCAAAACCAAGAGTAT
1 GACAAATGATCCACGTTGTTACCTGTATGAAATTCAAAACCAAGAGTAT
* *
88217 GACAACTGATCCACGTTGTTACCTGTATGAAATTCAAAACCAATAGTAT
1 GACAAATGATCCACGTTGTTACCTGTATGAAATTCAAAACCAAGAGTAT
88266 AAAGACTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (49 bp):
GACAAATGATCCACGTTGTTACCTGTATGAAATTCAAAACCAAGAGTAT
Found at i:91620 original size:128 final size:129
Alignment explanation
Indices: 91402--91643 Score: 362
Period size: 128 Copynumber: 1.9 Consensus size: 129
91392 AGATACACGT
* * *
91402 ACTACTAGGCCAAATTAAAAAGCGCTATAGGGCATAGAAAAGAAAGAAAAAAAAATGGATTGGAA
1 ACTACTAGGCCAAATTAAAAAGCGC-ATAGGGCATAGAAAAGAAAGAAAAAAAAATAGAATAGAA
*
91467 AAAGAATCAAGAATTGATGTTCTAGCATTAGCTCATAAAGTGTTCTCACCAGTTGAAATAAACAC
65 AAAGAATCAAGAATTGATGTCCTAGCATTAGCTCATAAAGTGTTCTCACCAGTTGAAATAAACAC
** * * *
91532 ACTACTAGGCCAAATTAAAAGAGCG-ATAGGGCATAGAATGGAAGGGAAAAAAACTAGAATAG-A
1 ACTACTAGGCCAAATTAAAA-AGCGCATAGGGCATAGAAAAGAAAGAAAAAAAAATAGAATAGAA
*
91595 AAAGAATCAAGAATTGATGTCCTAGCATTAGTTCATAAAGTGTTCTCAC
65 AAAGAATCAAGAATTGATGTCCTAGCATTAGCTCATAAAGTGTTCTCAC
91644 AGAACTCTCA
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
128 48 0.48
129 29 0.29
130 20 0.20
131 4 0.04
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (129 bp):
ACTACTAGGCCAAATTAAAAAGCGCATAGGGCATAGAAAAGAAAGAAAAAAAAATAGAATAGAAA
AAGAATCAAGAATTGATGTCCTAGCATTAGCTCATAAAGTGTTCTCACCAGTTGAAATAAACAC
Found at i:111217 original size:19 final size:19
Alignment explanation
Indices: 111193--111231 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
111183 GAGGGCTGGA
111193 AACCGGTTTGACCAGTCTG
1 AACCGGTTTGACCAGTCTG
*
111212 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCAGTCTG
111231 A
1 A
111232 CCCGACCCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (19 bp):
AACCGGTTTGACCAGTCTG
Found at i:111269 original size:7 final size:7
Alignment explanation
Indices: 111254--111304 Score: 86
Period size: 7 Copynumber: 7.4 Consensus size: 7
111244 GACCCGACTC
111254 GACCGTT
1 GACCGTT
*
111261 GATCGTT
1 GACCGTT
111268 GACCGTT
1 GACCGTT
111275 GACCG-T
1 GACCGTT
111281 GACCGTT
1 GACCGTT
111288 GACCGTT
1 GACCGTT
111295 GACCGTT
1 GACCGTT
111302 GAC
1 GAC
111305 TTCCTTTGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 6 0.15
7 35 0.85
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.27
Consensus pattern (7 bp):
GACCGTT
Found at i:111289 original size:20 final size:20
Alignment explanation
Indices: 111254--111300 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
111244 GACCCGACTC
*
111254 GACCGTTGATCGTTGACCGTT
1 GACCG-TGACCGTTGACCGTT
111275 GACCGTGACCGTTGACCGTT
1 GACCGTGACCGTTGACCGTT
111295 GACCGT
1 GACCGT
111301 TGACTTCCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.15, C:0.28, G:0.30, T:0.28
Consensus pattern (20 bp):
GACCGTGACCGTTGACCGTT
Found at i:114168 original size:23 final size:23
Alignment explanation
Indices: 114102--114187 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
114092 TCATATAAAT
*
114102 TTGCACCGTAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
114125 TTTGTC-CCGAAG-GACCGCGTAGAA
1 -TTG-CACCGAAGTG-CCACGTAGAA
*
114149 ATGCACCGAAGTGCCACGTAGAA
1 TTGCACCGAAGTGCCACGTAGAA
*
114172 TTGCACCGTAGTGCCA
1 TTGCACCGAAGTGCCA
114188 TATATATGTC
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
22 1 0.02
23 32 0.62
24 18 0.35
25 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
TTGCACCGAAGTGCCACGTAGAA
Found at i:135064 original size:128 final size:128
Alignment explanation
Indices: 134836--135075 Score: 374
Period size: 128 Copynumber: 1.9 Consensus size: 128
134826 TGAGAGTTCT
* * * *
134836 GTGAGAACACTTTATGAACTAATGCTAGGACATCAATTCTTGATTCTTTTCTATTCTAGTTTTTT
1 GTGAGAACACTTTATGAACTAATGCTAGAACATCAATTCTTGATTCTTTTCCAATCCAGTTTTTT
*
134901 TCCCTTCCATTCTATGCCCTATGGCTCTTTTAATTTGGCCTAGTAGTGTGTTTATTTCAACTG
66 TCCCTTCCATTCTATGCCCTATAGCTCTTTTAATTTGGCCTAGTAGTGTGTTTATTTCAACTG
*
134964 GTGAGAACACTTTATGAGCTAATGCTAGAACATCAATTCTTGATTCTTTTCCAATCCA-TTTTTT
1 GTGAGAACACTTTATGAACTAATGCTAGAACATCAATTCTTGATTCTTTTCCAATCCAGTTTTTT
* * **
135028 TTCTTTCTTTTCTATGCCCTATAGCTCTTTTTAATTTGGCCTAGTAGT
66 TCCCTTCCATTCTATGCCCTATAGCTC-TTTTAATTTGGCCTAGTAGT
135076 ACGTGTATCT
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
127 28 0.28
128 73 0.72
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.45
Consensus pattern (128 bp):
GTGAGAACACTTTATGAACTAATGCTAGAACATCAATTCTTGATTCTTTTCCAATCCAGTTTTTT
TCCCTTCCATTCTATGCCCTATAGCTCTTTTAATTTGGCCTAGTAGTGTGTTTATTTCAACTG
Found at i:141435 original size:45 final size:45
Alignment explanation
Indices: 141386--141502 Score: 171
Period size: 45 Copynumber: 2.6 Consensus size: 45
141376 TACCACTTGG
* *
141386 CATTTTGACCTGCATTAAACAATCAAGAATCGAGTACTTTTACGA
1 CATTTTAACCTGCATTAAACAATCAAGAATCGAGTACATTTACGA
* * * * *
141431 CATTTTAACCTGCACTAAACAATCGACAGTCGAGTACATTTATGA
1 CATTTTAACCTGCATTAAACAATCAAGAATCGAGTACATTTACGA
141476 CATTTTAACCTGCATTAAACAATCAAG
1 CATTTTAACCTGCATTAAACAATCAAG
141503 TACATTTACT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (45 bp):
CATTTTAACCTGCATTAAACAATCAAGAATCGAGTACATTTACGA
Found at i:144694 original size:36 final size:36
Alignment explanation
Indices: 144654--144725 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
144644 TCCCACTAAC
144654 TAACCATTTTTAAGGGCTTAATTTCAAGATTTCATA
1 TAACCATTTTTAAGGGCTTAATTTCAAGATTTCATA
144690 TAACCATTTTTAAGGGCTTAATTTCAAGATTTCATA
1 TAACCATTTTTAAGGGCTTAATTTCAAGATTTCATA
144726 GTTTTAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (36 bp):
TAACCATTTTTAAGGGCTTAATTTCAAGATTTCATA
Found at i:154529 original size:228 final size:227
Alignment explanation
Indices: 154128--154575 Score: 783
Period size: 228 Copynumber: 2.0 Consensus size: 227
154118 ATAAATTATC
* * *
154128 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
154193 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
154258 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
154322 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
* *
154355 TATCATTTTTATAAAAGTGTTCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
154420 TTAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 TTAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
154484 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
154549 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
154576 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
227 39 0.19
228 144 0.69
229 27 0.13
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:154664 original size:20 final size:19
Alignment explanation
Indices: 154641--154686 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
154631 CGATATACCA
154641 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
154661 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
154681 GGTAAA
1 GGTAAA
154687 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:154830 original size:20 final size:19
Alignment explanation
Indices: 154807--154853 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
154797 CGATATAACA
154807 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
154827 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
154847 GGTAAAA
1 GGTAAAA
154854 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:154855 original size:17 final size:19
Alignment explanation
Indices: 154816--154858 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
154806 AGGTAAAAAT
154816 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
154836 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
154853 ATGATA
1 ATGATA
154859 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:156909 original size:27 final size:26
Alignment explanation
Indices: 156878--156940 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
156868 TAATATTGTA
**
156878 ATTTAATTTTTTGAAGGTTATTGGTGT
1 ATTTAATTTTTTGAACATTATT-GTGT
* *
156905 ATTT-ATATTTTGAACATTCTTGTGT
1 ATTTAATTTTTTGAACATTATTGTGT
156930 ATTTATATTTT
1 ATTTA-ATTTT
156941 GGTGTGATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 8 0.28
26 13 0.45
27 8 0.28
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (26 bp):
ATTTAATTTTTTGAACATTATTGTGT
Found at i:157837 original size:184 final size:184
Alignment explanation
Indices: 157403--158460 Score: 1994
Period size: 184 Copynumber: 5.8 Consensus size: 184
157393 AATATGTAAA
* * *
157403 TTTGCAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAACCTATATCGAC
1 TTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
*
157468 ACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTT-A
66 ACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAA
157532 AAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAA-
131 AAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAAT
*
157585 TTTGTAATATAACCGGTATAAATATACCGGCTTTATGAGCGAATAGGTCTACAACCTATATCGAC
1 TTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
157650 ACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAA
66 ACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAA
157715 AAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAAT
131 AAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAAT
*
157769 TTTGTAATATAACCGGTATAAATATACCGGTTTTATAAGCGAATAGGTCTACAACCTATATCGAC
1 TTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
*
157834 ACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAA
66 ACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAA
157899 AAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAAT
131 AAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAAT
157953 TTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
1 TTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
158018 ACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAA
66 ACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAA
158083 AAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAAT
131 AAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAAT
*
158137 TTTATAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
1 TTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
*
158202 ACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAA
66 ACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAA
158267 AAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAAT
131 AAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAAT
158321 TTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
1 TTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
* * *
158386 ACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAATAAAAATGTGTCGATACCATTTAA
66 ACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAA
158451 AAAAGTGTCG
131 AAAAGTGTCG
158461 GTAATTTGAA
Statistics
Matches: 857, Mismatches: 17, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
182 123 0.14
183 54 0.06
184 680 0.79
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
TTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGAC
ACTTTATAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAA
AAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGTAATAGATAAT
Found at i:161068 original size:23 final size:23
Alignment explanation
Indices: 161037--161100 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
161027 ATAGGTAAAC
*
161037 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
161060 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
161083 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
161101 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:161107 original size:23 final size:23
Alignment explanation
Indices: 161037--161109 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
161027 ATAGGTAAAC
* **
161037 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
161060 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
161083 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
161106 ATAT
1 ATAT
161110 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:161493 original size:23 final size:23
Alignment explanation
Indices: 161462--161525 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
161452 ATAGGTAAAC
*
161462 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
161485 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
161508 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
161526 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:161532 original size:23 final size:23
Alignment explanation
Indices: 161462--161534 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
161452 ATAGGTAAAC
* **
161462 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
161485 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
161508 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
161531 ATAT
1 ATAT
161535 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:161762 original size:426 final size:424
Alignment explanation
Indices: 160939--161766 Score: 1543
Period size: 426 Copynumber: 1.9 Consensus size: 424
160929 AATTCGCAGT
* *
160939 ACACTGTTAAAAAAATTGAAATATAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAA
1 ACACTGTTAAAAAAATTGAAACATAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAA
161004 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
66 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
161069 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTATAA
131 AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTATAA
161134 AAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
196 AAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
*
161199 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTAA
261 GATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTTACGTTACGATATATATTATTAA
161264 ATTAAAAATTCTAAATAATATTTATAAAATATAAAAACAATCAAATAATTTTTGTACAAATGAAA
326 ATTAAAAATTCTAAATAATATTTATAAAATATAAAAACAATCAAATAATTTTTGTACAAATGAAA
161329 TTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 TTATTAAATCAATATTGTAGGTGGAAAACATGAA
161363 ACACTGTTAAAAAAATTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACAT-AATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATA
161428 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
65 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
161493 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
130 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCC-TTTTAT
*
161558 AAAAGTGTTCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
194 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
161623 AAGATATTAATTTAGTAATTATAGGCGTATAATGATTTA-TTTTTACGTTACGATATATTATTAT
259 AAGATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTTACGTTACGATATA-TATTAT
* * *
161687 TAAATTAAAAATTCTAAATATTATTT-TAAAAATATCAAAACAATCAAATAATTTTTGTGCAAAT
323 TAAATTAAAAATTCTAAATAATATTTAT-AAAATATAAAAACAATCAAATAATTTTTGTACAAAT
161751 GAAATTATTAAATCAA
387 GAAATTATTAAATCAA
161767 ATAATTCAAA
Statistics
Matches: 393, Mismatches: 7, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
424 23 0.06
425 181 0.46
426 189 0.48
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (424 bp):
ACACTGTTAAAAAAATTGAAACATAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAA
AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
AATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTATAA
AAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
GATATTAATTTAGTAATTATAGGCGTATAATGATTTATTTTTTACGTTACGATATATATTATTAA
ATTAAAAATTCTAAATAATATTTATAAAATATAAAAACAATCAAATAATTTTTGTACAAATGAAA
TTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:161832 original size:25 final size:25
Alignment explanation
Indices: 161798--161848 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
161788 ACAACAAATC
*
161798 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
161823 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
161848 A
1 A
161849 TTTGGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:162118 original size:18 final size:18
Alignment explanation
Indices: 162097--162133 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
162087 GTAATTGGAG
162097 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
162115 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
162133 T
1 T
162134 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:162141 original size:24 final size:24
Alignment explanation
Indices: 162089--162135 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
162079 TTTCATATGT
* *
162089 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
162113 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
162136 ATATTTCGGC
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:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:162433 original size:39 final size:39
Alignment explanation
Indices: 162390--162476 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
162380 TCCGATGCTC
*
162390 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
162429 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
162468 ATCAAAATC
1 ATCAAAATC
162477 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:165699 original size:21 final size:22
Alignment explanation
Indices: 165675--165719 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
165665 AGTAAATCAA
*
165675 CAAATGAGTCAAATGACA-CAG
1 CAAATAAGTCAAATGACACCAG
*
165696 CAAATAAGTCCAATGACACCAG
1 CAAATAAGTCAAATGACACCAG
165718 CA
1 CA
165720 GAGGTCAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.47, C:0.24, G:0.16, T:0.13
Consensus pattern (22 bp):
CAAATAAGTCAAATGACACCAG
Found at i:181338 original size:11 final size:11
Alignment explanation
Indices: 181267--181347 Score: 51
Period size: 12 Copynumber: 7.0 Consensus size: 11
181257 TTATAAGACT
181267 ATATAA-TAAA
1 ATATAATTAAA
181277 ATAATAATTAAA
1 AT-ATAATTAAA
* * *
181289 GTAATGATTTAA
1 AT-ATAATTAAA
181301 ATAT-ATTAAAA
1 ATATAATT-AAA
181312 ATAATAATAATAAA
1 AT-ATAAT--TAAA
181326 AT-TAAGTTAAA
1 ATATAA-TTAAA
181337 ATATAATTAAA
1 ATATAATTAAA
181348 CAATGACTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
10 5 0.09
11 21 0.37
12 22 0.39
13 3 0.05
14 5 0.09
15 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
ATATAATTAAA
Found at i:181384 original size:17 final size:17
Alignment explanation
Indices: 181356--181402 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
181346 AACAATGACT
*
181356 AAAATAAATAAAAT-TA
1 AAAAAAAATAAAATGTA
*
181372 AAATAATAATAAAATGTA
1 AAA-AAAAATAAAATGTA
181390 AAAAAAAATAAAA
1 AAAAAAAATAAAA
181403 CTTGTAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 3 0.12
17 18 0.69
18 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAAAAAATAAAATGTA
Done.