Multiple sequence alignment - TraesCS2B01G348000

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS2B01G348000 chr2B 100.000 2970 0 0 1 2970 494859126 494862095 0.000000e+00 5485.0
1 TraesCS2B01G348000 chr2B 79.299 599 72 21 1287 1843 494877343 494877931 3.620000e-99 372.0
2 TraesCS2B01G348000 chr2A 93.583 2774 112 35 243 2970 568482854 568485607 0.000000e+00 4076.0
3 TraesCS2B01G348000 chr2A 78.711 1024 121 47 910 1851 568577907 568578915 7.090000e-166 593.0
4 TraesCS2B01G348000 chr2A 93.151 73 5 0 1 73 568482723 568482795 1.130000e-19 108.0
5 TraesCS2B01G348000 chr2A 98.182 55 0 1 149 202 568482807 568482861 8.760000e-16 95.3
6 TraesCS2B01G348000 chr2D 95.490 1796 70 6 1178 2970 422203114 422204901 0.000000e+00 2857.0
7 TraesCS2B01G348000 chr2D 91.182 1032 46 13 209 1215 422202101 422203112 0.000000e+00 1360.0
8 TraesCS2B01G348000 chr2D 78.843 605 72 23 1287 1851 422324471 422325059 1.010000e-94 357.0
9 TraesCS2B01G348000 chr7B 83.467 623 88 10 2353 2964 609914373 609914991 1.550000e-157 566.0
10 TraesCS2B01G348000 chr7B 82.711 509 73 7 2463 2964 610171034 610171534 3.510000e-119 438.0
11 TraesCS2B01G348000 chr7B 84.018 219 23 7 2138 2354 202165028 202164820 1.810000e-47 200.0
12 TraesCS2B01G348000 chr3D 82.504 623 91 14 2351 2964 362439001 362439614 5.640000e-147 531.0
13 TraesCS2B01G348000 chr3D 74.182 581 130 16 2399 2970 577846871 577846302 1.070000e-54 224.0
14 TraesCS2B01G348000 chr5B 81.210 628 88 18 2355 2970 402745308 402744699 2.070000e-131 479.0
15 TraesCS2B01G348000 chr5A 81.021 627 92 16 2355 2970 443730818 443730208 9.630000e-130 473.0
16 TraesCS2B01G348000 chr3A 79.645 619 105 18 2362 2970 659514375 659514982 2.740000e-115 425.0
17 TraesCS2B01G348000 chr6D 81.404 527 91 5 2353 2874 417900650 417901174 9.840000e-115 424.0
18 TraesCS2B01G348000 chr7D 79.760 583 99 16 2399 2970 154532274 154532848 3.560000e-109 405.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G348000 chr2B 494859126 494862095 2969 False 5485.000000 5485 100.000 1 2970 1 chr2B.!!$F1 2969
1 TraesCS2B01G348000 chr2B 494877343 494877931 588 False 372.000000 372 79.299 1287 1843 1 chr2B.!!$F2 556
2 TraesCS2B01G348000 chr2A 568482723 568485607 2884 False 1426.433333 4076 94.972 1 2970 3 chr2A.!!$F2 2969
3 TraesCS2B01G348000 chr2A 568577907 568578915 1008 False 593.000000 593 78.711 910 1851 1 chr2A.!!$F1 941
4 TraesCS2B01G348000 chr2D 422202101 422204901 2800 False 2108.500000 2857 93.336 209 2970 2 chr2D.!!$F2 2761
5 TraesCS2B01G348000 chr2D 422324471 422325059 588 False 357.000000 357 78.843 1287 1851 1 chr2D.!!$F1 564
6 TraesCS2B01G348000 chr7B 609914373 609914991 618 False 566.000000 566 83.467 2353 2964 1 chr7B.!!$F1 611
7 TraesCS2B01G348000 chr7B 610171034 610171534 500 False 438.000000 438 82.711 2463 2964 1 chr7B.!!$F2 501
8 TraesCS2B01G348000 chr3D 362439001 362439614 613 False 531.000000 531 82.504 2351 2964 1 chr3D.!!$F1 613
9 TraesCS2B01G348000 chr3D 577846302 577846871 569 True 224.000000 224 74.182 2399 2970 1 chr3D.!!$R1 571
10 TraesCS2B01G348000 chr5B 402744699 402745308 609 True 479.000000 479 81.210 2355 2970 1 chr5B.!!$R1 615
11 TraesCS2B01G348000 chr5A 443730208 443730818 610 True 473.000000 473 81.021 2355 2970 1 chr5A.!!$R1 615
12 TraesCS2B01G348000 chr3A 659514375 659514982 607 False 425.000000 425 79.645 2362 2970 1 chr3A.!!$F1 608
13 TraesCS2B01G348000 chr6D 417900650 417901174 524 False 424.000000 424 81.404 2353 2874 1 chr6D.!!$F1 521
14 TraesCS2B01G348000 chr7D 154532274 154532848 574 False 405.000000 405 79.760 2399 2970 1 chr7D.!!$F1 571

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
247 248 0.238289 CCTTAACTTGTGCACCTGCG 59.762 55.0 15.69 2.26 45.83 5.18 F
1199 1295 0.179161 CTGTCTCCACCGATCGACAC 60.179 60.0 18.66 4.08 33.32 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1734 1916 0.481567 ATGGCCAGCTTGGATGCTAT 59.518 50.0 13.05 0.0 40.96 2.97 R
2371 2567 0.551396 CCCAACCAGGTATCTTCCCC 59.449 60.0 0.00 0.0 34.66 4.81 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 2.360852 GGCACTGTGGCAGCATCT 60.361 61.111 27.01 0.00 43.14 2.90
33 34 2.697761 GGCACTGTGGCAGCATCTG 61.698 63.158 27.01 0.00 43.14 2.90
36 37 1.002868 ACTGTGGCAGCATCTGTCC 60.003 57.895 0.00 0.00 34.88 4.02
40 41 2.821366 GGCAGCATCTGTCCACCG 60.821 66.667 0.00 0.00 33.43 4.94
73 74 9.423061 TCGGTAACTTTAGGTGAAAATTACTAC 57.577 33.333 2.60 0.00 0.00 2.73
74 75 9.428097 CGGTAACTTTAGGTGAAAATTACTACT 57.572 33.333 2.60 0.00 0.00 2.57
79 80 8.947115 ACTTTAGGTGAAAATTACTACTCATGC 58.053 33.333 0.00 0.00 0.00 4.06
80 81 8.856153 TTTAGGTGAAAATTACTACTCATGCA 57.144 30.769 0.00 0.00 0.00 3.96
81 82 6.743575 AGGTGAAAATTACTACTCATGCAC 57.256 37.500 0.00 0.00 0.00 4.57
82 83 6.237901 AGGTGAAAATTACTACTCATGCACA 58.762 36.000 0.00 0.00 0.00 4.57
83 84 6.886459 AGGTGAAAATTACTACTCATGCACAT 59.114 34.615 0.00 0.00 0.00 3.21
84 85 7.394359 AGGTGAAAATTACTACTCATGCACATT 59.606 33.333 0.00 0.00 0.00 2.71
85 86 8.028938 GGTGAAAATTACTACTCATGCACATTT 58.971 33.333 0.00 0.00 0.00 2.32
86 87 9.410556 GTGAAAATTACTACTCATGCACATTTT 57.589 29.630 0.00 0.00 0.00 1.82
95 96 8.616076 ACTACTCATGCACATTTTAAATCTAGC 58.384 33.333 0.00 0.00 0.00 3.42
96 97 7.636150 ACTCATGCACATTTTAAATCTAGCT 57.364 32.000 0.00 0.00 0.00 3.32
97 98 8.737168 ACTCATGCACATTTTAAATCTAGCTA 57.263 30.769 0.00 0.00 0.00 3.32
98 99 9.177608 ACTCATGCACATTTTAAATCTAGCTAA 57.822 29.630 0.00 0.00 0.00 3.09
99 100 9.661187 CTCATGCACATTTTAAATCTAGCTAAG 57.339 33.333 0.00 0.00 0.00 2.18
100 101 9.394767 TCATGCACATTTTAAATCTAGCTAAGA 57.605 29.630 0.00 0.00 39.02 2.10
101 102 9.661187 CATGCACATTTTAAATCTAGCTAAGAG 57.339 33.333 0.00 0.00 37.74 2.85
102 103 9.618890 ATGCACATTTTAAATCTAGCTAAGAGA 57.381 29.630 0.00 0.00 37.74 3.10
103 104 9.448438 TGCACATTTTAAATCTAGCTAAGAGAA 57.552 29.630 0.00 0.00 37.74 2.87
129 130 6.702716 ACTCCCTAGTTAAGAGAAAGATCG 57.297 41.667 0.00 0.00 29.00 3.69
130 131 6.424883 ACTCCCTAGTTAAGAGAAAGATCGA 58.575 40.000 0.00 0.00 29.00 3.59
131 132 6.890814 ACTCCCTAGTTAAGAGAAAGATCGAA 59.109 38.462 0.00 0.00 29.00 3.71
132 133 7.562088 ACTCCCTAGTTAAGAGAAAGATCGAAT 59.438 37.037 0.00 0.00 29.00 3.34
133 134 8.307582 TCCCTAGTTAAGAGAAAGATCGAATT 57.692 34.615 0.00 0.00 0.00 2.17
134 135 9.417561 TCCCTAGTTAAGAGAAAGATCGAATTA 57.582 33.333 0.00 0.00 0.00 1.40
135 136 9.465985 CCCTAGTTAAGAGAAAGATCGAATTAC 57.534 37.037 0.00 0.00 0.00 1.89
136 137 9.465985 CCTAGTTAAGAGAAAGATCGAATTACC 57.534 37.037 0.00 0.00 0.00 2.85
137 138 9.465985 CTAGTTAAGAGAAAGATCGAATTACCC 57.534 37.037 0.00 0.00 0.00 3.69
138 139 7.273712 AGTTAAGAGAAAGATCGAATTACCCC 58.726 38.462 0.00 0.00 0.00 4.95
139 140 4.323553 AGAGAAAGATCGAATTACCCCG 57.676 45.455 0.00 0.00 0.00 5.73
140 141 2.801111 GAGAAAGATCGAATTACCCCGC 59.199 50.000 0.00 0.00 0.00 6.13
141 142 2.169769 AGAAAGATCGAATTACCCCGCA 59.830 45.455 0.00 0.00 0.00 5.69
142 143 2.702592 AAGATCGAATTACCCCGCAA 57.297 45.000 0.00 0.00 0.00 4.85
143 144 2.702592 AGATCGAATTACCCCGCAAA 57.297 45.000 0.00 0.00 0.00 3.68
144 145 2.993937 AGATCGAATTACCCCGCAAAA 58.006 42.857 0.00 0.00 0.00 2.44
145 146 3.349022 AGATCGAATTACCCCGCAAAAA 58.651 40.909 0.00 0.00 0.00 1.94
202 203 7.884877 TCAAATTTTGATCTCAGTCCTACACAT 59.115 33.333 7.74 0.00 34.08 3.21
203 204 7.621428 AATTTTGATCTCAGTCCTACACATG 57.379 36.000 0.00 0.00 0.00 3.21
204 205 3.808466 TGATCTCAGTCCTACACATGC 57.192 47.619 0.00 0.00 0.00 4.06
205 206 3.099141 TGATCTCAGTCCTACACATGCA 58.901 45.455 0.00 0.00 0.00 3.96
206 207 3.118992 TGATCTCAGTCCTACACATGCAC 60.119 47.826 0.00 0.00 0.00 4.57
208 209 2.833943 TCTCAGTCCTACACATGCACAT 59.166 45.455 0.00 0.00 0.00 3.21
209 210 4.023291 TCTCAGTCCTACACATGCACATA 58.977 43.478 0.00 0.00 0.00 2.29
210 211 4.115516 CTCAGTCCTACACATGCACATAC 58.884 47.826 0.00 0.00 0.00 2.39
211 212 2.860136 CAGTCCTACACATGCACATACG 59.140 50.000 0.00 0.00 0.00 3.06
212 213 2.159099 AGTCCTACACATGCACATACGG 60.159 50.000 0.00 0.00 0.00 4.02
213 214 0.937304 CCTACACATGCACATACGGC 59.063 55.000 0.00 0.00 0.00 5.68
214 215 1.473257 CCTACACATGCACATACGGCT 60.473 52.381 0.00 0.00 0.00 5.52
215 216 2.279741 CTACACATGCACATACGGCTT 58.720 47.619 0.00 0.00 0.00 4.35
220 221 3.312146 CACATGCACATACGGCTTAATGA 59.688 43.478 0.00 0.00 0.00 2.57
227 228 5.670097 CACATACGGCTTAATGAAGAATCG 58.330 41.667 0.00 0.00 34.25 3.34
238 239 7.626452 GCTTAATGAAGAATCGCCTTAACTTGT 60.626 37.037 0.00 0.00 34.25 3.16
247 248 0.238289 CCTTAACTTGTGCACCTGCG 59.762 55.000 15.69 2.26 45.83 5.18
258 259 4.539083 ACCTGCGCACCACAACGA 62.539 61.111 5.66 0.00 0.00 3.85
305 306 8.431593 GCTTCAGAATTCAGATCGATATGTAAC 58.568 37.037 18.85 8.93 0.00 2.50
379 380 1.412343 TGCCAGGAAAAAGAAAGGTGC 59.588 47.619 0.00 0.00 0.00 5.01
387 389 1.892209 AAAGAAAGGTGCTACACGGG 58.108 50.000 0.00 0.00 34.83 5.28
436 438 6.929606 AGATTCGAAGCACTAAAAACTACTGT 59.070 34.615 16.78 0.00 0.00 3.55
527 531 1.747745 GATTTTACTGCGCCGGGGT 60.748 57.895 20.83 2.56 0.00 4.95
669 690 3.204526 AGTAGTAGTAGCTAGGCACACG 58.795 50.000 0.00 0.00 0.00 4.49
749 773 2.099921 TCAGCGAAGAGTGAGATTAGCC 59.900 50.000 0.00 0.00 0.00 3.93
785 809 4.272489 TCTTGGATGCTTTGGGTTGATAG 58.728 43.478 0.00 0.00 0.00 2.08
786 810 4.018506 TCTTGGATGCTTTGGGTTGATAGA 60.019 41.667 0.00 0.00 0.00 1.98
845 871 2.038975 AAGTCCTGCTCCGGCCTA 59.961 61.111 0.00 0.00 37.74 3.93
941 967 4.694509 GCTTTGACTGCATATCTATCCCTG 59.305 45.833 0.00 0.00 0.00 4.45
956 994 0.399949 CCCTGGACCCCATACTAGCA 60.400 60.000 0.00 0.00 30.82 3.49
957 995 1.507140 CCTGGACCCCATACTAGCAA 58.493 55.000 0.00 0.00 30.82 3.91
989 1029 4.357325 TGGCCATTGCTTTCCCTATAAAA 58.643 39.130 0.00 0.00 37.74 1.52
1002 1042 8.950007 TTTCCCTATAAAATCTCAACAAACCT 57.050 30.769 0.00 0.00 0.00 3.50
1083 1135 1.164662 CCATGAGCCGCAGAAGGATG 61.165 60.000 0.00 0.00 0.00 3.51
1199 1295 0.179161 CTGTCTCCACCGATCGACAC 60.179 60.000 18.66 4.08 33.32 3.67
1215 1311 6.740453 CGATCGACACATCTCTATCTGTATTG 59.260 42.308 10.26 0.00 0.00 1.90
1281 1388 1.201414 CCCTTGTTAAATCGTGGCACC 59.799 52.381 12.86 0.00 0.00 5.01
1483 1610 2.763448 GACATGCTGAGGAAGGACTACT 59.237 50.000 0.00 0.00 0.00 2.57
1880 2065 9.940166 TTGTACTATATGTATGTCAGTGTTACG 57.060 33.333 0.00 0.00 33.23 3.18
1930 2126 5.687285 GGATTTTAGCAAGAAAGTGTGTGTG 59.313 40.000 0.00 0.00 0.00 3.82
1931 2127 4.630894 TTTAGCAAGAAAGTGTGTGTGG 57.369 40.909 0.00 0.00 0.00 4.17
2153 2349 2.092914 CCTCGAGGTGGGCTAGATTTTT 60.093 50.000 24.04 0.00 0.00 1.94
2154 2350 3.134081 CCTCGAGGTGGGCTAGATTTTTA 59.866 47.826 24.04 0.00 0.00 1.52
2155 2351 4.202367 CCTCGAGGTGGGCTAGATTTTTAT 60.202 45.833 24.04 0.00 0.00 1.40
2188 2384 9.569122 AATATCCAAAACAGTTAACAGTGTACT 57.431 29.630 8.61 0.00 35.31 2.73
2208 2404 8.410912 GTGTACTGATAAAAGTTTTCCCAAAGT 58.589 33.333 3.60 5.87 0.00 2.66
2289 2485 3.244033 AGAGCAACAAGAGGAAGATCG 57.756 47.619 0.00 0.00 0.00 3.69
2371 2567 2.393764 GTGGCCAATCGACAAGTTTTG 58.606 47.619 7.24 0.00 0.00 2.44
2627 2840 3.146066 TGGTGCATTTACTGTGAAGTCC 58.854 45.455 0.00 0.00 0.00 3.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 1.302752 GTGGACAGATGCTGCCACA 60.303 57.895 23.54 8.39 46.94 4.17
32 33 3.445687 CGATCGACCCGGTGGACA 61.446 66.667 10.26 0.00 34.81 4.02
33 34 4.203076 CCGATCGACCCGGTGGAC 62.203 72.222 18.66 0.00 41.91 4.02
40 41 2.428530 ACCTAAAGTTACCGATCGACCC 59.571 50.000 18.66 1.14 0.00 4.46
73 74 9.661187 CTTAGCTAGATTTAAAATGTGCATGAG 57.339 33.333 0.00 0.00 0.00 2.90
74 75 9.394767 TCTTAGCTAGATTTAAAATGTGCATGA 57.605 29.630 0.00 0.00 0.00 3.07
75 76 9.661187 CTCTTAGCTAGATTTAAAATGTGCATG 57.339 33.333 0.00 0.00 30.92 4.06
77 78 9.448438 TTCTCTTAGCTAGATTTAAAATGTGCA 57.552 29.630 0.00 0.00 30.92 4.57
86 87 9.884814 AGGGAGTAATTCTCTTAGCTAGATTTA 57.115 33.333 0.00 0.00 42.40 1.40
87 88 8.791298 AGGGAGTAATTCTCTTAGCTAGATTT 57.209 34.615 0.00 0.00 42.40 2.17
88 89 9.528489 CTAGGGAGTAATTCTCTTAGCTAGATT 57.472 37.037 0.00 0.00 42.40 2.40
89 90 8.675096 ACTAGGGAGTAATTCTCTTAGCTAGAT 58.325 37.037 0.00 0.00 42.40 1.98
90 91 8.048016 ACTAGGGAGTAATTCTCTTAGCTAGA 57.952 38.462 0.00 0.00 42.40 2.43
91 92 8.700439 AACTAGGGAGTAATTCTCTTAGCTAG 57.300 38.462 0.00 0.00 42.40 3.42
93 94 9.138596 CTTAACTAGGGAGTAATTCTCTTAGCT 57.861 37.037 0.00 0.00 42.40 3.32
94 95 9.134055 TCTTAACTAGGGAGTAATTCTCTTAGC 57.866 37.037 0.00 0.00 42.40 3.09
97 98 9.771140 TTCTCTTAACTAGGGAGTAATTCTCTT 57.229 33.333 0.00 0.00 42.40 2.85
98 99 9.771140 TTTCTCTTAACTAGGGAGTAATTCTCT 57.229 33.333 0.00 0.00 42.40 3.10
100 101 9.771140 TCTTTCTCTTAACTAGGGAGTAATTCT 57.229 33.333 0.00 0.00 34.01 2.40
103 104 8.852135 CGATCTTTCTCTTAACTAGGGAGTAAT 58.148 37.037 0.00 0.00 34.01 1.89
104 105 8.051535 TCGATCTTTCTCTTAACTAGGGAGTAA 58.948 37.037 0.00 0.00 34.01 2.24
105 106 7.571919 TCGATCTTTCTCTTAACTAGGGAGTA 58.428 38.462 0.00 0.00 34.01 2.59
106 107 6.424883 TCGATCTTTCTCTTAACTAGGGAGT 58.575 40.000 0.00 0.00 34.01 3.85
107 108 6.945938 TCGATCTTTCTCTTAACTAGGGAG 57.054 41.667 0.00 0.00 34.01 4.30
108 109 7.899648 ATTCGATCTTTCTCTTAACTAGGGA 57.100 36.000 0.00 0.00 0.00 4.20
109 110 9.465985 GTAATTCGATCTTTCTCTTAACTAGGG 57.534 37.037 0.00 0.00 0.00 3.53
110 111 9.465985 GGTAATTCGATCTTTCTCTTAACTAGG 57.534 37.037 0.00 0.00 0.00 3.02
142 143 6.402658 GCCGATTCGATCTTTCTCTTCTTTTT 60.403 38.462 7.83 0.00 0.00 1.94
143 144 5.064071 GCCGATTCGATCTTTCTCTTCTTTT 59.936 40.000 7.83 0.00 0.00 2.27
144 145 4.568760 GCCGATTCGATCTTTCTCTTCTTT 59.431 41.667 7.83 0.00 0.00 2.52
145 146 4.116238 GCCGATTCGATCTTTCTCTTCTT 58.884 43.478 7.83 0.00 0.00 2.52
146 147 3.712187 GCCGATTCGATCTTTCTCTTCT 58.288 45.455 7.83 0.00 0.00 2.85
147 148 2.469516 CGCCGATTCGATCTTTCTCTTC 59.530 50.000 7.83 0.00 0.00 2.87
148 149 2.159226 ACGCCGATTCGATCTTTCTCTT 60.159 45.455 7.83 0.00 0.00 2.85
149 150 1.405821 ACGCCGATTCGATCTTTCTCT 59.594 47.619 7.83 0.00 0.00 3.10
150 151 1.518929 CACGCCGATTCGATCTTTCTC 59.481 52.381 7.83 0.00 0.00 2.87
151 152 1.134367 TCACGCCGATTCGATCTTTCT 59.866 47.619 7.83 0.00 0.00 2.52
152 153 1.518929 CTCACGCCGATTCGATCTTTC 59.481 52.381 7.83 0.00 0.00 2.62
153 154 1.560923 CTCACGCCGATTCGATCTTT 58.439 50.000 7.83 0.00 0.00 2.52
154 155 0.249073 CCTCACGCCGATTCGATCTT 60.249 55.000 7.83 0.00 0.00 2.40
155 156 1.360551 CCTCACGCCGATTCGATCT 59.639 57.895 7.83 0.00 0.00 2.75
156 157 1.661821 CCCTCACGCCGATTCGATC 60.662 63.158 7.83 0.00 0.00 3.69
157 158 2.417516 CCCTCACGCCGATTCGAT 59.582 61.111 7.83 0.00 0.00 3.59
158 159 3.833645 CCCCTCACGCCGATTCGA 61.834 66.667 7.83 0.00 0.00 3.71
202 203 3.867857 TCTTCATTAAGCCGTATGTGCA 58.132 40.909 0.00 0.00 32.36 4.57
203 204 4.875544 TTCTTCATTAAGCCGTATGTGC 57.124 40.909 0.00 0.00 32.36 4.57
204 205 5.670097 CGATTCTTCATTAAGCCGTATGTG 58.330 41.667 0.00 0.00 32.36 3.21
205 206 4.211374 GCGATTCTTCATTAAGCCGTATGT 59.789 41.667 0.00 0.00 32.36 2.29
206 207 4.377431 GGCGATTCTTCATTAAGCCGTATG 60.377 45.833 0.00 0.00 33.43 2.39
208 209 3.128349 GGCGATTCTTCATTAAGCCGTA 58.872 45.455 0.00 0.00 33.43 4.02
209 210 1.940613 GGCGATTCTTCATTAAGCCGT 59.059 47.619 0.00 0.00 33.43 5.68
210 211 2.213499 AGGCGATTCTTCATTAAGCCG 58.787 47.619 0.00 0.00 46.83 5.52
211 212 5.297029 AGTTAAGGCGATTCTTCATTAAGCC 59.703 40.000 0.00 0.00 43.07 4.35
212 213 6.364945 AGTTAAGGCGATTCTTCATTAAGC 57.635 37.500 0.00 0.00 32.36 3.09
213 214 7.693951 CACAAGTTAAGGCGATTCTTCATTAAG 59.306 37.037 0.00 0.00 0.00 1.85
214 215 7.526608 CACAAGTTAAGGCGATTCTTCATTAA 58.473 34.615 0.00 0.00 0.00 1.40
215 216 6.403200 GCACAAGTTAAGGCGATTCTTCATTA 60.403 38.462 0.00 0.00 0.00 1.90
220 221 3.058224 GTGCACAAGTTAAGGCGATTCTT 60.058 43.478 13.17 0.00 0.00 2.52
227 228 0.039165 GCAGGTGCACAAGTTAAGGC 60.039 55.000 20.43 5.90 41.59 4.35
250 251 1.801309 AAATTGGCCGGTCGTTGTGG 61.801 55.000 0.00 0.00 0.00 4.17
258 259 1.480789 GTCCCATAAAATTGGCCGGT 58.519 50.000 1.90 0.00 35.29 5.28
279 280 8.431593 GTTACATATCGATCTGAATTCTGAAGC 58.568 37.037 17.62 12.11 0.00 3.86
305 306 5.530171 ACAAGTTCAGGATATATGCTGCAAG 59.470 40.000 25.02 15.90 44.68 4.01
379 380 2.767505 GATCTATTTGGGCCCGTGTAG 58.232 52.381 19.37 17.85 0.00 2.74
387 389 3.385577 GTGAGAGTCGATCTATTTGGGC 58.614 50.000 0.00 0.00 38.84 5.36
527 531 3.474693 TCGTCGACGACACATTATCAA 57.525 42.857 34.97 10.04 44.22 2.57
589 593 2.516906 TGATGTCTTGCAAATCCAGCA 58.483 42.857 0.00 3.56 40.85 4.41
749 773 0.879765 CCAAGAGCAAGAGCACAAGG 59.120 55.000 0.00 0.00 45.49 3.61
785 809 4.730949 TGTGCCTGGTAAGTGTATACTC 57.269 45.455 4.17 0.09 35.69 2.59
786 810 4.323257 GGTTGTGCCTGGTAAGTGTATACT 60.323 45.833 4.17 0.00 39.32 2.12
845 871 3.851458 AGTCTTGTTTAACGAACCCCT 57.149 42.857 0.00 0.00 37.45 4.79
941 967 4.765813 TTTAGTTGCTAGTATGGGGTCC 57.234 45.455 0.00 0.00 0.00 4.46
956 994 2.965147 AGCAATGGCCAGTGTTTTAGTT 59.035 40.909 31.82 5.80 42.56 2.24
957 995 2.597455 AGCAATGGCCAGTGTTTTAGT 58.403 42.857 31.82 9.36 42.56 2.24
989 1029 3.117512 ACAGGGTTGAGGTTTGTTGAGAT 60.118 43.478 0.00 0.00 0.00 2.75
1002 1042 3.583228 TGAAGAGAAGGTACAGGGTTGA 58.417 45.455 0.00 0.00 0.00 3.18
1083 1135 1.233285 CCACAAGGACTGCACTGCTC 61.233 60.000 1.98 0.00 36.89 4.26
1215 1311 7.425606 CAACAAACAGGGGAAATATATACAGC 58.574 38.462 0.00 0.00 0.00 4.40
1281 1388 0.529337 CCGCCACTGCAGAGATAGTG 60.529 60.000 23.35 7.70 42.97 2.74
1336 1451 4.666253 AACCACATGCTGCCGGCT 62.666 61.111 29.70 3.37 42.39 5.52
1483 1610 2.599578 GCCCCTCGCCCTATACGA 60.600 66.667 0.00 0.00 38.02 3.43
1533 1660 3.744530 CGGGTCTGATTTAGGGTTCATCC 60.745 52.174 0.00 0.00 0.00 3.51
1734 1916 0.481567 ATGGCCAGCTTGGATGCTAT 59.518 50.000 13.05 0.00 40.96 2.97
1880 2065 3.432933 CAGCCACATGTAAATTGCCAAAC 59.567 43.478 0.00 0.00 0.00 2.93
1930 2126 3.950395 AGCAAAATAAGCTGAGGATGTCC 59.050 43.478 0.00 0.00 41.61 4.02
2086 2282 1.884075 TTCACACGGTAGGCGAGCAT 61.884 55.000 0.00 0.00 0.00 3.79
2087 2283 2.486636 CTTCACACGGTAGGCGAGCA 62.487 60.000 0.00 0.00 0.00 4.26
2188 2384 9.825109 CCTTTTACTTTGGGAAAACTTTTATCA 57.175 29.630 0.00 0.00 0.00 2.15
2289 2485 1.602920 CCAAAAAGGCTTCCTTGCGTC 60.603 52.381 13.75 0.00 43.92 5.19
2371 2567 0.551396 CCCAACCAGGTATCTTCCCC 59.449 60.000 0.00 0.00 34.66 4.81
2430 2631 6.039382 GCCACCGAATCCTCTTTTATAAACAT 59.961 38.462 0.00 0.00 0.00 2.71
2627 2840 3.323751 TCCATCAGATCCGCATACATG 57.676 47.619 0.00 0.00 0.00 3.21
2838 3063 6.073440 GCGAGAACAAGGTACTAAATTGACAA 60.073 38.462 0.00 0.00 38.49 3.18
2855 3081 1.725641 ATGAATTGAGCGCGAGAACA 58.274 45.000 12.10 0.00 0.00 3.18


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.