Multiple sequence alignment - TraesCS3A01G461300

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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 TraesCS3A01G461300 chr3A 100.000 5164 0 0 1 5164 697274541 697279704 0.000000e+00 9537
1 TraesCS3A01G461300 chr3A 82.899 2339 310 48 2782 5068 697373974 697376274 0.000000e+00 2021
2 TraesCS3A01G461300 chr3A 80.353 2382 381 58 2428 4765 697261216 697263554 0.000000e+00 1725
3 TraesCS3A01G461300 chr3A 83.000 900 125 15 373 1254 697371096 697371985 0.000000e+00 789
4 TraesCS3A01G461300 chr3A 100.000 157 0 0 5564 5720 697280104 697280260 2.020000e-74 291
5 TraesCS3A01G461300 chr3B 94.839 4805 197 17 1 4765 748450770 748455563 0.000000e+00 7452
6 TraesCS3A01G461300 chr3B 93.999 3116 148 13 256 3348 748411439 748414538 0.000000e+00 4682
7 TraesCS3A01G461300 chr3B 81.168 2825 394 75 2312 5068 748614576 748617330 0.000000e+00 2143
8 TraesCS3A01G461300 chr3B 79.815 2378 395 56 2421 4765 747834479 747836804 0.000000e+00 1653
9 TraesCS3A01G461300 chr3B 79.747 2375 402 51 2421 4765 747822003 747824328 0.000000e+00 1648
10 TraesCS3A01G461300 chr3B 84.017 1439 211 15 3339 4765 748414602 748416033 0.000000e+00 1365
11 TraesCS3A01G461300 chr3B 93.182 396 11 3 4766 5161 748455612 748455991 8.320000e-158 568
12 TraesCS3A01G461300 chr3B 87.387 222 10 7 1 205 748411217 748411437 7.410000e-59 239
13 TraesCS3A01G461300 chr3B 94.891 137 2 1 5589 5720 748456001 748456137 5.810000e-50 209
14 TraesCS3A01G461300 chr3B 77.714 350 50 9 594 915 748610875 748611224 7.570000e-44 189
15 TraesCS3A01G461300 chr3D 92.438 1653 104 7 3428 5068 561444134 561445777 0.000000e+00 2340
16 TraesCS3A01G461300 chr3D 79.957 2300 354 72 2421 4665 561155270 561157517 0.000000e+00 1594
17 TraesCS3A01G461300 chr3D 80.463 2160 344 39 2633 4765 561375381 561377489 0.000000e+00 1580
18 TraesCS3A01G461300 chr3D 80.423 2130 341 53 2569 4665 561171805 561173891 0.000000e+00 1554
19 TraesCS3A01G461300 chr3D 94.382 89 1 1 1 85 561437341 561437429 3.600000e-27 134
20 TraesCS3A01G461300 chr6D 78.945 2579 431 65 2211 4724 427482683 427485214 0.000000e+00 1652
21 TraesCS3A01G461300 chr6D 77.757 1061 189 29 856 1892 120648720 120649757 4.900000e-170 608
22 TraesCS3A01G461300 chr6D 76.289 485 88 15 2211 2673 120650000 120650479 3.450000e-57 233
23 TraesCS3A01G461300 chr6B 81.285 1603 261 27 3149 4724 643264124 643265714 0.000000e+00 1262
24 TraesCS3A01G461300 chr6B 75.696 1078 205 38 865 1922 212628987 212627947 2.400000e-133 486
25 TraesCS3A01G461300 chr6B 75.644 505 88 20 2211 2692 212627681 212627189 9.650000e-53 219
26 TraesCS3A01G461300 chr5D 78.997 1795 320 43 3005 4765 355203507 355205278 0.000000e+00 1173
27 TraesCS3A01G461300 chr5A 73.695 498 107 16 1734 2214 705093066 705093556 7.620000e-39 172
28 TraesCS3A01G461300 chr5A 75.494 253 40 14 1975 2214 705072005 705072248 2.820000e-18 104
29 TraesCS3A01G461300 chr5A 75.494 253 40 14 1975 2214 705085845 705086088 2.820000e-18 104
30 TraesCS3A01G461300 chr7D 77.033 209 29 13 2013 2207 127217751 127217954 1.010000e-17 102


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 TraesCS3A01G461300 chr3A 697274541 697280260 5719 False 4914.000000 9537 100.000000 1 5720 2 chr3A.!!$F2 5719
1 TraesCS3A01G461300 chr3A 697261216 697263554 2338 False 1725.000000 1725 80.353000 2428 4765 1 chr3A.!!$F1 2337
2 TraesCS3A01G461300 chr3A 697371096 697376274 5178 False 1405.000000 2021 82.949500 373 5068 2 chr3A.!!$F3 4695
3 TraesCS3A01G461300 chr3B 748450770 748456137 5367 False 2743.000000 7452 94.304000 1 5720 3 chr3B.!!$F4 5719
4 TraesCS3A01G461300 chr3B 748411217 748416033 4816 False 2095.333333 4682 88.467667 1 4765 3 chr3B.!!$F3 4764
5 TraesCS3A01G461300 chr3B 747834479 747836804 2325 False 1653.000000 1653 79.815000 2421 4765 1 chr3B.!!$F2 2344
6 TraesCS3A01G461300 chr3B 747822003 747824328 2325 False 1648.000000 1648 79.747000 2421 4765 1 chr3B.!!$F1 2344
7 TraesCS3A01G461300 chr3B 748610875 748617330 6455 False 1166.000000 2143 79.441000 594 5068 2 chr3B.!!$F5 4474
8 TraesCS3A01G461300 chr3D 561444134 561445777 1643 False 2340.000000 2340 92.438000 3428 5068 1 chr3D.!!$F5 1640
9 TraesCS3A01G461300 chr3D 561155270 561157517 2247 False 1594.000000 1594 79.957000 2421 4665 1 chr3D.!!$F1 2244
10 TraesCS3A01G461300 chr3D 561375381 561377489 2108 False 1580.000000 1580 80.463000 2633 4765 1 chr3D.!!$F3 2132
11 TraesCS3A01G461300 chr3D 561171805 561173891 2086 False 1554.000000 1554 80.423000 2569 4665 1 chr3D.!!$F2 2096
12 TraesCS3A01G461300 chr6D 427482683 427485214 2531 False 1652.000000 1652 78.945000 2211 4724 1 chr6D.!!$F1 2513
13 TraesCS3A01G461300 chr6D 120648720 120650479 1759 False 420.500000 608 77.023000 856 2673 2 chr6D.!!$F2 1817
14 TraesCS3A01G461300 chr6B 643264124 643265714 1590 False 1262.000000 1262 81.285000 3149 4724 1 chr6B.!!$F1 1575
15 TraesCS3A01G461300 chr6B 212627189 212628987 1798 True 352.500000 486 75.670000 865 2692 2 chr6B.!!$R1 1827
16 TraesCS3A01G461300 chr5D 355203507 355205278 1771 False 1173.000000 1173 78.997000 3005 4765 1 chr5D.!!$F1 1760

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
889 2281 0.453390 GCTAGCCATGCCTTGTTGTC 59.547 55.000 2.29 0.0 0.00 3.18 F
1341 2774 0.539986 CTGCGCCCCCTTTAGAGTTA 59.460 55.000 4.18 0.0 0.00 2.24 F
1411 2847 2.236146 CTGGTGATACACAGCCCAACTA 59.764 50.000 0.00 0.0 45.18 2.24 F
3336 5574 1.076549 TTCCCATGGAAAAGGCGCT 59.923 52.632 15.22 0.0 38.93 5.92 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2692 4902 3.688185 TCTCTTCATGCTGCTTTCATGAC 59.312 43.478 13.09 0.0 46.84 3.06 R
3194 5431 5.144692 TCTTCTTGTCCTTCTCTGACATG 57.855 43.478 0.00 0.0 41.99 3.21 R
3496 5826 9.778993 CAGTGTCCTTACATCAAATTAAATCAG 57.221 33.333 0.00 0.0 38.08 2.90 R
5021 7422 1.810151 GCCCGCTGAACAGAATTTACA 59.190 47.619 5.97 0.0 0.00 2.41 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
79 84 5.930837 ACTCCTTTGAACAAACATGGAAA 57.069 34.783 0.00 0.00 0.00 3.13
87 92 5.574082 TGAACAAACATGGAAAGTAACACG 58.426 37.500 0.00 0.00 0.00 4.49
165 183 9.330063 CATATTTCTTACTTATCTGGCACTTCA 57.670 33.333 0.00 0.00 0.00 3.02
173 191 1.112916 TCTGGCACTTCACCTCGTGA 61.113 55.000 0.00 0.00 41.09 4.35
213 231 6.442513 AATTTAGACTGCAGATTACCTTGC 57.557 37.500 23.35 0.00 0.00 4.01
219 237 4.455606 ACTGCAGATTACCTTGCTTATCC 58.544 43.478 23.35 0.00 0.00 2.59
246 264 4.409570 GTGCAAGCATCATCAAGTTGTAG 58.590 43.478 2.11 0.00 0.00 2.74
254 272 5.295292 GCATCATCAAGTTGTAGTGCACTAT 59.705 40.000 28.37 10.80 0.00 2.12
421 441 7.815068 ACTATCATTCCTATAAATCGAGCACAC 59.185 37.037 0.00 0.00 0.00 3.82
458 478 6.939163 AGGCATCCTTATAACTTCAAGCTATG 59.061 38.462 0.00 0.00 0.00 2.23
501 521 5.511729 GTGCATATTTTTACCACTTTCGCTC 59.488 40.000 0.00 0.00 0.00 5.03
513 533 4.083110 CCACTTTCGCTCATTGTCTTGATT 60.083 41.667 0.00 0.00 0.00 2.57
536 556 2.167075 GACAATGCTGGAGGGGATTTTG 59.833 50.000 0.00 0.00 0.00 2.44
632 2009 6.428159 AGTTTCACGCTAGAGATTTCAATTGT 59.572 34.615 5.13 0.00 0.00 2.71
656 2033 7.656948 TGTGATATCTTGCGATTCATGTGATAA 59.343 33.333 3.98 0.00 0.00 1.75
791 2183 0.904865 AAGTGATGGTGAGGCTCCGA 60.905 55.000 12.86 0.98 0.00 4.55
889 2281 0.453390 GCTAGCCATGCCTTGTTGTC 59.547 55.000 2.29 0.00 0.00 3.18
895 2287 3.770933 AGCCATGCCTTGTTGTCATTAAT 59.229 39.130 0.00 0.00 0.00 1.40
896 2288 4.223477 AGCCATGCCTTGTTGTCATTAATT 59.777 37.500 0.00 0.00 0.00 1.40
897 2289 5.421693 AGCCATGCCTTGTTGTCATTAATTA 59.578 36.000 0.00 0.00 0.00 1.40
898 2290 6.070881 AGCCATGCCTTGTTGTCATTAATTAA 60.071 34.615 0.00 0.00 0.00 1.40
903 2295 7.771183 TGCCTTGTTGTCATTAATTAAGATCC 58.229 34.615 3.94 0.00 0.00 3.36
958 2350 3.117663 GGGTTCTAATGGATGGGCTAACA 60.118 47.826 0.00 0.00 0.00 2.41
1174 2566 4.846137 GCATTGCTTGAACTACTGTTAACG 59.154 41.667 0.16 0.00 36.39 3.18
1263 2687 5.105997 GCAAGGATCATATGTTAGGATTGGC 60.106 44.000 1.90 0.00 28.00 4.52
1341 2774 0.539986 CTGCGCCCCCTTTAGAGTTA 59.460 55.000 4.18 0.00 0.00 2.24
1356 2789 9.613428 CCTTTAGAGTTAAACATGGTGATGATA 57.387 33.333 0.00 0.00 33.36 2.15
1411 2847 2.236146 CTGGTGATACACAGCCCAACTA 59.764 50.000 0.00 0.00 45.18 2.24
1676 3116 8.781196 GTGTACGAGTTAATATAGGATGTGAGA 58.219 37.037 0.00 0.00 0.00 3.27
1721 3161 6.321181 TGCCTTCTTCAAAGTAATCAAACAGT 59.679 34.615 0.00 0.00 0.00 3.55
1933 3835 6.653020 ACAAGAGAAGATATACACATGCCAA 58.347 36.000 0.00 0.00 0.00 4.52
1956 3858 9.912634 CCAAATGAGCTTTAACTTGAAGAAATA 57.087 29.630 0.00 0.00 0.00 1.40
2181 4285 5.186198 CGTAGAATCAAAGGAGGTTGGAAT 58.814 41.667 0.00 0.00 0.00 3.01
2303 4461 2.350522 CATCAAAGTTCCCACCGAGAG 58.649 52.381 0.00 0.00 0.00 3.20
2310 4471 2.498078 AGTTCCCACCGAGAGAAATCTC 59.502 50.000 2.10 2.10 43.17 2.75
2321 4484 5.519566 CCGAGAGAAATCTCAAGATCAACAG 59.480 44.000 12.65 0.00 45.21 3.16
2383 4550 8.646004 CCTAGATGTTCAGAGAGAAATGGATAA 58.354 37.037 0.00 0.00 38.13 1.75
2692 4902 6.813649 TCCATCGATCTGTCTTTAACTTTCTG 59.186 38.462 0.00 0.00 0.00 3.02
2743 4954 7.604164 AGAGAACTGTGTTTCACCACTATTATG 59.396 37.037 0.00 0.00 36.30 1.90
2744 4955 5.880054 ACTGTGTTTCACCACTATTATGC 57.120 39.130 0.00 0.00 36.30 3.14
2745 4956 5.312895 ACTGTGTTTCACCACTATTATGCA 58.687 37.500 0.00 0.00 36.30 3.96
2746 4957 5.767665 ACTGTGTTTCACCACTATTATGCAA 59.232 36.000 0.00 0.00 36.30 4.08
2747 4958 6.434028 ACTGTGTTTCACCACTATTATGCAAT 59.566 34.615 0.00 0.00 36.30 3.56
3046 5279 6.093617 TCATTTATTAGTTTTAGGGCCCCA 57.906 37.500 21.43 0.00 0.00 4.96
3194 5431 8.424731 CCTTTTGTGCAGAATTTTATACGAAAC 58.575 33.333 0.00 0.00 0.00 2.78
3336 5574 1.076549 TTCCCATGGAAAAGGCGCT 59.923 52.632 15.22 0.00 38.93 5.92
3477 5806 7.523293 TTGTGGTCTGATGTACATTTGAATT 57.477 32.000 10.30 0.00 0.00 2.17
3556 5893 6.604735 ACATTTCGCAGGTTATGAATAGAC 57.395 37.500 0.00 0.00 0.00 2.59
3725 6063 2.109774 TGGATTTAGCCTGCCCAATTG 58.890 47.619 0.00 0.00 0.00 2.32
3762 6106 7.653311 CCAGTGGACAGAAAAATTCCTAAAAAG 59.347 37.037 1.68 0.00 0.00 2.27
3865 6209 5.368145 TGTATGGCATTGAACCTGAGTATC 58.632 41.667 4.78 0.00 0.00 2.24
4017 6361 2.449518 TGGCCTTCCTGGGACACA 60.450 61.111 3.32 0.00 39.88 3.72
4249 6599 1.415672 GGACCACACAAGGGGACTCA 61.416 60.000 0.00 0.00 42.68 3.41
4449 6799 5.106515 GGTTTCTGTTGAGATAGACAAAGCC 60.107 44.000 0.00 0.00 0.00 4.35
4468 6819 2.685388 GCCAGTAAGAGGATTTTCAGGC 59.315 50.000 0.00 0.00 0.00 4.85
4790 7191 7.766283 TGTGTTTAAACATTGAGTTGATGTGA 58.234 30.769 23.11 0.00 41.19 3.58
4791 7192 8.412456 TGTGTTTAAACATTGAGTTGATGTGAT 58.588 29.630 23.11 0.00 41.19 3.06
4792 7193 8.693504 GTGTTTAAACATTGAGTTGATGTGATG 58.306 33.333 23.11 0.00 41.19 3.07
4793 7194 8.412456 TGTTTAAACATTGAGTTGATGTGATGT 58.588 29.630 17.01 0.00 41.19 3.06
4794 7195 8.693504 GTTTAAACATTGAGTTGATGTGATGTG 58.306 33.333 13.51 0.00 41.19 3.21
4877 7278 8.830580 GTTGCTAAGTGATTTATATCTTGCTCA 58.169 33.333 0.00 0.00 0.00 4.26
4894 7295 7.678837 TCTTGCTCATGTTTATTTGGGAAAAT 58.321 30.769 0.00 0.00 0.00 1.82
4923 7324 4.352595 TCTTGGTCCCCTCAACTATTTCAA 59.647 41.667 0.00 0.00 0.00 2.69
5015 7416 0.036732 CCTTAGTGCTGGTTGCTCCA 59.963 55.000 1.68 1.68 45.01 3.86
5016 7417 1.545428 CCTTAGTGCTGGTTGCTCCAA 60.545 52.381 3.15 0.00 46.59 3.53
5017 7418 2.229792 CTTAGTGCTGGTTGCTCCAAA 58.770 47.619 3.15 0.00 46.59 3.28
5018 7419 2.584835 TAGTGCTGGTTGCTCCAAAT 57.415 45.000 3.15 0.00 46.59 2.32
5019 7420 1.708341 AGTGCTGGTTGCTCCAAATT 58.292 45.000 3.15 0.00 46.59 1.82
5020 7421 1.615392 AGTGCTGGTTGCTCCAAATTC 59.385 47.619 3.15 0.00 46.59 2.17
5021 7422 1.615392 GTGCTGGTTGCTCCAAATTCT 59.385 47.619 3.15 0.00 46.59 2.40
5022 7423 1.614903 TGCTGGTTGCTCCAAATTCTG 59.385 47.619 3.15 0.00 46.59 3.02
5023 7424 1.615392 GCTGGTTGCTCCAAATTCTGT 59.385 47.619 3.15 0.00 46.59 3.41
5076 7477 8.839343 CCAACAGAATTTGTACATATGAGCATA 58.161 33.333 10.38 3.62 39.73 3.14
5105 7506 0.968405 TGGTTGCTCCAAATTCTGCC 59.032 50.000 0.00 0.00 44.12 4.85
5109 7510 1.702182 TGCTCCAAATTCTGCCAACA 58.298 45.000 0.00 0.00 0.00 3.33
5153 7554 2.472695 TCACTCAGATTTGTTCCCCG 57.527 50.000 0.00 0.00 0.00 5.73
5161 7562 2.637872 AGATTTGTTCCCCGAGAGTTGA 59.362 45.455 0.00 0.00 0.00 3.18
5598 7999 2.493675 AGATGTGTGCGATACTCACTGT 59.506 45.455 0.00 0.00 42.13 3.55
5689 8090 8.746922 TTGATTTATTTGCAAACATGTCTCTC 57.253 30.769 15.41 4.54 0.00 3.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 3.922240 GCAGCACATAGTCAACCATTTTG 59.078 43.478 0.00 0.00 0.00 2.44
136 154 8.664079 AGTGCCAGATAAGTAAGAAATATGGAT 58.336 33.333 0.00 0.00 34.58 3.41
141 159 7.769044 GGTGAAGTGCCAGATAAGTAAGAAATA 59.231 37.037 0.00 0.00 0.00 1.40
213 231 3.382227 TGATGCTTGCACCAATGGATAAG 59.618 43.478 6.16 8.30 0.00 1.73
219 237 2.951457 TGATGATGCTTGCACCAATG 57.049 45.000 0.00 0.00 0.00 2.82
412 432 5.064707 GCCTAATTAAATGAAGTGTGCTCGA 59.935 40.000 0.00 0.00 0.00 4.04
414 434 6.194796 TGCCTAATTAAATGAAGTGTGCTC 57.805 37.500 0.00 0.00 0.00 4.26
480 500 7.754924 ACAATGAGCGAAAGTGGTAAAAATATG 59.245 33.333 0.00 0.00 0.00 1.78
484 504 5.298276 AGACAATGAGCGAAAGTGGTAAAAA 59.702 36.000 0.00 0.00 0.00 1.94
513 533 0.982852 ATCCCCTCCAGCATTGTCGA 60.983 55.000 0.00 0.00 0.00 4.20
607 628 6.428159 ACAATTGAAATCTCTAGCGTGAAACT 59.572 34.615 13.59 0.00 31.75 2.66
791 2183 5.013599 AAGGAGCATCTAAGTTCCTCAACTT 59.986 40.000 5.50 5.50 46.88 2.66
895 2287 8.783093 CAAACAAACATCACACTAGGATCTTAA 58.217 33.333 0.00 0.00 0.00 1.85
896 2288 7.936847 ACAAACAAACATCACACTAGGATCTTA 59.063 33.333 0.00 0.00 0.00 2.10
897 2289 6.772716 ACAAACAAACATCACACTAGGATCTT 59.227 34.615 0.00 0.00 0.00 2.40
898 2290 6.299141 ACAAACAAACATCACACTAGGATCT 58.701 36.000 0.00 0.00 0.00 2.75
903 2295 5.749596 TGGACAAACAAACATCACACTAG 57.250 39.130 0.00 0.00 0.00 2.57
958 2350 3.300239 AGTAGTAGATGACGCTTCCCT 57.700 47.619 0.00 0.00 0.00 4.20
1174 2566 2.231964 TCCATGGACACGTACCTTGTAC 59.768 50.000 11.44 0.00 32.84 2.90
1263 2687 0.806868 AGTGCCTGCATTTGTCATCG 59.193 50.000 0.00 0.00 0.00 3.84
1341 2774 9.811995 CTCAAAATCAATATCATCACCATGTTT 57.188 29.630 0.00 0.00 0.00 2.83
1356 2789 5.357314 CACCATCTGAGCTCTCAAAATCAAT 59.643 40.000 16.19 0.00 39.39 2.57
1411 2847 2.771943 ACCTCATCACCATAATCACCGT 59.228 45.455 0.00 0.00 0.00 4.83
1648 3088 6.800408 CACATCCTATATTAACTCGTACACGG 59.200 42.308 1.39 0.00 40.29 4.94
1676 3116 4.189231 GCATTGGTCTAACGGTAGTCAAT 58.811 43.478 18.80 18.80 35.13 2.57
1721 3161 5.636123 ACTCAGTTTCTACTCCTTCTCAGA 58.364 41.667 0.00 0.00 30.26 3.27
1956 3858 7.505258 AGGGCATAGTTGTTGTGTAAAATTTT 58.495 30.769 8.75 8.75 0.00 1.82
2181 4285 3.719871 TCTTCCTAACCCACATGCTAGA 58.280 45.455 0.00 0.00 0.00 2.43
2303 4461 8.140677 CAGGTATCTGTTGATCTTGAGATTTC 57.859 38.462 0.00 0.00 36.30 2.17
2321 4484 4.939509 TTTTTCGCAGCTAACAGGTATC 57.060 40.909 0.00 0.00 0.00 2.24
2692 4902 3.688185 TCTCTTCATGCTGCTTTCATGAC 59.312 43.478 13.09 0.00 46.84 3.06
3046 5279 7.293073 ACACATATGAGGCCATAGAAAAGAAT 58.707 34.615 10.38 0.00 38.53 2.40
3194 5431 5.144692 TCTTCTTGTCCTTCTCTGACATG 57.855 43.478 0.00 0.00 41.99 3.21
3496 5826 9.778993 CAGTGTCCTTACATCAAATTAAATCAG 57.221 33.333 0.00 0.00 38.08 2.90
3556 5893 3.432517 CTCCAAAGGAGTCAGAGCG 57.567 57.895 4.89 0.00 44.25 5.03
3725 6063 1.621814 TGTCCACTGGTAGTTGGCTAC 59.378 52.381 0.00 0.00 45.13 3.58
3762 6106 0.746923 AAAAAGGTCGCCCGATAGCC 60.747 55.000 0.00 0.00 35.12 3.93
3865 6209 3.635331 CACACAAATGCTTTGAGTCCAG 58.365 45.455 13.35 0.00 41.45 3.86
3873 6217 1.860676 CAGCTGCACACAAATGCTTT 58.139 45.000 0.00 0.00 46.28 3.51
4249 6599 5.570320 AGATTTGTACCTATTTGTGCTGGT 58.430 37.500 0.00 0.00 36.66 4.00
4449 6799 5.163581 CCAATGCCTGAAAATCCTCTTACTG 60.164 44.000 0.00 0.00 0.00 2.74
4468 6819 3.354948 TTGAGTCTGATCCCACCAATG 57.645 47.619 0.00 0.00 0.00 2.82
4655 7006 4.105057 TGGGGTACTGGTAGAACAAAACAT 59.895 41.667 0.00 0.00 0.00 2.71
4790 7191 5.015178 TCTCTCAAATAAAACCCCTCCACAT 59.985 40.000 0.00 0.00 0.00 3.21
4791 7192 4.352595 TCTCTCAAATAAAACCCCTCCACA 59.647 41.667 0.00 0.00 0.00 4.17
4792 7193 4.918588 TCTCTCAAATAAAACCCCTCCAC 58.081 43.478 0.00 0.00 0.00 4.02
4793 7194 5.592587 TTCTCTCAAATAAAACCCCTCCA 57.407 39.130 0.00 0.00 0.00 3.86
4794 7195 6.437477 ACATTTCTCTCAAATAAAACCCCTCC 59.563 38.462 0.00 0.00 0.00 4.30
5015 7416 6.381801 CCGCTGAACAGAATTTACAGAATTT 58.618 36.000 5.97 0.00 0.00 1.82
5016 7417 5.106157 CCCGCTGAACAGAATTTACAGAATT 60.106 40.000 5.97 0.00 0.00 2.17
5017 7418 4.396166 CCCGCTGAACAGAATTTACAGAAT 59.604 41.667 5.97 0.00 0.00 2.40
5018 7419 3.751175 CCCGCTGAACAGAATTTACAGAA 59.249 43.478 5.97 0.00 0.00 3.02
5019 7420 3.334691 CCCGCTGAACAGAATTTACAGA 58.665 45.455 5.97 0.00 0.00 3.41
5020 7421 2.159517 GCCCGCTGAACAGAATTTACAG 60.160 50.000 5.97 0.00 0.00 2.74
5021 7422 1.810151 GCCCGCTGAACAGAATTTACA 59.190 47.619 5.97 0.00 0.00 2.41
5022 7423 2.084546 AGCCCGCTGAACAGAATTTAC 58.915 47.619 5.97 0.00 0.00 2.01
5023 7424 2.027192 AGAGCCCGCTGAACAGAATTTA 60.027 45.455 5.97 0.00 0.00 1.40
5569 7970 9.406828 GTGAGTATCGCACACATCTAATAAATA 57.593 33.333 0.00 0.00 46.97 1.40
5570 7971 8.299262 GTGAGTATCGCACACATCTAATAAAT 57.701 34.615 0.00 0.00 46.97 1.40
5571 7972 7.694388 GTGAGTATCGCACACATCTAATAAA 57.306 36.000 0.00 0.00 46.97 1.40
5586 7987 6.330278 TGACCTAATGAAACAGTGAGTATCG 58.670 40.000 0.00 0.00 38.61 2.92
5587 7988 7.548097 TCTGACCTAATGAAACAGTGAGTATC 58.452 38.462 0.00 0.00 0.00 2.24
5598 7999 4.202461 ACACAAGCCTCTGACCTAATGAAA 60.202 41.667 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.