Multiple sequence alignment - TraesCS4B01G215800

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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 TraesCS4B01G215800 chr4B 100.000 2732 0 0 1 2732 455614696 455617427 0.000000e+00 5046.0
1 TraesCS4B01G215800 chr4D 94.275 2166 65 14 587 2732 370530188 370532314 0.000000e+00 3258.0
2 TraesCS4B01G215800 chr4D 95.798 238 5 3 22 257 370529391 370529625 1.990000e-101 379.0
3 TraesCS4B01G215800 chr4D 89.730 185 12 3 334 513 370529761 370529943 2.120000e-56 230.0
4 TraesCS4B01G215800 chr4A 88.296 2811 175 63 1 2732 93899411 93896676 0.000000e+00 3227.0
5 TraesCS4B01G215800 chr6A 86.161 224 21 9 1084 1306 563026314 563026528 1.640000e-57 233.0
6 TraesCS4B01G215800 chr6D 90.341 176 15 2 1132 1306 420004058 420004232 2.120000e-56 230.0
7 TraesCS4B01G215800 chr6B 90.341 176 15 2 1132 1306 632954892 632955066 2.120000e-56 230.0
8 TraesCS4B01G215800 chr7A 89.103 156 15 2 1138 1292 126035199 126035045 2.780000e-45 193.0
9 TraesCS4B01G215800 chr7B 84.865 185 20 5 1129 1306 84220623 84220806 2.160000e-41 180.0
10 TraesCS4B01G215800 chr7D 84.324 185 21 4 1129 1306 123146300 123146483 1.010000e-39 174.0
11 TraesCS4B01G215800 chr5A 77.037 135 24 7 1140 1270 219695562 219695431 1.360000e-08 71.3


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 TraesCS4B01G215800 chr4B 455614696 455617427 2731 False 5046 5046 100.000000 1 2732 1 chr4B.!!$F1 2731
1 TraesCS4B01G215800 chr4D 370529391 370532314 2923 False 1289 3258 93.267667 22 2732 3 chr4D.!!$F1 2710
2 TraesCS4B01G215800 chr4A 93896676 93899411 2735 True 3227 3227 88.296000 1 2732 1 chr4A.!!$R1 2731

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
882 1190 0.109086 TCGAACTCACTAGCAGCAGC 60.109 55.0 0.0 0.0 42.56 5.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1826 2143 0.25064 ATGCATGCACCTAGCTAGCC 60.251 55.0 25.37 6.32 45.94 3.93 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
21 22 4.054780 CGACTCTCTCTGAGCTAGTACT 57.945 50.000 0.00 0.00 46.41 2.73
22 23 5.190992 CGACTCTCTCTGAGCTAGTACTA 57.809 47.826 1.89 1.89 46.41 1.82
23 24 4.980434 CGACTCTCTCTGAGCTAGTACTAC 59.020 50.000 10.47 0.00 46.41 2.73
24 25 4.940463 ACTCTCTCTGAGCTAGTACTACG 58.060 47.826 0.00 0.00 46.41 3.51
25 26 4.646040 ACTCTCTCTGAGCTAGTACTACGA 59.354 45.833 0.00 0.00 46.41 3.43
26 27 5.190992 TCTCTCTGAGCTAGTACTACGAG 57.809 47.826 0.00 0.00 0.00 4.18
27 28 3.719924 TCTCTGAGCTAGTACTACGAGC 58.280 50.000 12.14 12.14 45.44 5.03
162 169 1.741528 TATATGCATGGCCGCAGATG 58.258 50.000 19.29 9.33 46.99 2.90
190 197 5.990120 AAGAAATACCCGTGTACAGTACT 57.010 39.130 12.07 0.00 0.00 2.73
191 198 8.752005 ATAAGAAATACCCGTGTACAGTACTA 57.248 34.615 12.07 0.00 0.00 1.82
192 199 6.442513 AGAAATACCCGTGTACAGTACTAC 57.557 41.667 12.07 7.55 0.00 2.73
200 207 6.263168 ACCCGTGTACAGTACTACATAATACC 59.737 42.308 12.07 0.00 0.00 2.73
279 286 2.995466 TTTTGCGAGGAAGAGCATTG 57.005 45.000 0.00 0.00 43.42 2.82
280 287 1.896220 TTTGCGAGGAAGAGCATTGT 58.104 45.000 0.00 0.00 43.42 2.71
281 288 2.760634 TTGCGAGGAAGAGCATTGTA 57.239 45.000 0.00 0.00 43.42 2.41
282 289 2.988010 TGCGAGGAAGAGCATTGTAT 57.012 45.000 0.00 0.00 38.59 2.29
283 290 4.400529 TTGCGAGGAAGAGCATTGTATA 57.599 40.909 0.00 0.00 43.42 1.47
284 291 3.717707 TGCGAGGAAGAGCATTGTATAC 58.282 45.455 0.00 0.00 38.59 1.47
285 292 3.384789 TGCGAGGAAGAGCATTGTATACT 59.615 43.478 4.17 0.00 38.59 2.12
362 467 2.028420 GGCTTTTCCCCATTCATTGC 57.972 50.000 0.00 0.00 0.00 3.56
513 623 7.462856 GCCAGTTTTCGTTTCTTTTCTTTTCTC 60.463 37.037 0.00 0.00 0.00 2.87
514 624 7.253321 CCAGTTTTCGTTTCTTTTCTTTTCTCG 60.253 37.037 0.00 0.00 0.00 4.04
515 625 6.250739 AGTTTTCGTTTCTTTTCTTTTCTCGC 59.749 34.615 0.00 0.00 0.00 5.03
516 626 5.479716 TTCGTTTCTTTTCTTTTCTCGCT 57.520 34.783 0.00 0.00 0.00 4.93
517 627 6.592798 TTCGTTTCTTTTCTTTTCTCGCTA 57.407 33.333 0.00 0.00 0.00 4.26
518 628 5.970879 TCGTTTCTTTTCTTTTCTCGCTAC 58.029 37.500 0.00 0.00 0.00 3.58
519 629 5.521010 TCGTTTCTTTTCTTTTCTCGCTACA 59.479 36.000 0.00 0.00 0.00 2.74
520 630 6.036300 TCGTTTCTTTTCTTTTCTCGCTACAA 59.964 34.615 0.00 0.00 0.00 2.41
521 631 6.851330 CGTTTCTTTTCTTTTCTCGCTACAAT 59.149 34.615 0.00 0.00 0.00 2.71
523 633 9.659830 GTTTCTTTTCTTTTCTCGCTACAATTA 57.340 29.630 0.00 0.00 0.00 1.40
530 640 7.906160 TCTTTTCTCGCTACAATTAATACTGC 58.094 34.615 0.00 0.00 0.00 4.40
531 641 7.547722 TCTTTTCTCGCTACAATTAATACTGCA 59.452 33.333 0.00 0.00 0.00 4.41
532 642 7.786178 TTTCTCGCTACAATTAATACTGCAT 57.214 32.000 0.00 0.00 0.00 3.96
533 643 7.408132 TTCTCGCTACAATTAATACTGCATC 57.592 36.000 0.00 0.00 0.00 3.91
534 644 6.749139 TCTCGCTACAATTAATACTGCATCT 58.251 36.000 0.00 0.00 0.00 2.90
535 645 7.210174 TCTCGCTACAATTAATACTGCATCTT 58.790 34.615 0.00 0.00 0.00 2.40
536 646 7.169813 TCTCGCTACAATTAATACTGCATCTTG 59.830 37.037 0.00 0.00 0.00 3.02
537 647 6.761242 TCGCTACAATTAATACTGCATCTTGT 59.239 34.615 0.00 0.00 0.00 3.16
538 648 7.279981 TCGCTACAATTAATACTGCATCTTGTT 59.720 33.333 0.00 0.00 0.00 2.83
539 649 7.910162 CGCTACAATTAATACTGCATCTTGTTT 59.090 33.333 0.00 0.00 0.00 2.83
540 650 9.226345 GCTACAATTAATACTGCATCTTGTTTC 57.774 33.333 0.00 0.00 0.00 2.78
543 653 9.979578 ACAATTAATACTGCATCTTGTTTCAAA 57.020 25.926 0.00 0.00 0.00 2.69
577 687 2.185350 CATCAGCCGAAGCGTCCT 59.815 61.111 0.00 0.00 46.67 3.85
638 939 1.000896 GGCTAGGCAAGGGCAAAGA 60.001 57.895 12.16 0.00 43.71 2.52
650 951 1.084289 GGCAAAGACGGTACATCACC 58.916 55.000 0.00 0.00 44.75 4.02
671 972 1.717194 CGTGGGCGTAGTACATTTGT 58.283 50.000 0.38 0.00 0.00 2.83
672 973 1.392168 CGTGGGCGTAGTACATTTGTG 59.608 52.381 0.38 0.00 0.00 3.33
776 1077 1.291877 CGCGAACCCTTTCTCCACTG 61.292 60.000 0.00 0.00 0.00 3.66
880 1188 1.202188 CGATCGAACTCACTAGCAGCA 60.202 52.381 10.26 0.00 0.00 4.41
881 1189 2.458951 GATCGAACTCACTAGCAGCAG 58.541 52.381 0.00 0.00 0.00 4.24
882 1190 0.109086 TCGAACTCACTAGCAGCAGC 60.109 55.000 0.00 0.00 42.56 5.25
920 1228 1.538950 CGTCCCTCCCTATAAGTACGC 59.461 57.143 0.00 0.00 0.00 4.42
921 1229 1.538950 GTCCCTCCCTATAAGTACGCG 59.461 57.143 3.53 3.53 0.00 6.01
922 1230 0.243095 CCCTCCCTATAAGTACGCGC 59.757 60.000 5.73 0.00 0.00 6.86
923 1231 0.243095 CCTCCCTATAAGTACGCGCC 59.757 60.000 5.73 0.00 0.00 6.53
924 1232 1.245732 CTCCCTATAAGTACGCGCCT 58.754 55.000 5.73 0.00 0.00 5.52
925 1233 0.956633 TCCCTATAAGTACGCGCCTG 59.043 55.000 5.73 0.00 0.00 4.85
926 1234 0.672342 CCCTATAAGTACGCGCCTGT 59.328 55.000 5.73 0.00 0.00 4.00
927 1235 1.602165 CCCTATAAGTACGCGCCTGTG 60.602 57.143 5.73 0.00 0.00 3.66
928 1236 1.335810 CCTATAAGTACGCGCCTGTGA 59.664 52.381 5.73 0.00 0.00 3.58
929 1237 2.382519 CTATAAGTACGCGCCTGTGAC 58.617 52.381 5.73 0.00 0.00 3.67
930 1238 0.815734 ATAAGTACGCGCCTGTGACT 59.184 50.000 5.73 0.00 0.00 3.41
931 1239 0.599558 TAAGTACGCGCCTGTGACTT 59.400 50.000 5.73 9.02 33.57 3.01
932 1240 0.944311 AAGTACGCGCCTGTGACTTG 60.944 55.000 5.73 0.00 30.30 3.16
933 1241 2.736995 TACGCGCCTGTGACTTGC 60.737 61.111 5.73 0.00 0.00 4.01
934 1242 3.220999 TACGCGCCTGTGACTTGCT 62.221 57.895 5.73 0.00 0.00 3.91
935 1243 2.709125 TACGCGCCTGTGACTTGCTT 62.709 55.000 5.73 0.00 0.00 3.91
938 1246 1.781555 CGCCTGTGACTTGCTTACG 59.218 57.895 0.00 0.00 0.00 3.18
972 1280 1.140452 TGGCAGCAAGATCTCATCTCC 59.860 52.381 0.00 0.00 39.08 3.71
1308 1616 1.215647 CGTCCTCAACTTCCCCTCG 59.784 63.158 0.00 0.00 0.00 4.63
1587 1904 3.147595 TCGCCGGTGGGAGATCAG 61.148 66.667 16.49 0.00 37.20 2.90
1673 1990 3.121030 CGCCACGCCCTTCTCTTG 61.121 66.667 0.00 0.00 0.00 3.02
1716 2033 1.953138 CGGCGACATGATGAGGCTC 60.953 63.158 7.79 7.79 0.00 4.70
1754 2071 3.865929 AAGCGTCCACCGTCTGCAG 62.866 63.158 7.63 7.63 39.32 4.41
1771 2088 2.170397 TGCAGTGGGTCGACATTGATAT 59.830 45.455 18.91 0.00 30.51 1.63
1887 2204 2.452505 AGCTAGGTCTCACTCCAAGTC 58.547 52.381 0.00 0.00 0.00 3.01
1907 2224 6.558488 AGTCTGCTTCCATAGATTCTTTCT 57.442 37.500 0.00 0.00 38.57 2.52
1977 2303 5.751028 TGTTTTGTGTGTTTATTTGGCTAGC 59.249 36.000 6.04 6.04 0.00 3.42
2026 2352 5.425217 ACTGTATGTCTGTATGGGTTGATGA 59.575 40.000 0.00 0.00 0.00 2.92
2162 2490 1.495584 GCTTTGTGTCTCGTGCGGAA 61.496 55.000 0.00 0.00 0.00 4.30
2213 2541 2.103373 CAGGAGCTAAGCTGTACTGGA 58.897 52.381 0.00 0.00 39.88 3.86
2392 2738 6.095580 CAGCTAGTCATCCAGTGTTAAGTCTA 59.904 42.308 0.00 0.00 0.00 2.59
2501 2847 1.400494 AGTTCGTTGCAGGTGTTTGTC 59.600 47.619 0.00 0.00 0.00 3.18
2506 2852 1.937899 GTTGCAGGTGTTTGTCTACGT 59.062 47.619 0.00 0.00 0.00 3.57
2509 2855 1.792949 GCAGGTGTTTGTCTACGTCAG 59.207 52.381 0.00 0.00 0.00 3.51
2521 2867 2.296190 TCTACGTCAGCGCCATCAATAT 59.704 45.455 2.29 0.00 42.83 1.28
2688 3043 0.035820 TTATCACCGGCCACCAGAAC 60.036 55.000 0.00 0.00 0.00 3.01
2706 3061 4.882427 CAGAACTTAGGATCAGGACTACGA 59.118 45.833 0.00 0.00 0.00 3.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
10 11 5.640189 AAAAAGCTCGTAGTACTAGCTCA 57.360 39.130 24.81 0.00 45.05 4.26
14 15 7.218583 GTGCTCTTAAAAAGCTCGTAGTACTAG 59.781 40.741 1.87 0.00 40.50 2.57
17 18 5.632347 TGTGCTCTTAAAAAGCTCGTAGTAC 59.368 40.000 10.04 0.00 40.50 2.73
21 22 5.479306 AGATGTGCTCTTAAAAAGCTCGTA 58.521 37.500 10.04 0.00 40.50 3.43
22 23 4.319177 AGATGTGCTCTTAAAAAGCTCGT 58.681 39.130 10.04 8.04 40.50 4.18
23 24 4.935885 AGATGTGCTCTTAAAAAGCTCG 57.064 40.909 10.04 0.00 40.50 5.03
24 25 6.547283 GGTTAGATGTGCTCTTAAAAAGCTC 58.453 40.000 10.04 7.53 40.50 4.09
25 26 5.122396 CGGTTAGATGTGCTCTTAAAAAGCT 59.878 40.000 10.04 0.00 40.50 3.74
26 27 5.106673 ACGGTTAGATGTGCTCTTAAAAAGC 60.107 40.000 3.15 3.15 40.26 3.51
27 28 6.481954 ACGGTTAGATGTGCTCTTAAAAAG 57.518 37.500 0.00 0.00 35.28 2.27
162 169 8.707938 ACTGTACACGGGTATTTCTTATTAAC 57.292 34.615 0.00 0.00 0.00 2.01
190 197 5.365314 TGATCTGTGTGCCTGGTATTATGTA 59.635 40.000 0.00 0.00 0.00 2.29
191 198 4.164030 TGATCTGTGTGCCTGGTATTATGT 59.836 41.667 0.00 0.00 0.00 2.29
192 199 4.707105 TGATCTGTGTGCCTGGTATTATG 58.293 43.478 0.00 0.00 0.00 1.90
200 207 2.708051 AGATGTTGATCTGTGTGCCTG 58.292 47.619 0.00 0.00 37.56 4.85
259 266 2.622942 ACAATGCTCTTCCTCGCAAAAA 59.377 40.909 0.00 0.00 39.89 1.94
260 267 2.229792 ACAATGCTCTTCCTCGCAAAA 58.770 42.857 0.00 0.00 39.89 2.44
261 268 1.896220 ACAATGCTCTTCCTCGCAAA 58.104 45.000 0.00 0.00 39.89 3.68
262 269 2.760634 TACAATGCTCTTCCTCGCAA 57.239 45.000 0.00 0.00 39.89 4.85
264 271 3.983741 AGTATACAATGCTCTTCCTCGC 58.016 45.455 5.50 0.00 0.00 5.03
265 272 6.642950 CCTAAAGTATACAATGCTCTTCCTCG 59.357 42.308 5.50 0.00 0.00 4.63
266 273 6.425417 GCCTAAAGTATACAATGCTCTTCCTC 59.575 42.308 5.50 0.00 0.00 3.71
268 275 6.055588 TGCCTAAAGTATACAATGCTCTTCC 58.944 40.000 5.50 0.00 0.00 3.46
269 276 6.293135 GCTGCCTAAAGTATACAATGCTCTTC 60.293 42.308 5.50 0.00 0.00 2.87
270 277 5.529060 GCTGCCTAAAGTATACAATGCTCTT 59.471 40.000 5.50 0.00 0.00 2.85
272 279 5.059833 AGCTGCCTAAAGTATACAATGCTC 58.940 41.667 5.50 0.00 0.00 4.26
273 280 5.041191 AGCTGCCTAAAGTATACAATGCT 57.959 39.130 5.50 0.78 0.00 3.79
274 281 6.861065 TTAGCTGCCTAAAGTATACAATGC 57.139 37.500 5.50 1.22 30.81 3.56
275 282 8.438676 AGTTTAGCTGCCTAAAGTATACAATG 57.561 34.615 5.50 0.00 42.53 2.82
276 283 8.487028 AGAGTTTAGCTGCCTAAAGTATACAAT 58.513 33.333 5.50 0.00 43.71 2.71
277 284 7.848128 AGAGTTTAGCTGCCTAAAGTATACAA 58.152 34.615 5.50 0.00 43.71 2.41
278 285 7.419711 AGAGTTTAGCTGCCTAAAGTATACA 57.580 36.000 5.50 0.00 43.71 2.29
279 286 7.254488 GCAAGAGTTTAGCTGCCTAAAGTATAC 60.254 40.741 0.00 0.00 43.71 1.47
280 287 6.761714 GCAAGAGTTTAGCTGCCTAAAGTATA 59.238 38.462 0.00 0.00 43.71 1.47
281 288 5.586643 GCAAGAGTTTAGCTGCCTAAAGTAT 59.413 40.000 0.00 0.00 43.71 2.12
282 289 4.935808 GCAAGAGTTTAGCTGCCTAAAGTA 59.064 41.667 0.00 0.00 43.71 2.24
283 290 3.753797 GCAAGAGTTTAGCTGCCTAAAGT 59.246 43.478 0.00 4.07 45.40 2.66
284 291 4.006319 AGCAAGAGTTTAGCTGCCTAAAG 58.994 43.478 0.00 0.00 42.51 1.85
285 292 4.021102 AGCAAGAGTTTAGCTGCCTAAA 57.979 40.909 0.00 0.00 40.32 1.85
354 457 5.353123 GCCATTTCATTTCAGTGCAATGAAT 59.647 36.000 28.09 16.08 45.61 2.57
362 467 3.557577 TCGTGCCATTTCATTTCAGTG 57.442 42.857 0.00 0.00 0.00 3.66
513 623 6.948353 ACAAGATGCAGTATTAATTGTAGCG 58.052 36.000 0.00 0.00 0.00 4.26
514 624 9.226345 GAAACAAGATGCAGTATTAATTGTAGC 57.774 33.333 0.00 0.00 0.00 3.58
517 627 9.979578 TTTGAAACAAGATGCAGTATTAATTGT 57.020 25.926 0.00 0.00 0.00 2.71
543 653 6.531240 CGGCTGATGCAGTATTAATTGTTTTT 59.469 34.615 0.00 0.00 41.91 1.94
544 654 6.035843 CGGCTGATGCAGTATTAATTGTTTT 58.964 36.000 0.00 0.00 41.91 2.43
545 655 5.356751 TCGGCTGATGCAGTATTAATTGTTT 59.643 36.000 0.00 0.00 41.91 2.83
546 656 4.881273 TCGGCTGATGCAGTATTAATTGTT 59.119 37.500 0.00 0.00 41.91 2.83
559 669 3.567797 GGACGCTTCGGCTGATGC 61.568 66.667 20.62 20.62 40.78 3.91
560 670 2.169789 CAGGACGCTTCGGCTGATG 61.170 63.158 0.00 0.00 39.13 3.07
561 671 2.185350 CAGGACGCTTCGGCTGAT 59.815 61.111 0.00 0.00 39.13 2.90
562 672 4.069232 CCAGGACGCTTCGGCTGA 62.069 66.667 0.00 0.00 39.13 4.26
577 687 4.038042 CGTATAGACAGATCTTGCCTTCCA 59.962 45.833 0.00 0.00 36.29 3.53
593 894 5.651530 CTTGTTTGAGAAGGAGCGTATAGA 58.348 41.667 0.00 0.00 0.00 1.98
776 1077 2.434359 GTGCGTGGTCCTGGTAGC 60.434 66.667 0.00 0.00 0.00 3.58
882 1190 2.544359 CGGCGTGTGAACTGAACG 59.456 61.111 0.00 0.00 40.22 3.95
883 1191 2.248431 GCGGCGTGTGAACTGAAC 59.752 61.111 9.37 0.00 0.00 3.18
884 1192 3.334751 CGCGGCGTGTGAACTGAA 61.335 61.111 15.36 0.00 0.00 3.02
885 1193 4.578898 ACGCGGCGTGTGAACTGA 62.579 61.111 28.88 0.00 39.18 3.41
908 1216 1.335810 TCACAGGCGCGTACTTATAGG 59.664 52.381 8.43 0.00 0.00 2.57
920 1228 1.781555 CGTAAGCAAGTCACAGGCG 59.218 57.895 0.00 0.00 0.00 5.52
943 1251 2.832661 TTGCTGCCACACCACACC 60.833 61.111 0.00 0.00 0.00 4.16
1127 1435 2.045926 CCCCCTTGAACTGCCTCG 60.046 66.667 0.00 0.00 0.00 4.63
1357 1665 2.503375 GTCGTCGGCGTGTCGATT 60.503 61.111 20.97 0.00 40.12 3.34
1361 1669 4.338539 ACAGGTCGTCGGCGTGTC 62.339 66.667 18.63 1.06 39.49 3.67
1362 1670 4.338539 GACAGGTCGTCGGCGTGT 62.339 66.667 23.63 23.63 39.49 4.49
1425 1733 3.432051 GACGATCCTGGTGGCCTCG 62.432 68.421 3.32 5.40 41.10 4.63
1428 1736 3.771160 ACGACGATCCTGGTGGCC 61.771 66.667 0.00 0.00 0.00 5.36
1492 1809 1.367471 CCAGCGTGGACACTGAGAA 59.633 57.895 0.56 0.00 40.96 2.87
1587 1904 3.343788 CTCCGTCCACAGCTCGTCC 62.344 68.421 0.00 0.00 0.00 4.79
1754 2071 1.526887 CGCATATCAATGTCGACCCAC 59.473 52.381 14.12 0.00 35.81 4.61
1758 2075 2.159787 GGATGCGCATATCAATGTCGAC 60.160 50.000 25.40 9.11 35.81 4.20
1771 2088 0.598419 GATCGACTCATGGATGCGCA 60.598 55.000 14.96 14.96 0.00 6.09
1826 2143 0.250640 ATGCATGCACCTAGCTAGCC 60.251 55.000 25.37 6.32 45.94 3.93
1887 2204 7.621428 TGAAAGAAAGAATCTATGGAAGCAG 57.379 36.000 0.00 0.00 37.42 4.24
1956 2282 4.557695 CGGCTAGCCAAATAAACACACAAA 60.558 41.667 32.47 0.00 35.37 2.83
1957 2283 3.057876 CGGCTAGCCAAATAAACACACAA 60.058 43.478 32.47 0.00 35.37 3.33
1958 2284 2.486203 CGGCTAGCCAAATAAACACACA 59.514 45.455 32.47 0.00 35.37 3.72
1959 2285 2.486592 ACGGCTAGCCAAATAAACACAC 59.513 45.455 32.47 1.58 35.37 3.82
1960 2286 2.745281 GACGGCTAGCCAAATAAACACA 59.255 45.455 32.47 0.00 35.37 3.72
2026 2352 0.322277 CCAATGCAGCCAGTCTCACT 60.322 55.000 0.00 0.00 0.00 3.41
2162 2490 3.287222 TGTTCTGCTTAAACACCAAGCT 58.713 40.909 8.38 0.00 46.85 3.74
2213 2541 1.620819 CCAGAGGTGCAGACTTACAGT 59.379 52.381 0.00 0.00 0.00 3.55
2301 2647 9.206870 GAATCTTAGCTAGATCATCCTCAAAAG 57.793 37.037 0.00 0.00 42.90 2.27
2392 2738 2.705658 TGAGAGGGTGTGAACACTGAAT 59.294 45.455 12.99 0.00 45.73 2.57
2413 2759 1.000955 CGTGTCACTCTGCTTAAGGGT 59.999 52.381 4.29 0.00 41.85 4.34
2479 2825 2.612212 ACAAACACCTGCAACGAACTAG 59.388 45.455 0.00 0.00 0.00 2.57
2501 2847 2.134201 TATTGATGGCGCTGACGTAG 57.866 50.000 7.64 0.00 42.83 3.51
2521 2867 1.749665 TTCGAGCCGAAAAGGACCA 59.250 52.632 7.44 0.00 43.00 4.02
2688 3043 5.278561 GGTTCATCGTAGTCCTGATCCTAAG 60.279 48.000 0.00 0.00 0.00 2.18
2706 3061 3.370953 GGTCATCAGCTGTTAGGGTTCAT 60.371 47.826 14.67 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.