Multiple sequence alignment - TraesCS5D01G359000

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 TraesCS5D01G359000 chr5D 100.000 5465 0 0 1 5465 438593011 438587547 0.000000e+00 10093.0
1 TraesCS5D01G359000 chr5D 82.552 1771 262 34 3218 4965 438722526 438720780 0.000000e+00 1515.0
2 TraesCS5D01G359000 chr5D 82.156 1670 231 45 3307 4952 438569526 438567900 0.000000e+00 1371.0
3 TraesCS5D01G359000 chr5D 81.586 1564 245 38 3305 4853 438545231 438543696 0.000000e+00 1253.0
4 TraesCS5D01G359000 chr5D 81.515 1558 244 32 3319 4861 438559120 438557592 0.000000e+00 1242.0
5 TraesCS5D01G359000 chr5D 78.633 1507 299 16 964 2460 438724711 438723218 0.000000e+00 977.0
6 TraesCS5D01G359000 chr5D 94.240 625 31 1 1196 1815 438688950 438688326 0.000000e+00 950.0
7 TraesCS5D01G359000 chr5D 82.123 1102 149 28 3231 4313 438658623 438657551 0.000000e+00 900.0
8 TraesCS5D01G359000 chr5D 96.819 503 12 1 2204 2706 438666019 438665521 0.000000e+00 837.0
9 TraesCS5D01G359000 chr5D 82.148 633 88 21 4314 4938 438624306 438623691 2.420000e-143 520.0
10 TraesCS5D01G359000 chr5D 93.651 252 16 0 1955 2206 438684149 438683898 1.540000e-100 377.0
11 TraesCS5D01G359000 chr5D 94.286 140 7 1 2815 2953 438664004 438663865 4.590000e-51 213.0
12 TraesCS5D01G359000 chr5D 88.276 145 10 2 1808 1952 438685040 438684903 3.630000e-37 167.0
13 TraesCS5D01G359000 chr5D 90.476 126 11 1 1 125 438689118 438688993 1.300000e-36 165.0
14 TraesCS5D01G359000 chr5D 93.182 88 6 0 2710 2797 438664077 438663990 4.760000e-26 130.0
15 TraesCS5D01G359000 chr5D 100.000 41 0 0 5809 5849 438587203 438587163 6.290000e-10 76.8
16 TraesCS5D01G359000 chr5B 96.483 4492 125 14 514 5001 533497066 533492604 0.000000e+00 7389.0
17 TraesCS5D01G359000 chr5B 82.705 1752 236 39 3218 4938 533573219 533571504 0.000000e+00 1495.0
18 TraesCS5D01G359000 chr5B 82.254 1668 226 52 3307 4952 533451438 533449819 0.000000e+00 1376.0
19 TraesCS5D01G359000 chr5B 82.095 1642 228 44 3356 4960 533515388 533513776 0.000000e+00 1343.0
20 TraesCS5D01G359000 chr5B 81.474 1533 237 36 3341 4856 533509304 533507802 0.000000e+00 1214.0
21 TraesCS5D01G359000 chr5B 82.381 1277 185 30 3662 4931 533565194 533563951 0.000000e+00 1075.0
22 TraesCS5D01G359000 chr5B 78.685 1506 291 17 964 2463 533525336 533523855 0.000000e+00 976.0
23 TraesCS5D01G359000 chr5B 75.854 2021 379 58 826 2798 533568060 533566101 0.000000e+00 928.0
24 TraesCS5D01G359000 chr5B 83.627 739 103 15 826 1555 533475642 533474913 0.000000e+00 678.0
25 TraesCS5D01G359000 chr5B 90.385 364 32 3 1 361 533498338 533497975 5.300000e-130 475.0
26 TraesCS5D01G359000 chr5B 93.399 303 9 1 5152 5443 533492607 533492305 6.960000e-119 438.0
27 TraesCS5D01G359000 chr5B 82.836 402 65 3 3216 3614 533565681 533565281 2.000000e-94 357.0
28 TraesCS5D01G359000 chr5B 84.457 341 51 1 4519 4859 533382691 533382353 9.390000e-88 335.0
29 TraesCS5D01G359000 chr5B 92.683 41 3 0 5809 5849 533491894 533491854 6.330000e-05 60.2
30 TraesCS5D01G359000 chr5A 94.120 2228 85 12 626 2837 554204148 554201951 0.000000e+00 3347.0
31 TraesCS5D01G359000 chr5A 93.116 2237 118 16 2837 5044 554201855 554199626 0.000000e+00 3245.0
32 TraesCS5D01G359000 chr5A 82.191 1780 251 45 3218 4966 554236324 554234580 0.000000e+00 1471.0
33 TraesCS5D01G359000 chr5A 82.002 1628 226 39 3344 4952 554182818 554181239 0.000000e+00 1321.0
34 TraesCS5D01G359000 chr5A 83.104 1379 189 34 3218 4575 554218847 554217492 0.000000e+00 1216.0
35 TraesCS5D01G359000 chr5A 78.687 1675 259 48 826 2457 554185248 554183629 0.000000e+00 1026.0
36 TraesCS5D01G359000 chr5A 78.481 1501 296 18 972 2460 554238490 554237005 0.000000e+00 957.0
37 TraesCS5D01G359000 chr5A 80.169 1301 233 11 977 2272 554221270 554219990 0.000000e+00 950.0
38 TraesCS5D01G359000 chr5A 81.299 1139 181 22 3463 4590 554112597 554111480 0.000000e+00 894.0
39 TraesCS5D01G359000 chr5A 78.578 1097 200 28 3366 4446 554189811 554188734 0.000000e+00 691.0
40 TraesCS5D01G359000 chr5A 90.888 439 19 5 5040 5465 554199252 554198822 2.370000e-158 569.0
41 TraesCS5D01G359000 chr5A 93.103 203 10 4 386 587 554204339 554204140 1.590000e-75 294.0
42 TraesCS5D01G359000 chr5A 90.000 190 14 5 26 213 554204510 554204324 2.110000e-59 241.0
43 TraesCS5D01G359000 chrUn 82.358 1162 170 29 3343 4487 63291989 63290846 0.000000e+00 977.0
44 TraesCS5D01G359000 chrUn 85.602 507 63 9 3985 4487 299954514 299954014 1.870000e-144 523.0
45 TraesCS5D01G359000 chrUn 85.965 342 47 1 4519 4859 63290844 63290503 1.200000e-96 364.0
46 TraesCS5D01G359000 chrUn 85.965 342 47 1 4519 4859 299954012 299953671 1.200000e-96 364.0


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 TraesCS5D01G359000 chr5D 438587163 438593011 5848 True 5084.900000 10093 100.000000 1 5849 2 chr5D.!!$R6 5848
1 TraesCS5D01G359000 chr5D 438567900 438569526 1626 True 1371.000000 1371 82.156000 3307 4952 1 chr5D.!!$R3 1645
2 TraesCS5D01G359000 chr5D 438543696 438545231 1535 True 1253.000000 1253 81.586000 3305 4853 1 chr5D.!!$R1 1548
3 TraesCS5D01G359000 chr5D 438720780 438724711 3931 True 1246.000000 1515 80.592500 964 4965 2 chr5D.!!$R9 4001
4 TraesCS5D01G359000 chr5D 438557592 438559120 1528 True 1242.000000 1242 81.515000 3319 4861 1 chr5D.!!$R2 1542
5 TraesCS5D01G359000 chr5D 438657551 438658623 1072 True 900.000000 900 82.123000 3231 4313 1 chr5D.!!$R5 1082
6 TraesCS5D01G359000 chr5D 438623691 438624306 615 True 520.000000 520 82.148000 4314 4938 1 chr5D.!!$R4 624
7 TraesCS5D01G359000 chr5D 438683898 438689118 5220 True 414.750000 950 91.660750 1 2206 4 chr5D.!!$R8 2205
8 TraesCS5D01G359000 chr5D 438663865 438666019 2154 True 393.333333 837 94.762333 2204 2953 3 chr5D.!!$R7 749
9 TraesCS5D01G359000 chr5B 533491854 533498338 6484 True 2090.550000 7389 93.237500 1 5849 4 chr5B.!!$R7 5848
10 TraesCS5D01G359000 chr5B 533449819 533451438 1619 True 1376.000000 1376 82.254000 3307 4952 1 chr5B.!!$R2 1645
11 TraesCS5D01G359000 chr5B 533513776 533515388 1612 True 1343.000000 1343 82.095000 3356 4960 1 chr5B.!!$R5 1604
12 TraesCS5D01G359000 chr5B 533507802 533509304 1502 True 1214.000000 1214 81.474000 3341 4856 1 chr5B.!!$R4 1515
13 TraesCS5D01G359000 chr5B 533523855 533525336 1481 True 976.000000 976 78.685000 964 2463 1 chr5B.!!$R6 1499
14 TraesCS5D01G359000 chr5B 533563951 533573219 9268 True 963.750000 1495 80.944000 826 4938 4 chr5B.!!$R8 4112
15 TraesCS5D01G359000 chr5B 533474913 533475642 729 True 678.000000 678 83.627000 826 1555 1 chr5B.!!$R3 729
16 TraesCS5D01G359000 chr5A 554198822 554204510 5688 True 1539.200000 3347 92.245400 26 5465 5 chr5A.!!$R3 5439
17 TraesCS5D01G359000 chr5A 554234580 554238490 3910 True 1214.000000 1471 80.336000 972 4966 2 chr5A.!!$R5 3994
18 TraesCS5D01G359000 chr5A 554217492 554221270 3778 True 1083.000000 1216 81.636500 977 4575 2 chr5A.!!$R4 3598
19 TraesCS5D01G359000 chr5A 554181239 554189811 8572 True 1012.666667 1321 79.755667 826 4952 3 chr5A.!!$R2 4126
20 TraesCS5D01G359000 chr5A 554111480 554112597 1117 True 894.000000 894 81.299000 3463 4590 1 chr5A.!!$R1 1127
21 TraesCS5D01G359000 chrUn 63290503 63291989 1486 True 670.500000 977 84.161500 3343 4859 2 chrUn.!!$R1 1516
22 TraesCS5D01G359000 chrUn 299953671 299954514 843 True 443.500000 523 85.783500 3985 4859 2 chrUn.!!$R2 874

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
369 373 0.249398 TAGGCAGAAAAGAGACCGGC 59.751 55.000 0.0 0.0 0.00 6.13 F
2022 12375 1.000506 GAGCCGACTAACACACAGGAA 59.999 52.381 0.0 0.0 0.00 3.36 F
3139 15417 0.039708 GGTTGCTGTCTTGCTGCTTC 60.040 55.000 0.0 0.0 41.79 3.86 F
3691 16233 2.789409 ATGGTAGGTGGTCAAGAAGC 57.211 50.000 0.0 0.0 0.00 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2027 12380 0.872021 CGCCGAGAATCTGCCTACAC 60.872 60.000 0.0 0.00 42.82 2.90 R
3156 15434 2.092321 ACACCTAGTATCTCCGAGCAGT 60.092 50.000 0.0 0.00 0.00 4.40 R
4248 16823 4.722194 TGAGCAATTCAATTGTAAGCGAC 58.278 39.130 11.8 5.95 42.20 5.19 R
5250 18268 3.726557 TGAAAGCATGGATTCTGGACT 57.273 42.857 0.0 0.00 0.00 3.85 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
41 42 5.863965 TGTGGTCATCAATCAGTTTCAGTA 58.136 37.500 0.00 0.00 0.00 2.74
67 68 5.474532 TCAATCAACAAGAGGAGAAATGTGG 59.525 40.000 0.00 0.00 0.00 4.17
78 79 3.629398 GGAGAAATGTGGGCTGTCTATTG 59.371 47.826 0.00 0.00 0.00 1.90
79 80 4.265073 GAGAAATGTGGGCTGTCTATTGT 58.735 43.478 0.00 0.00 0.00 2.71
92 94 3.264193 TGTCTATTGTTGGAGCCATCAGT 59.736 43.478 1.04 1.52 0.00 3.41
162 165 3.269381 TGCCTTACCCAGATTTGAATCCT 59.731 43.478 0.27 0.00 36.04 3.24
212 215 1.486310 TCGAGCCAAGCAGGTATGAAT 59.514 47.619 0.00 0.00 40.61 2.57
253 257 9.956720 AAAAATACATAAGCATGCTAGAATGAC 57.043 29.630 29.75 5.99 35.39 3.06
255 259 3.496130 ACATAAGCATGCTAGAATGACGC 59.504 43.478 29.75 0.00 35.39 5.19
274 278 2.727916 CGCGGTTGGACAAAATTAGAGC 60.728 50.000 0.00 0.00 0.00 4.09
300 304 5.009911 TGTCATTTAGTGCAAGACAAGCATT 59.990 36.000 0.00 0.00 44.79 3.56
314 318 7.458409 AGACAAGCATTTTACTGATGTGAAT 57.542 32.000 0.00 0.00 0.00 2.57
318 322 5.888105 AGCATTTTACTGATGTGAATCTGC 58.112 37.500 0.00 0.00 34.24 4.26
366 370 1.732809 GCGTTAGGCAGAAAAGAGACC 59.267 52.381 0.00 0.00 42.87 3.85
367 371 1.993370 CGTTAGGCAGAAAAGAGACCG 59.007 52.381 0.00 0.00 0.00 4.79
368 372 2.347731 GTTAGGCAGAAAAGAGACCGG 58.652 52.381 0.00 0.00 0.00 5.28
369 373 0.249398 TAGGCAGAAAAGAGACCGGC 59.751 55.000 0.00 0.00 0.00 6.13
370 374 2.041115 GGCAGAAAAGAGACCGGCC 61.041 63.158 0.00 0.00 0.00 6.13
372 376 2.047179 AGAAAAGAGACCGGCCGC 60.047 61.111 22.85 7.25 0.00 6.53
374 378 1.671379 GAAAAGAGACCGGCCGCTT 60.671 57.895 22.85 15.17 0.00 4.68
376 380 3.901797 AAAGAGACCGGCCGCTTGG 62.902 63.158 22.85 8.91 0.00 3.61
380 384 3.857038 GACCGGCCGCTTGGGATA 61.857 66.667 22.85 0.00 38.47 2.59
382 386 3.546543 CCGGCCGCTTGGGATAGA 61.547 66.667 22.85 0.00 38.47 1.98
478 1227 3.720328 ACGTTCGTTCGTTTTTGTAATGC 59.280 39.130 2.38 0.00 41.37 3.56
496 1245 1.067565 TGCTTCACGACTGATCTCACC 60.068 52.381 0.00 0.00 0.00 4.02
584 1344 1.271656 AGGCTGACACGTTACCTGTAC 59.728 52.381 0.00 0.00 0.00 2.90
740 1500 6.491745 TCAGTCACTATTCTGAGTTTCTGACT 59.508 38.462 0.00 0.00 42.70 3.41
870 7125 4.580167 GCATTATACAACCATCTGCTTCCA 59.420 41.667 0.00 0.00 0.00 3.53
883 7138 3.820467 TCTGCTTCCACGATCAAACATTT 59.180 39.130 0.00 0.00 0.00 2.32
1068 7359 1.215647 CCTACCGTTGAGCGCTTCT 59.784 57.895 13.26 0.00 39.71 2.85
1173 7465 1.229658 CCCCTCCAACTCCACTCCT 60.230 63.158 0.00 0.00 0.00 3.69
1560 7852 3.681311 AGTATCCTGGAAAGGCCCTAAT 58.319 45.455 0.00 0.00 34.97 1.73
2017 12370 1.194772 GCTTTGAGCCGACTAACACAC 59.805 52.381 0.00 0.00 34.48 3.82
2022 12375 1.000506 GAGCCGACTAACACACAGGAA 59.999 52.381 0.00 0.00 0.00 3.36
2027 12380 3.254060 CGACTAACACACAGGAATGGAG 58.746 50.000 0.00 0.00 0.00 3.86
2167 12530 0.885879 TACGTTCGAGGAGTGCACAT 59.114 50.000 21.04 4.01 0.00 3.21
2171 12534 0.390340 TTCGAGGAGTGCACATCAGC 60.390 55.000 21.04 8.23 0.00 4.26
2359 13031 3.375299 GGATGCAACAACTGGTATCAGAC 59.625 47.826 10.76 0.00 43.49 3.51
2375 13047 2.493675 TCAGACCTCAACTTCTCCATCG 59.506 50.000 0.00 0.00 0.00 3.84
2402 13074 4.624024 TCCGACTAGCTTTGTTATTTGTCG 59.376 41.667 0.00 0.00 43.47 4.35
2420 13092 4.232221 TGTCGATCGTTCTACAACTTTCC 58.768 43.478 15.94 0.00 0.00 3.13
2476 13189 9.460019 TCATCCATTTTTGTGACAGTCAATATA 57.540 29.630 4.32 0.00 0.00 0.86
2708 14875 4.649218 AGGATTGTGTTGCCAGTTTTAAGT 59.351 37.500 0.00 0.00 0.00 2.24
2875 15141 8.294690 AGACTACAGAATCTTATAAACCCCCTA 58.705 37.037 0.00 0.00 0.00 3.53
2890 15159 2.484947 CCCCCTAAGCATAAACCGAGAC 60.485 54.545 0.00 0.00 0.00 3.36
2954 15223 0.759346 GGGAGTGATCCGGTGCTTAT 59.241 55.000 0.00 0.00 0.00 1.73
2965 15234 4.839121 TCCGGTGCTTATGTACAATCTTT 58.161 39.130 0.00 0.00 0.00 2.52
3009 15278 4.759693 TCCACATGTTAGTGAAACCACATC 59.240 41.667 0.00 0.00 38.73 3.06
3139 15417 0.039708 GGTTGCTGTCTTGCTGCTTC 60.040 55.000 0.00 0.00 41.79 3.86
3156 15434 5.474532 GCTGCTTCCCATATCATTACAATCA 59.525 40.000 0.00 0.00 0.00 2.57
3461 15947 8.118600 ACCTCTAATGAATTTGGAGAAGGAAAT 58.881 33.333 0.86 0.00 43.64 2.17
3691 16233 2.789409 ATGGTAGGTGGTCAAGAAGC 57.211 50.000 0.00 0.00 0.00 3.86
3948 16512 9.040939 ACACTTATTTGCTTACATTTGTTTTCC 57.959 29.630 0.00 0.00 0.00 3.13
4781 17402 2.468777 CACGACAAAGTGCTGAAATTGC 59.531 45.455 0.00 0.00 35.17 3.56
4838 17459 6.562518 ACAGTTTTACTCTTACCGAGATAGC 58.437 40.000 0.00 0.00 42.62 2.97
5009 17638 3.947834 CCCAGGAGTCATTATGTTGGAAC 59.052 47.826 0.00 0.00 0.00 3.62
5016 17645 5.757886 AGTCATTATGTTGGAACGTGTTTG 58.242 37.500 0.00 0.00 0.00 2.93
5017 17646 5.298276 AGTCATTATGTTGGAACGTGTTTGT 59.702 36.000 0.00 0.00 0.00 2.83
5018 17647 6.483974 AGTCATTATGTTGGAACGTGTTTGTA 59.516 34.615 0.00 0.00 0.00 2.41
5019 17648 7.174253 AGTCATTATGTTGGAACGTGTTTGTAT 59.826 33.333 0.00 0.00 0.00 2.29
5053 18069 7.201591 CCAGATAGCAGTCTCAGTTACAAAATG 60.202 40.741 0.00 0.00 0.00 2.32
5059 18075 6.638468 GCAGTCTCAGTTACAAAATGGAAAAG 59.362 38.462 0.00 0.00 0.00 2.27
5063 18079 9.237846 GTCTCAGTTACAAAATGGAAAAGAAAG 57.762 33.333 0.00 0.00 0.00 2.62
5098 18114 3.403968 ACTTTGTGTGTGTGTGTGTGTA 58.596 40.909 0.00 0.00 0.00 2.90
5134 18152 6.201806 CACTACTTGACAAAAAGGACTCTGAG 59.798 42.308 2.45 2.45 0.00 3.35
5136 18154 4.164221 ACTTGACAAAAAGGACTCTGAGGA 59.836 41.667 9.85 0.00 0.00 3.71
5212 18230 3.437049 GTGGTGTTCTTGTCTATGCTTCC 59.563 47.826 0.00 0.00 0.00 3.46
5418 18447 3.662759 AGTCCCTTTTGTTTCCACTCA 57.337 42.857 0.00 0.00 0.00 3.41
5424 18453 1.032014 TTTGTTTCCACTCAGCTGCC 58.968 50.000 9.47 0.00 0.00 4.85
5846 18920 2.018542 TATTACCTTCGCACAGGCAC 57.981 50.000 0.00 0.00 41.24 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 7.309621 CCACATTTCTCCTCTTGTTGATTGATT 60.310 37.037 0.00 0.00 0.00 2.57
67 68 1.340017 TGGCTCCAACAATAGACAGCC 60.340 52.381 0.59 0.59 45.70 4.85
78 79 2.359900 CTGGTTACTGATGGCTCCAAC 58.640 52.381 0.00 0.00 0.00 3.77
79 80 1.281867 CCTGGTTACTGATGGCTCCAA 59.718 52.381 0.00 0.00 0.00 3.53
162 165 1.216444 GATGTGCTGTCAGCTCGGA 59.784 57.895 24.76 7.78 42.97 4.55
240 244 1.004610 CAACCGCGTCATTCTAGCATG 60.005 52.381 4.92 0.00 0.00 4.06
253 257 2.727916 GCTCTAATTTTGTCCAACCGCG 60.728 50.000 0.00 0.00 0.00 6.46
255 259 2.482721 ACGCTCTAATTTTGTCCAACCG 59.517 45.455 0.00 0.00 0.00 4.44
274 278 4.457810 CTTGTCTTGCACTAAATGACACG 58.542 43.478 0.00 0.00 37.38 4.49
300 304 4.582869 AGCTGCAGATTCACATCAGTAAA 58.417 39.130 20.43 0.00 0.00 2.01
363 367 3.809374 CTATCCCAAGCGGCCGGTC 62.809 68.421 32.52 13.22 0.00 4.79
364 368 3.861797 CTATCCCAAGCGGCCGGT 61.862 66.667 26.97 26.97 0.00 5.28
365 369 3.521529 CTCTATCCCAAGCGGCCGG 62.522 68.421 29.38 10.48 0.00 6.13
366 370 1.821061 ATCTCTATCCCAAGCGGCCG 61.821 60.000 24.05 24.05 0.00 6.13
367 371 0.321122 CATCTCTATCCCAAGCGGCC 60.321 60.000 0.00 0.00 0.00 6.13
368 372 0.321122 CCATCTCTATCCCAAGCGGC 60.321 60.000 0.00 0.00 0.00 6.53
369 373 1.342074 TCCATCTCTATCCCAAGCGG 58.658 55.000 0.00 0.00 0.00 5.52
370 374 2.630098 TCTTCCATCTCTATCCCAAGCG 59.370 50.000 0.00 0.00 0.00 4.68
372 376 4.487804 TCCTCTTCCATCTCTATCCCAAG 58.512 47.826 0.00 0.00 0.00 3.61
374 378 4.559576 TTCCTCTTCCATCTCTATCCCA 57.440 45.455 0.00 0.00 0.00 4.37
376 380 6.678568 TTCATTCCTCTTCCATCTCTATCC 57.321 41.667 0.00 0.00 0.00 2.59
380 384 4.716794 GCATTCATTCCTCTTCCATCTCT 58.283 43.478 0.00 0.00 0.00 3.10
382 386 3.474600 CGCATTCATTCCTCTTCCATCT 58.525 45.455 0.00 0.00 0.00 2.90
478 1227 1.200252 ACGGTGAGATCAGTCGTGAAG 59.800 52.381 9.43 0.00 35.88 3.02
496 1245 7.222031 TGAAAAATCCTCGTAGATGTTATCACG 59.778 37.037 0.00 0.00 36.13 4.35
541 1301 1.699634 ACTGCGTCATGCCCCTAATAT 59.300 47.619 0.00 0.00 45.60 1.28
542 1302 1.128200 ACTGCGTCATGCCCCTAATA 58.872 50.000 0.00 0.00 45.60 0.98
543 1303 0.464373 CACTGCGTCATGCCCCTAAT 60.464 55.000 0.00 0.00 45.60 1.73
740 1500 0.243907 GCGACCTTGACTGCTGACTA 59.756 55.000 0.00 0.00 0.00 2.59
870 7125 3.507233 AGCATCCACAAATGTTTGATCGT 59.493 39.130 12.09 0.00 40.55 3.73
883 7138 1.080093 GACGAACCGAGCATCCACA 60.080 57.895 0.00 0.00 0.00 4.17
1068 7359 1.982395 AGGGACAAGCCGATCGTCA 60.982 57.895 15.09 0.00 37.63 4.35
2017 12370 1.833630 TCTGCCTACACTCCATTCCTG 59.166 52.381 0.00 0.00 0.00 3.86
2022 12375 2.363680 CGAGAATCTGCCTACACTCCAT 59.636 50.000 0.00 0.00 0.00 3.41
2027 12380 0.872021 CGCCGAGAATCTGCCTACAC 60.872 60.000 0.00 0.00 42.82 2.90
2084 12440 1.299976 CCCGGCAAGGCTAAGAAGT 59.700 57.895 0.00 0.00 39.21 3.01
2359 13031 2.996621 GACAACGATGGAGAAGTTGAGG 59.003 50.000 13.48 0.00 45.66 3.86
2375 13047 5.857822 AATAACAAAGCTAGTCGGACAAC 57.142 39.130 11.27 0.00 0.00 3.32
2402 13074 7.422878 AAAGAAGGAAAGTTGTAGAACGATC 57.577 36.000 0.00 0.29 37.15 3.69
2708 14875 6.939730 TGCAGATGATTACCAAAACACTAGAA 59.060 34.615 0.00 0.00 0.00 2.10
2806 14974 0.031043 AACGTTTTACTTTGCCCGCC 59.969 50.000 0.00 0.00 0.00 6.13
2875 15141 3.418684 ACTTGGTCTCGGTTTATGCTT 57.581 42.857 0.00 0.00 0.00 3.91
2890 15159 9.801873 CCATAAACCATCTAAAATGTTACTTGG 57.198 33.333 0.00 0.00 0.00 3.61
2965 15234 7.181305 TGTGGACTCCATCTTATTTGGTAGTAA 59.819 37.037 0.00 0.00 35.28 2.24
3009 15278 6.058183 ACGATTGAAATGGGGAGAGATAAAG 58.942 40.000 0.00 0.00 0.00 1.85
3139 15417 5.121298 CGAGCAGTGATTGTAATGATATGGG 59.879 44.000 0.00 0.00 0.00 4.00
3156 15434 2.092321 ACACCTAGTATCTCCGAGCAGT 60.092 50.000 0.00 0.00 0.00 4.40
3247 15724 7.270047 CCAATTAATGAACTCATGGAAGCAAT 58.730 34.615 0.00 0.00 36.56 3.56
3691 16233 5.016051 TCTACTTAGCCTCTTGATTGCAG 57.984 43.478 0.00 0.00 0.00 4.41
3833 16376 6.715718 AGCTCTTATTAGGCAGATACTCGTAA 59.284 38.462 0.00 0.00 0.00 3.18
3948 16512 9.390795 CAACAACAATTTTCTTGAGTCATCTAG 57.609 33.333 0.00 0.00 0.00 2.43
4248 16823 4.722194 TGAGCAATTCAATTGTAAGCGAC 58.278 39.130 11.80 5.95 42.20 5.19
4838 17459 5.008217 TGAAAATTATTACTTCATCGCCCCG 59.992 40.000 0.00 0.00 0.00 5.73
5009 17638 5.666969 TCTGGAGTTCAAATACAAACACG 57.333 39.130 0.00 0.00 0.00 4.49
5161 18179 7.445402 CCTAATCACTTGTATCCAATGTAAGGG 59.555 40.741 0.00 0.00 0.00 3.95
5212 18230 7.059448 ACAAGTAAACACAAAAACATTGCAG 57.941 32.000 0.00 0.00 0.00 4.41
5250 18268 3.726557 TGAAAGCATGGATTCTGGACT 57.273 42.857 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.