Multiple sequence alignment - TraesCS3B01G455300

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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 TraesCS3B01G455300 chr3B 100.000 2852 0 0 1 2852 696977027 696979878 0.000000e+00 5267
1 TraesCS3B01G455300 chr3B 89.634 164 15 2 2668 2830 736416002 736415840 1.040000e-49 207
2 TraesCS3B01G455300 chr3B 86.441 118 14 2 2125 2242 252558287 252558402 8.290000e-26 128
3 TraesCS3B01G455300 chr3B 89.583 96 10 0 2145 2240 60259656 60259751 3.860000e-24 122
4 TraesCS3B01G455300 chr3B 89.474 95 8 2 2145 2238 60259748 60259655 4.990000e-23 119
5 TraesCS3B01G455300 chr3D 94.460 2852 97 30 34 2852 527146128 527148951 0.000000e+00 4335
6 TraesCS3B01G455300 chr3D 90.244 164 14 2 2668 2830 45491604 45491766 2.230000e-51 213
7 TraesCS3B01G455300 chr3D 87.879 99 7 4 2145 2240 37760912 37760816 8.350000e-21 111
8 TraesCS3B01G455300 chr3A 91.849 2883 132 41 1 2846 661790520 661793336 0.000000e+00 3927
9 TraesCS3B01G455300 chr7B 89.024 164 16 2 2668 2830 164156734 164156572 4.820000e-48 202
10 TraesCS3B01G455300 chr7B 87.629 97 8 4 2145 2240 13866617 13866710 3.000000e-20 110
11 TraesCS3B01G455300 chr6A 89.024 164 16 2 2668 2830 60154254 60154416 4.820000e-48 202
12 TraesCS3B01G455300 chr2B 88.750 160 16 2 2668 2826 296049278 296049120 8.060000e-46 195
13 TraesCS3B01G455300 chr2D 89.000 100 11 0 2140 2239 395132312 395132213 1.070000e-24 124
14 TraesCS3B01G455300 chr5A 86.458 96 11 2 2145 2239 533944281 533944187 1.400000e-18 104


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 TraesCS3B01G455300 chr3B 696977027 696979878 2851 False 5267 5267 100.000 1 2852 1 chr3B.!!$F3 2851
1 TraesCS3B01G455300 chr3D 527146128 527148951 2823 False 4335 4335 94.460 34 2852 1 chr3D.!!$F2 2818
2 TraesCS3B01G455300 chr3A 661790520 661793336 2816 False 3927 3927 91.849 1 2846 1 chr3A.!!$F1 2845

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
140 141 0.107017 ATCCAAGCATCTTCACCCCG 60.107 55.0 0.0 0.0 0.0 5.73 F
223 235 0.181114 ATGATACGCCATGCCTGTGT 59.819 50.0 0.0 0.0 0.0 3.72 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1510 1537 0.179234 GTAGGAGCAAGGAAGGAGGC 59.821 60.0 0.0 0.0 0.0 4.70 R
2136 2172 0.529992 GGACGGAGGGAGCATTAACG 60.530 60.0 0.0 0.0 0.0 3.18 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
27 28 4.717629 CGCCGTCGTGCTCAAGGA 62.718 66.667 4.57 0.00 0.00 3.36
28 29 2.811317 GCCGTCGTGCTCAAGGAG 60.811 66.667 0.00 0.00 0.00 3.69
29 30 2.125912 CCGTCGTGCTCAAGGAGG 60.126 66.667 0.00 0.00 0.00 4.30
30 31 2.636412 CCGTCGTGCTCAAGGAGGA 61.636 63.158 0.00 0.00 31.72 3.71
31 32 1.153939 CGTCGTGCTCAAGGAGGAG 60.154 63.158 0.00 0.00 37.97 3.69
57 58 4.950050 AGAGCGAGAGAAGAAAACAAGAA 58.050 39.130 0.00 0.00 0.00 2.52
112 113 4.504916 CCACGCTGCTCTCTCCGG 62.505 72.222 0.00 0.00 0.00 5.14
139 140 2.027385 GAATCCAAGCATCTTCACCCC 58.973 52.381 0.00 0.00 0.00 4.95
140 141 0.107017 ATCCAAGCATCTTCACCCCG 60.107 55.000 0.00 0.00 0.00 5.73
141 142 1.198094 TCCAAGCATCTTCACCCCGA 61.198 55.000 0.00 0.00 0.00 5.14
172 184 1.461268 TTCCCACACTCCTCTGGCA 60.461 57.895 0.00 0.00 0.00 4.92
173 185 0.842030 TTCCCACACTCCTCTGGCAT 60.842 55.000 0.00 0.00 0.00 4.40
179 191 3.134623 CCACACTCCTCTGGCATATACAA 59.865 47.826 0.00 0.00 0.00 2.41
216 228 3.721035 TGTTCAGAGATGATACGCCATG 58.279 45.455 0.00 0.00 0.00 3.66
217 229 2.445565 TCAGAGATGATACGCCATGC 57.554 50.000 0.00 0.00 0.00 4.06
218 230 1.001293 TCAGAGATGATACGCCATGCC 59.999 52.381 0.00 0.00 0.00 4.40
220 232 1.001746 AGAGATGATACGCCATGCCTG 59.998 52.381 0.00 0.00 0.00 4.85
221 233 0.761187 AGATGATACGCCATGCCTGT 59.239 50.000 0.00 0.00 0.00 4.00
222 234 0.870393 GATGATACGCCATGCCTGTG 59.130 55.000 0.00 0.00 0.00 3.66
223 235 0.181114 ATGATACGCCATGCCTGTGT 59.819 50.000 0.00 0.00 0.00 3.72
224 236 0.744057 TGATACGCCATGCCTGTGTG 60.744 55.000 0.00 0.00 0.00 3.82
227 239 3.807538 CGCCATGCCTGTGTGCTC 61.808 66.667 0.00 0.00 0.00 4.26
235 247 1.374190 CCTGTGTGCTCTGCTTCCT 59.626 57.895 0.00 0.00 0.00 3.36
242 254 1.748500 GCTCTGCTTCCTCTTGGCC 60.749 63.158 0.00 0.00 0.00 5.36
250 262 2.747855 CCTCTTGGCCTTCACCGC 60.748 66.667 3.32 0.00 0.00 5.68
256 268 4.329831 GGCCTTCACCGCCATTAA 57.670 55.556 0.00 0.00 46.27 1.40
257 269 1.807226 GGCCTTCACCGCCATTAAC 59.193 57.895 0.00 0.00 46.27 2.01
258 270 1.663379 GGCCTTCACCGCCATTAACC 61.663 60.000 0.00 0.00 46.27 2.85
259 271 0.963355 GCCTTCACCGCCATTAACCA 60.963 55.000 0.00 0.00 0.00 3.67
260 272 1.762708 CCTTCACCGCCATTAACCAT 58.237 50.000 0.00 0.00 0.00 3.55
279 291 2.103153 TCCCAAGCATCCTAGGTAGG 57.897 55.000 9.08 0.58 45.02 3.18
297 309 2.716217 AGGTAGTTCCTTGAAGCATGC 58.284 47.619 10.51 10.51 45.67 4.06
298 310 2.040278 AGGTAGTTCCTTGAAGCATGCA 59.960 45.455 21.98 0.00 45.67 3.96
299 311 2.162408 GGTAGTTCCTTGAAGCATGCAC 59.838 50.000 21.98 13.92 0.00 4.57
300 312 0.877071 AGTTCCTTGAAGCATGCACG 59.123 50.000 21.98 2.64 0.00 5.34
318 330 4.688879 TGCACGTCCTTTAACTGAACATAG 59.311 41.667 0.00 0.00 0.00 2.23
461 473 3.550842 GGCGCAAATAATTGACCCATCTC 60.551 47.826 10.83 0.00 38.94 2.75
630 643 0.961753 GCAAGAAGGGACAAAGGTGG 59.038 55.000 0.00 0.00 0.00 4.61
710 723 2.474266 CCGTGTGTGCGTGCATAC 59.526 61.111 13.91 13.91 38.32 2.39
1029 1056 1.299976 CAGCCCCACAACTACCTCC 59.700 63.158 0.00 0.00 0.00 4.30
1151 1178 7.054855 CACTACAAATACTGAGTGCTCTTTC 57.945 40.000 0.00 0.00 33.48 2.62
1153 1180 7.062839 CACTACAAATACTGAGTGCTCTTTCTC 59.937 40.741 0.00 0.00 33.48 2.87
1169 1196 5.802465 TCTTTCTCTGTTCTTGCATGAGAT 58.198 37.500 0.00 0.00 34.35 2.75
1245 1272 8.082852 TCACTAGTTTCACTTCAATCTACTGTC 58.917 37.037 0.00 0.00 0.00 3.51
1341 1368 6.346477 TCAAGGTACATATGCCATCTAGTC 57.654 41.667 1.58 0.00 31.71 2.59
1402 1429 9.665719 TCTAGTGTTTTCAGCACATGATAAATA 57.334 29.630 0.00 0.00 37.89 1.40
1407 1434 7.492020 TGTTTTCAGCACATGATAAATAATGCC 59.508 33.333 0.00 0.00 37.89 4.40
1459 1486 7.182817 TGCTTGAAATACTACATACCTGTCT 57.817 36.000 0.00 0.00 36.79 3.41
1478 1505 5.626142 TGTCTATGGAGTTTTTGGTAAGCA 58.374 37.500 0.00 0.00 0.00 3.91
1488 1515 6.769512 AGTTTTTGGTAAGCAGACTGATAGA 58.230 36.000 6.65 0.00 0.00 1.98
1496 1523 6.127310 GGTAAGCAGACTGATAGAAAGAGGAA 60.127 42.308 6.65 0.00 0.00 3.36
1507 1534 4.009370 AGAAAGAGGAAACAGTAGCCAC 57.991 45.455 0.00 0.00 0.00 5.01
1508 1535 3.648545 AGAAAGAGGAAACAGTAGCCACT 59.351 43.478 0.00 0.00 34.42 4.00
1510 1537 3.409026 AGAGGAAACAGTAGCCACTTG 57.591 47.619 0.00 0.00 30.46 3.16
1511 1538 1.807142 GAGGAAACAGTAGCCACTTGC 59.193 52.381 0.00 0.00 41.71 4.01
1513 1540 1.545651 GGAAACAGTAGCCACTTGCCT 60.546 52.381 0.00 0.00 42.71 4.75
1514 1541 1.807142 GAAACAGTAGCCACTTGCCTC 59.193 52.381 0.00 0.00 42.71 4.70
1515 1542 0.036875 AACAGTAGCCACTTGCCTCC 59.963 55.000 0.00 0.00 42.71 4.30
1516 1543 0.838122 ACAGTAGCCACTTGCCTCCT 60.838 55.000 0.00 0.00 42.71 3.69
1522 1549 1.246737 GCCACTTGCCTCCTTCCTTG 61.247 60.000 0.00 0.00 0.00 3.61
1545 1572 4.496175 GCTCCTACAGTTAGTACGAGAAGC 60.496 50.000 0.00 0.00 37.79 3.86
1595 1631 4.537015 GTGCGGGATATGCAAGTTAATTC 58.463 43.478 0.00 0.00 45.23 2.17
1617 1653 1.139455 GAAAATGGGGCCCATGACATG 59.861 52.381 37.89 8.56 44.40 3.21
1776 1812 1.549170 GGGTGTCGATCCAAGTGTACT 59.451 52.381 10.85 0.00 0.00 2.73
1924 1960 4.893829 AGTAGTTTTCCTTCAGTCTCCC 57.106 45.455 0.00 0.00 0.00 4.30
2103 2139 7.695480 TGGTCTGAAATTTTGATATCGGAAA 57.305 32.000 0.00 2.67 0.00 3.13
2136 2172 4.378874 GCTGTGCAGATAACCAGTTTCTTC 60.379 45.833 3.02 0.00 0.00 2.87
2143 2179 6.961554 GCAGATAACCAGTTTCTTCGTTAATG 59.038 38.462 0.00 0.00 0.00 1.90
2168 2204 3.418047 CCTCCGTCCCAAAATAAGTGTT 58.582 45.455 0.00 0.00 0.00 3.32
2223 2259 8.181487 TGTACTAAATCAGCGACACTTATTTC 57.819 34.615 0.00 0.00 34.69 2.17
2224 2260 7.815549 TGTACTAAATCAGCGACACTTATTTCA 59.184 33.333 0.00 0.00 34.69 2.69
2273 2309 9.213799 CTAGAAATCAAATCTATAAGCAGACCC 57.786 37.037 0.00 0.00 0.00 4.46
2281 2317 1.204146 ATAAGCAGACCCCGATGTGT 58.796 50.000 0.00 0.00 0.00 3.72
2315 2351 7.246171 TGAATAGGCTTAGAACTTCAGACTT 57.754 36.000 0.00 0.00 0.00 3.01
2325 2361 5.792741 AGAACTTCAGACTTGATCTTCTGG 58.207 41.667 15.34 6.86 39.86 3.86
2406 2442 7.122055 ACCAGAAGTTGACAGTATCTTCTCTAG 59.878 40.741 9.89 0.00 42.80 2.43
2407 2443 7.122055 CCAGAAGTTGACAGTATCTTCTCTAGT 59.878 40.741 9.89 0.00 42.80 2.57
2408 2444 8.181573 CAGAAGTTGACAGTATCTTCTCTAGTC 58.818 40.741 9.89 0.00 42.80 2.59
2409 2445 8.107095 AGAAGTTGACAGTATCTTCTCTAGTCT 58.893 37.037 7.95 0.00 41.49 3.24
2410 2446 7.859325 AGTTGACAGTATCTTCTCTAGTCTC 57.141 40.000 0.00 0.00 0.00 3.36
2411 2447 7.630082 AGTTGACAGTATCTTCTCTAGTCTCT 58.370 38.462 0.00 0.00 0.00 3.10
2412 2448 8.764558 AGTTGACAGTATCTTCTCTAGTCTCTA 58.235 37.037 0.00 0.00 0.00 2.43
2439 2475 0.820226 CATCTTCAGCTCTCGTGGGA 59.180 55.000 0.00 0.00 0.00 4.37
2473 2509 3.435671 CCCTCTTTCCATGTAACAACGTC 59.564 47.826 0.00 0.00 0.00 4.34
2627 2673 7.125811 AGGTCTAGTTTCATGTATGTACCACAT 59.874 37.037 4.75 4.75 42.35 3.21
2643 2691 5.189659 ACCACATTTTTACGCAAAAGCTA 57.810 34.783 0.00 0.00 37.79 3.32
2704 2752 0.893447 ATTTTGCAAGCAGAGAGGCC 59.107 50.000 0.00 0.00 0.00 5.19
2753 2801 7.035612 ACAAAAGAACAGTTGAAGATTTGTCC 58.964 34.615 0.00 0.00 35.51 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
15 16 0.967887 CCTCTCCTCCTTGAGCACGA 60.968 60.000 0.00 0.00 32.22 4.35
22 23 0.395036 TCGCTCTCCTCTCCTCCTTG 60.395 60.000 0.00 0.00 0.00 3.61
24 25 0.986019 TCTCGCTCTCCTCTCCTCCT 60.986 60.000 0.00 0.00 0.00 3.69
25 26 0.535102 CTCTCGCTCTCCTCTCCTCC 60.535 65.000 0.00 0.00 0.00 4.30
26 27 0.468226 TCTCTCGCTCTCCTCTCCTC 59.532 60.000 0.00 0.00 0.00 3.71
27 28 0.916086 TTCTCTCGCTCTCCTCTCCT 59.084 55.000 0.00 0.00 0.00 3.69
28 29 1.134220 TCTTCTCTCGCTCTCCTCTCC 60.134 57.143 0.00 0.00 0.00 3.71
29 30 2.325583 TCTTCTCTCGCTCTCCTCTC 57.674 55.000 0.00 0.00 0.00 3.20
30 31 2.799126 TTCTTCTCTCGCTCTCCTCT 57.201 50.000 0.00 0.00 0.00 3.69
31 32 3.057174 TGTTTTCTTCTCTCGCTCTCCTC 60.057 47.826 0.00 0.00 0.00 3.71
57 58 1.192146 TGCGTTTCTCCCAGCCTAGT 61.192 55.000 0.00 0.00 0.00 2.57
112 113 4.097437 TGAAGATGCTTGGATTCTGCATTC 59.903 41.667 6.52 3.77 45.90 2.67
139 140 0.875059 GGGAACTGGAAAAGCAGTCG 59.125 55.000 0.00 0.00 0.00 4.18
140 141 1.609072 GTGGGAACTGGAAAAGCAGTC 59.391 52.381 0.00 0.00 0.00 3.51
141 142 1.064017 TGTGGGAACTGGAAAAGCAGT 60.064 47.619 0.00 0.00 0.00 4.40
172 184 7.734924 CATGCAGAGGTGTATGTTTGTATAT 57.265 36.000 0.00 0.00 40.78 0.86
216 228 2.331132 GGAAGCAGAGCACACAGGC 61.331 63.158 0.00 0.00 0.00 4.85
217 229 0.673022 GAGGAAGCAGAGCACACAGG 60.673 60.000 0.00 0.00 0.00 4.00
218 230 0.321021 AGAGGAAGCAGAGCACACAG 59.679 55.000 0.00 0.00 0.00 3.66
220 232 1.155042 CAAGAGGAAGCAGAGCACAC 58.845 55.000 0.00 0.00 0.00 3.82
221 233 0.035881 CCAAGAGGAAGCAGAGCACA 59.964 55.000 0.00 0.00 36.89 4.57
222 234 1.304509 GCCAAGAGGAAGCAGAGCAC 61.305 60.000 0.00 0.00 36.89 4.40
223 235 1.002868 GCCAAGAGGAAGCAGAGCA 60.003 57.895 0.00 0.00 36.89 4.26
224 236 1.748500 GGCCAAGAGGAAGCAGAGC 60.749 63.158 0.00 0.00 36.89 4.09
227 239 0.037303 TGAAGGCCAAGAGGAAGCAG 59.963 55.000 5.01 0.00 36.89 4.24
242 254 1.676006 GGATGGTTAATGGCGGTGAAG 59.324 52.381 0.00 0.00 0.00 3.02
250 262 2.629617 GGATGCTTGGGATGGTTAATGG 59.370 50.000 0.00 0.00 0.00 3.16
254 266 2.711009 CCTAGGATGCTTGGGATGGTTA 59.289 50.000 1.05 0.00 0.00 2.85
256 268 1.143813 CCTAGGATGCTTGGGATGGT 58.856 55.000 1.05 0.00 0.00 3.55
257 269 1.143813 ACCTAGGATGCTTGGGATGG 58.856 55.000 17.98 2.84 0.00 3.51
258 270 2.304180 CCTACCTAGGATGCTTGGGATG 59.696 54.545 17.98 3.85 46.63 3.51
259 271 2.089925 ACCTACCTAGGATGCTTGGGAT 60.090 50.000 17.98 1.73 46.63 3.85
260 272 1.294068 ACCTACCTAGGATGCTTGGGA 59.706 52.381 17.98 9.51 46.63 4.37
279 291 2.159653 CGTGCATGCTTCAAGGAACTAC 60.160 50.000 20.33 2.71 38.49 2.73
297 309 5.235516 ACCTATGTTCAGTTAAAGGACGTG 58.764 41.667 0.00 0.00 0.00 4.49
298 310 5.479124 ACCTATGTTCAGTTAAAGGACGT 57.521 39.130 0.00 0.00 0.00 4.34
299 311 6.128363 GGAAACCTATGTTCAGTTAAAGGACG 60.128 42.308 0.00 0.00 32.15 4.79
300 312 6.940867 AGGAAACCTATGTTCAGTTAAAGGAC 59.059 38.462 0.00 0.00 32.15 3.85
318 330 1.557371 CCTGAGGGAGAAGAGGAAACC 59.443 57.143 0.00 0.00 33.58 3.27
461 473 1.141185 GAGGTTATGGAGGGAAGGGG 58.859 60.000 0.00 0.00 0.00 4.79
630 643 0.042274 GCATTGTTTTTGCACCGCAC 60.042 50.000 0.00 0.00 38.71 5.34
710 723 2.826287 TGGCTCCGCTCTCTCTCG 60.826 66.667 0.00 0.00 0.00 4.04
1011 1038 1.299976 GGAGGTAGTTGTGGGGCTG 59.700 63.158 0.00 0.00 0.00 4.85
1145 1172 5.236282 TCTCATGCAAGAACAGAGAAAGAG 58.764 41.667 0.00 0.00 32.83 2.85
1151 1178 3.181499 GCCAATCTCATGCAAGAACAGAG 60.181 47.826 0.00 0.00 0.00 3.35
1153 1180 2.753452 AGCCAATCTCATGCAAGAACAG 59.247 45.455 0.00 0.00 0.00 3.16
1169 1196 7.977789 AAGAAAGAAAAAGAAAACAAGCCAA 57.022 28.000 0.00 0.00 0.00 4.52
1245 1272 1.489481 TCTCCATAGTCTGCACCTGG 58.511 55.000 0.00 0.00 0.00 4.45
1300 1327 2.416747 TGATGTTCTCTTGCAAGTCCG 58.583 47.619 25.19 14.91 0.00 4.79
1341 1368 6.183360 ACCTATAAGAACGGCACTTAGTACTG 60.183 42.308 5.39 0.00 34.13 2.74
1380 1407 8.323140 GCATTATTTATCATGTGCTGAAAACAC 58.677 33.333 0.00 0.00 37.44 3.32
1402 1429 9.247861 AGTTTACAGAATCTTTATTCAGGCATT 57.752 29.630 1.35 0.00 43.44 3.56
1449 1476 6.180472 ACCAAAAACTCCATAGACAGGTATG 58.820 40.000 0.00 0.00 0.00 2.39
1459 1486 5.705441 CAGTCTGCTTACCAAAAACTCCATA 59.295 40.000 0.00 0.00 0.00 2.74
1478 1505 6.926630 ACTGTTTCCTCTTTCTATCAGTCT 57.073 37.500 0.00 0.00 30.65 3.24
1488 1515 4.137543 CAAGTGGCTACTGTTTCCTCTTT 58.862 43.478 2.40 0.00 37.19 2.52
1507 1534 0.679321 GGAGCAAGGAAGGAGGCAAG 60.679 60.000 0.00 0.00 0.00 4.01
1508 1535 1.136329 AGGAGCAAGGAAGGAGGCAA 61.136 55.000 0.00 0.00 0.00 4.52
1510 1537 0.179234 GTAGGAGCAAGGAAGGAGGC 59.821 60.000 0.00 0.00 0.00 4.70
1511 1538 1.484240 CTGTAGGAGCAAGGAAGGAGG 59.516 57.143 0.00 0.00 0.00 4.30
1513 1540 2.327325 ACTGTAGGAGCAAGGAAGGA 57.673 50.000 0.00 0.00 0.00 3.36
1514 1541 3.515901 ACTAACTGTAGGAGCAAGGAAGG 59.484 47.826 0.00 0.00 0.00 3.46
1515 1542 4.810191 ACTAACTGTAGGAGCAAGGAAG 57.190 45.455 0.00 0.00 0.00 3.46
1516 1543 4.157289 CGTACTAACTGTAGGAGCAAGGAA 59.843 45.833 0.00 0.00 38.81 3.36
1545 1572 5.008019 TGCTGTTTTGCTCTTGTTCTTAGAG 59.992 40.000 0.00 0.00 41.64 2.43
1577 1605 6.385649 TTTCCGAATTAACTTGCATATCCC 57.614 37.500 0.00 0.00 0.00 3.85
1595 1631 1.381056 TCATGGGCCCCATTTTCCG 60.381 57.895 22.27 0.87 42.23 4.30
1617 1653 4.082026 AGTTATTGTTGCTTTCAGATGGCC 60.082 41.667 0.00 0.00 0.00 5.36
1776 1812 1.597854 CACCGGAACTTGCTCAGCA 60.598 57.895 9.46 0.00 36.47 4.41
1896 1932 6.434965 AGACTGAAGGAAAACTACTACTCTCC 59.565 42.308 0.00 0.00 0.00 3.71
1924 1960 9.161629 GAGAAAGAGAATAGAAGGAAAAGAAGG 57.838 37.037 0.00 0.00 0.00 3.46
2136 2172 0.529992 GGACGGAGGGAGCATTAACG 60.530 60.000 0.00 0.00 0.00 3.18
2143 2179 0.544697 TATTTTGGGACGGAGGGAGC 59.455 55.000 0.00 0.00 0.00 4.70
2168 2204 7.499292 TGTACTAACTTTGTACTAAACCAGCA 58.501 34.615 12.73 0.00 40.44 4.41
2223 2259 3.069586 TGCAATATACTCCCTCCGTCTTG 59.930 47.826 0.00 0.00 0.00 3.02
2224 2260 3.305720 TGCAATATACTCCCTCCGTCTT 58.694 45.455 0.00 0.00 0.00 3.01
2273 2309 2.416747 TCAAGCAGAAGAACACATCGG 58.583 47.619 0.00 0.00 0.00 4.18
2281 2317 6.299805 TCTAAGCCTATTCAAGCAGAAGAA 57.700 37.500 0.00 0.00 40.15 2.52
2315 2351 3.685139 GACCAACAGTCCAGAAGATCA 57.315 47.619 0.00 0.00 39.84 2.92
2406 2442 1.414550 GAAGATGCCCAGGGTAGAGAC 59.585 57.143 7.55 0.00 0.00 3.36
2407 2443 1.008327 TGAAGATGCCCAGGGTAGAGA 59.992 52.381 7.55 0.00 0.00 3.10
2408 2444 1.415659 CTGAAGATGCCCAGGGTAGAG 59.584 57.143 7.55 0.00 0.00 2.43
2409 2445 1.500474 CTGAAGATGCCCAGGGTAGA 58.500 55.000 7.55 0.00 0.00 2.59
2410 2446 0.179034 GCTGAAGATGCCCAGGGTAG 60.179 60.000 7.55 0.00 0.00 3.18
2411 2447 0.621571 AGCTGAAGATGCCCAGGGTA 60.622 55.000 7.55 1.82 0.00 3.69
2412 2448 1.919600 GAGCTGAAGATGCCCAGGGT 61.920 60.000 7.55 0.00 0.00 4.34
2473 2509 2.289444 CCCTTGTACAGTACAGGTGGTG 60.289 54.545 18.75 6.10 40.24 4.17
2704 2752 2.764314 GCATACAAGGCACCCTGCG 61.764 63.158 0.00 0.00 46.21 5.18
2786 2834 0.044855 AGCATCCTTACCCCTCCAGT 59.955 55.000 0.00 0.00 0.00 4.00
2787 2835 1.216990 AAGCATCCTTACCCCTCCAG 58.783 55.000 0.00 0.00 0.00 3.86
2788 2836 2.579624 TAAGCATCCTTACCCCTCCA 57.420 50.000 0.00 0.00 32.47 3.86
2789 2837 5.724854 TGTATATAAGCATCCTTACCCCTCC 59.275 44.000 0.00 0.00 36.43 4.30


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

AutoCloner maintained by Alex Coulton.