Multiple sequence alignment - TraesCS2D01G204800

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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 TraesCS2D01G204800 chr2D 100.000 5612 0 0 1 5612 156714900 156709289 0.000000e+00 10364.0
1 TraesCS2D01G204800 chr2D 90.785 1096 92 4 1267 2361 182570519 182571606 0.000000e+00 1456.0
2 TraesCS2D01G204800 chr2D 87.482 687 54 13 3699 4354 182572865 182573550 0.000000e+00 763.0
3 TraesCS2D01G204800 chr2D 81.258 795 83 26 2345 3108 182571621 182572380 2.910000e-162 582.0
4 TraesCS2D01G204800 chr2D 90.842 404 29 5 5213 5612 182573697 182574096 8.280000e-148 534.0
5 TraesCS2D01G204800 chr2D 87.473 455 30 7 5158 5612 156594705 156594278 3.020000e-137 499.0
6 TraesCS2D01G204800 chr2D 81.412 425 55 12 3827 4230 156595773 156595352 5.420000e-85 326.0
7 TraesCS2D01G204800 chr2B 96.225 4901 129 25 729 5612 214319619 214314758 0.000000e+00 7974.0
8 TraesCS2D01G204800 chr2B 96.421 475 17 0 1053 1527 281487341 281486867 0.000000e+00 784.0
9 TraesCS2D01G204800 chr2B 95.436 482 20 2 1048 1527 673104350 673104831 0.000000e+00 767.0
10 TraesCS2D01G204800 chr2B 95.579 475 21 0 1053 1527 310456434 310456908 0.000000e+00 761.0
11 TraesCS2D01G204800 chr2B 95.368 475 22 0 1053 1527 677947594 677947120 0.000000e+00 756.0
12 TraesCS2D01G204800 chr2B 93.056 504 23 6 239 739 214323310 214322816 0.000000e+00 726.0
13 TraesCS2D01G204800 chr2B 92.128 343 27 0 5270 5612 214283305 214282963 8.450000e-133 484.0
14 TraesCS2D01G204800 chr2B 92.208 231 12 5 1 225 214323526 214323296 7.010000e-84 322.0
15 TraesCS2D01G204800 chr2B 96.850 127 4 0 1053 1179 748407880 748408006 4.400000e-51 213.0
16 TraesCS2D01G204800 chr2A 95.221 4938 150 32 739 5612 166634832 166629917 0.000000e+00 7733.0
17 TraesCS2D01G204800 chr2A 91.065 1813 86 25 2207 4004 447942904 447944655 0.000000e+00 2381.0
18 TraesCS2D01G204800 chr2A 86.082 1825 176 33 2584 4354 197562010 197563810 0.000000e+00 1892.0
19 TraesCS2D01G204800 chr2A 87.273 1375 124 14 1033 2375 197560640 197561995 0.000000e+00 1522.0
20 TraesCS2D01G204800 chr2A 86.282 1232 117 18 3167 4354 197333272 197334495 0.000000e+00 1291.0
21 TraesCS2D01G204800 chr2A 91.828 722 30 13 2207 2927 398506766 398506073 0.000000e+00 979.0
22 TraesCS2D01G204800 chr2A 91.828 722 30 13 2207 2927 398765696 398765003 0.000000e+00 979.0
23 TraesCS2D01G204800 chr2A 85.052 669 90 8 2447 3108 197332613 197333278 0.000000e+00 673.0
24 TraesCS2D01G204800 chr2A 91.089 505 20 8 239 742 166638564 166638084 0.000000e+00 660.0
25 TraesCS2D01G204800 chr2A 90.099 404 32 5 5213 5612 197563957 197564356 8.330000e-143 518.0
26 TraesCS2D01G204800 chr2A 86.881 404 45 5 5213 5612 197334641 197335040 3.990000e-121 446.0
27 TraesCS2D01G204800 chr2A 93.450 229 11 4 1 225 166638778 166638550 2.500000e-88 337.0
28 TraesCS2D01G204800 chr2A 79.953 429 56 15 3827 4230 166257755 166257332 7.110000e-74 289.0
29 TraesCS2D01G204800 chr2A 77.778 180 10 14 5155 5334 166256698 166256549 3.600000e-12 84.2
30 TraesCS2D01G204800 chr4B 96.218 476 17 1 1053 1528 639306252 639306726 0.000000e+00 778.0
31 TraesCS2D01G204800 chr4B 75.504 347 64 21 3039 3376 75193661 75193327 3.500000e-32 150.0
32 TraesCS2D01G204800 chr1B 95.368 475 22 0 1053 1527 649829135 649828661 0.000000e+00 756.0
33 TraesCS2D01G204800 chr1B 86.900 458 33 11 5155 5612 148414034 148414464 6.530000e-134 488.0
34 TraesCS2D01G204800 chr3B 95.262 401 19 0 1127 1527 697384165 697384565 2.210000e-178 636.0
35 TraesCS2D01G204800 chr1A 90.933 386 9 7 2210 2595 512491084 512491443 3.910000e-136 496.0
36 TraesCS2D01G204800 chr1A 91.404 349 28 2 5265 5612 90161333 90161680 1.410000e-130 477.0
37 TraesCS2D01G204800 chrUn 71.118 1610 312 105 3040 4606 27474181 27475680 7.220000e-64 255.0
38 TraesCS2D01G204800 chr6A 70.423 1606 319 104 3040 4606 46698241 46696753 2.060000e-44 191.0
39 TraesCS2D01G204800 chr6A 73.624 527 98 28 3038 3542 32884983 32884476 1.250000e-36 165.0
40 TraesCS2D01G204800 chr6D 81.250 208 33 3 3038 3244 29851966 29852168 4.500000e-36 163.0


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 TraesCS2D01G204800 chr2D 156709289 156714900 5611 True 10364.000000 10364 100.000000 1 5612 1 chr2D.!!$R1 5611
1 TraesCS2D01G204800 chr2D 182570519 182574096 3577 False 833.750000 1456 87.591750 1267 5612 4 chr2D.!!$F1 4345
2 TraesCS2D01G204800 chr2D 156594278 156595773 1495 True 412.500000 499 84.442500 3827 5612 2 chr2D.!!$R2 1785
3 TraesCS2D01G204800 chr2B 214314758 214323526 8768 True 3007.333333 7974 93.829667 1 5612 3 chr2B.!!$R4 5611
4 TraesCS2D01G204800 chr2A 166629917 166638778 8861 True 2910.000000 7733 93.253333 1 5612 3 chr2A.!!$R4 5611
5 TraesCS2D01G204800 chr2A 447942904 447944655 1751 False 2381.000000 2381 91.065000 2207 4004 1 chr2A.!!$F1 1797
6 TraesCS2D01G204800 chr2A 197560640 197564356 3716 False 1310.666667 1892 87.818000 1033 5612 3 chr2A.!!$F3 4579
7 TraesCS2D01G204800 chr2A 398506073 398506766 693 True 979.000000 979 91.828000 2207 2927 1 chr2A.!!$R1 720
8 TraesCS2D01G204800 chr2A 398765003 398765696 693 True 979.000000 979 91.828000 2207 2927 1 chr2A.!!$R2 720
9 TraesCS2D01G204800 chr2A 197332613 197335040 2427 False 803.333333 1291 86.071667 2447 5612 3 chr2A.!!$F2 3165
10 TraesCS2D01G204800 chrUn 27474181 27475680 1499 False 255.000000 255 71.118000 3040 4606 1 chrUn.!!$F1 1566

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
919 4278 0.036306 ACTAACCAGGCCCTTTCGTG 59.964 55.000 0.00 0.0 0.00 4.35 F
1720 5124 0.109272 TACTCCGTGCTCTTCTTGCG 60.109 55.000 0.00 0.0 0.00 4.85 F
2566 6035 0.819582 GGAACTGTGGGCATTCATGG 59.180 55.000 0.00 0.0 0.00 3.66 F
2806 6283 3.157087 ACATACAAGCCAGAAAAGTGGG 58.843 45.455 0.00 0.0 38.14 4.61 F
4201 7831 0.107945 TTGTGGTGGCCAGTTTTTGC 60.108 50.000 5.11 0.0 32.34 3.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2444 5912 0.110678 AGTCACGTGAGGTCTCTCCA 59.889 55.000 20.73 0.0 39.23 3.86 R
3403 6971 5.786311 ACAACTGAATCCATTTTGACATGG 58.214 37.500 0.00 0.0 44.80 3.66 R
4184 7813 0.177836 AAGCAAAAACTGGCCACCAC 59.822 50.000 0.00 0.0 0.00 4.16 R
4497 8129 1.881973 GCTTCCTCATTGAGTTGCACA 59.118 47.619 12.54 0.0 0.00 4.57 R
5256 9019 1.661341 CAGAATTCTGAAGGCTCCCG 58.339 55.000 28.13 0.0 46.59 5.14 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
146 151 5.972973 CGACAAATGAATATGGACACATTGG 59.027 40.000 0.00 0.00 38.53 3.16
151 156 6.659745 ATGAATATGGACACATTGGATTGG 57.340 37.500 0.00 0.00 38.53 3.16
214 221 2.305635 TGCATGAGAACTGGGCTTAGAA 59.694 45.455 0.00 0.00 0.00 2.10
215 222 2.680339 GCATGAGAACTGGGCTTAGAAC 59.320 50.000 0.00 0.00 0.00 3.01
216 223 3.869912 GCATGAGAACTGGGCTTAGAACA 60.870 47.826 0.00 0.00 0.00 3.18
217 224 4.326826 CATGAGAACTGGGCTTAGAACAA 58.673 43.478 0.00 0.00 0.00 2.83
218 225 4.431416 TGAGAACTGGGCTTAGAACAAA 57.569 40.909 0.00 0.00 0.00 2.83
219 226 4.389374 TGAGAACTGGGCTTAGAACAAAG 58.611 43.478 0.00 0.00 0.00 2.77
220 227 4.102524 TGAGAACTGGGCTTAGAACAAAGA 59.897 41.667 0.00 0.00 0.00 2.52
221 228 5.048846 AGAACTGGGCTTAGAACAAAGAA 57.951 39.130 0.00 0.00 0.00 2.52
222 229 5.066593 AGAACTGGGCTTAGAACAAAGAAG 58.933 41.667 0.00 0.00 0.00 2.85
223 230 3.149981 ACTGGGCTTAGAACAAAGAAGC 58.850 45.455 0.00 0.00 43.92 3.86
224 231 3.181439 ACTGGGCTTAGAACAAAGAAGCT 60.181 43.478 5.88 0.00 44.07 3.74
225 232 3.823304 CTGGGCTTAGAACAAAGAAGCTT 59.177 43.478 0.00 0.00 44.07 3.74
226 233 4.215109 TGGGCTTAGAACAAAGAAGCTTT 58.785 39.130 0.00 0.00 44.07 3.51
227 234 4.649218 TGGGCTTAGAACAAAGAAGCTTTT 59.351 37.500 0.00 0.00 44.07 2.27
228 235 5.128663 TGGGCTTAGAACAAAGAAGCTTTTT 59.871 36.000 0.00 0.00 44.07 1.94
284 291 4.396166 AGCTCGTAATGCTTTGTATTTGCT 59.604 37.500 0.00 0.00 37.52 3.91
292 299 3.067461 TGCTTTGTATTTGCTTGACGGTT 59.933 39.130 0.00 0.00 0.00 4.44
298 305 4.336993 TGTATTTGCTTGACGGTTGTTTCT 59.663 37.500 0.00 0.00 0.00 2.52
303 310 2.833794 CTTGACGGTTGTTTCTCCTGA 58.166 47.619 0.00 0.00 0.00 3.86
402 412 3.210012 TTGCCCCCTCTTGCTCCAC 62.210 63.158 0.00 0.00 0.00 4.02
416 426 1.134521 GCTCCACGACCATATCAACCA 60.135 52.381 0.00 0.00 0.00 3.67
526 536 2.107901 ACTACCGATCCCTCCGTCTTAT 59.892 50.000 0.00 0.00 0.00 1.73
527 537 2.965671 ACCGATCCCTCCGTCTTATA 57.034 50.000 0.00 0.00 0.00 0.98
528 538 3.453059 ACCGATCCCTCCGTCTTATAT 57.547 47.619 0.00 0.00 0.00 0.86
529 539 3.354467 ACCGATCCCTCCGTCTTATATC 58.646 50.000 0.00 0.00 0.00 1.63
531 541 3.008330 CGATCCCTCCGTCTTATATCGT 58.992 50.000 0.00 0.00 32.34 3.73
532 542 3.181509 CGATCCCTCCGTCTTATATCGTG 60.182 52.174 0.00 0.00 32.34 4.35
533 543 3.497103 TCCCTCCGTCTTATATCGTGA 57.503 47.619 0.00 0.00 0.00 4.35
534 544 3.409570 TCCCTCCGTCTTATATCGTGAG 58.590 50.000 0.00 0.00 0.00 3.51
536 546 3.188873 CCCTCCGTCTTATATCGTGAGAC 59.811 52.174 0.00 0.00 46.97 3.36
537 547 3.813724 CCTCCGTCTTATATCGTGAGACA 59.186 47.826 0.00 0.00 46.97 3.41
816 4169 8.728596 TTTTTAGGGGAAAATCCAGACAATAA 57.271 30.769 0.00 0.00 38.64 1.40
818 4171 7.954666 TTAGGGGAAAATCCAGACAATAAAG 57.045 36.000 0.00 0.00 38.64 1.85
819 4172 5.272402 AGGGGAAAATCCAGACAATAAAGG 58.728 41.667 0.00 0.00 38.64 3.11
884 4243 5.050567 GTCCACCTTTATAAATAACCGCTCG 60.051 44.000 0.00 0.00 0.00 5.03
918 4277 0.769247 AACTAACCAGGCCCTTTCGT 59.231 50.000 0.00 0.00 0.00 3.85
919 4278 0.036306 ACTAACCAGGCCCTTTCGTG 59.964 55.000 0.00 0.00 0.00 4.35
937 4296 1.674651 GAACTTCCTCCAACGCCCC 60.675 63.158 0.00 0.00 0.00 5.80
1241 4638 2.681778 ACCACCTCCCTCTGCTCG 60.682 66.667 0.00 0.00 0.00 5.03
1351 4748 2.732282 CGTCTCTTGCGCTTGAGATGTA 60.732 50.000 28.07 12.03 40.79 2.29
1412 4816 2.492019 AAGCGTTTCTTGGTTTCTGC 57.508 45.000 0.00 0.00 32.79 4.26
1477 4881 1.071385 AGATAATCAGCTCCGGCAAGG 59.929 52.381 0.00 0.00 41.70 3.61
1541 4945 4.581824 TGATTCTTTGCTCTTCTTTGTGCT 59.418 37.500 0.00 0.00 0.00 4.40
1556 4960 3.096489 TGTGCTTTCTTGTGCCAATTC 57.904 42.857 0.00 0.00 0.00 2.17
1566 4970 1.268999 TGTGCCAATTCTTGTGTTCGC 60.269 47.619 0.00 0.00 0.00 4.70
1697 5101 1.606737 GCAGATTAGGCGGATCCTGAC 60.607 57.143 10.75 5.72 46.98 3.51
1720 5124 0.109272 TACTCCGTGCTCTTCTTGCG 60.109 55.000 0.00 0.00 0.00 4.85
1848 5252 4.672587 AGTGTGGTAGCATATTCATCGT 57.327 40.909 0.00 0.00 0.00 3.73
1968 5374 8.166422 AGACAAAGGTAAGAGGTTTTAATGTG 57.834 34.615 0.00 0.00 0.00 3.21
2043 5449 3.118738 ACCTGGACATGATTTCCGTAGAC 60.119 47.826 0.00 0.00 35.70 2.59
2444 5912 3.917072 GACCTCAAGTCGGAAGCTT 57.083 52.632 0.00 0.00 35.30 3.74
2462 5930 0.959553 TTGGAGAGACCTCACGTGAC 59.040 55.000 15.76 5.22 41.20 3.67
2566 6035 0.819582 GGAACTGTGGGCATTCATGG 59.180 55.000 0.00 0.00 0.00 3.66
2596 6065 6.762187 TGTACAAGTAACTGATTTCGTGGAAA 59.238 34.615 0.00 0.00 35.94 3.13
2685 6155 9.477484 GTAGACTTTATACCATTGAGTGTATGG 57.523 37.037 0.00 0.00 46.48 2.74
2806 6283 3.157087 ACATACAAGCCAGAAAAGTGGG 58.843 45.455 0.00 0.00 38.14 4.61
4184 7813 5.636121 CCCAATTCATGTTTCTGACACATTG 59.364 40.000 6.70 4.33 42.04 2.82
4201 7831 0.107945 TTGTGGTGGCCAGTTTTTGC 60.108 50.000 5.11 0.00 32.34 3.68
4287 7917 3.395941 ACCTGGACTTGGAGAAAATGACT 59.604 43.478 0.00 0.00 0.00 3.41
4323 7953 6.798427 TGAGTATCAGCATCTCTACCTTTT 57.202 37.500 0.00 0.00 42.56 2.27
4497 8129 1.407656 TTCAGGTGTCCCTCGTGCTT 61.408 55.000 0.00 0.00 39.89 3.91
4715 8392 0.391130 GCATACACTGAAGCGGGTGA 60.391 55.000 0.00 0.00 37.22 4.02
4742 8420 9.587772 GCTTATACTTGTACATTCTTCTTCTGA 57.412 33.333 0.00 0.00 0.00 3.27
4931 8662 3.346315 TGATAATCACAACCTGGTGCTG 58.654 45.455 0.00 0.00 38.66 4.41
5033 8765 8.117813 TGTATGACATACAGTAAGTCTGAACA 57.882 34.615 21.76 13.03 46.27 3.18
5455 9237 1.202675 GGTCAAGTACACCGTTCCCAA 60.203 52.381 0.00 0.00 0.00 4.12
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 0.602905 AACTAGGACGGTGCTTGTGC 60.603 55.000 16.20 0.00 40.20 4.57
89 91 7.604164 TCTTCAAGTTTCTCACAACTGATATCC 59.396 37.037 0.00 0.00 37.07 2.59
91 93 8.153550 ACTCTTCAAGTTTCTCACAACTGATAT 58.846 33.333 0.00 0.00 37.07 1.63
121 126 6.183360 CCAATGTGTCCATATTCATTTGTCGA 60.183 38.462 0.00 0.00 0.00 4.20
180 187 5.708697 AGTTCTCATGCACAAATTCATCTCA 59.291 36.000 0.00 0.00 0.00 3.27
227 234 7.041107 AGCTTCTTTGTTCTACAATGCAAAAA 58.959 30.769 0.00 0.00 38.00 1.94
228 235 6.572519 AGCTTCTTTGTTCTACAATGCAAAA 58.427 32.000 0.00 0.00 38.00 2.44
229 236 6.147864 AGCTTCTTTGTTCTACAATGCAAA 57.852 33.333 0.00 0.00 38.00 3.68
230 237 5.299028 TGAGCTTCTTTGTTCTACAATGCAA 59.701 36.000 0.00 0.00 38.00 4.08
231 238 4.821260 TGAGCTTCTTTGTTCTACAATGCA 59.179 37.500 0.00 0.00 38.00 3.96
232 239 5.362556 TGAGCTTCTTTGTTCTACAATGC 57.637 39.130 0.00 0.00 38.00 3.56
233 240 6.246449 CGATGAGCTTCTTTGTTCTACAATG 58.754 40.000 0.00 0.00 38.00 2.82
234 241 5.163814 GCGATGAGCTTCTTTGTTCTACAAT 60.164 40.000 0.00 0.00 44.04 2.71
235 242 4.152402 GCGATGAGCTTCTTTGTTCTACAA 59.848 41.667 0.00 0.00 44.04 2.41
236 243 3.679980 GCGATGAGCTTCTTTGTTCTACA 59.320 43.478 0.00 0.00 44.04 2.74
237 244 4.251960 GCGATGAGCTTCTTTGTTCTAC 57.748 45.455 0.00 0.00 44.04 2.59
241 248 6.667011 AGCTAGGCGATGAGCTTCTTTGTT 62.667 45.833 0.00 0.00 46.99 2.83
284 291 2.992124 TCAGGAGAAACAACCGTCAA 57.008 45.000 0.00 0.00 0.00 3.18
292 299 9.098788 GGGATACATAGCTCATCAGGAGAAACA 62.099 44.444 0.00 0.00 42.74 2.83
298 305 4.092279 CAGGGATACATAGCTCATCAGGA 58.908 47.826 0.00 0.00 39.74 3.86
303 310 6.747414 TGTTTACAGGGATACATAGCTCAT 57.253 37.500 0.00 0.00 39.74 2.90
402 412 4.368874 TTTGCATTGGTTGATATGGTCG 57.631 40.909 0.00 0.00 0.00 4.79
416 426 9.573133 GTGCTAACTTTATTGTCTATTTGCATT 57.427 29.630 0.00 0.00 0.00 3.56
509 519 2.355132 CGATATAAGACGGAGGGATCGG 59.645 54.545 0.00 0.00 33.00 4.18
510 520 3.008330 ACGATATAAGACGGAGGGATCG 58.992 50.000 0.00 0.00 40.29 3.69
526 536 3.199289 TGTACTCCCTCTGTCTCACGATA 59.801 47.826 0.00 0.00 0.00 2.92
527 537 2.026169 TGTACTCCCTCTGTCTCACGAT 60.026 50.000 0.00 0.00 0.00 3.73
528 538 1.350019 TGTACTCCCTCTGTCTCACGA 59.650 52.381 0.00 0.00 0.00 4.35
529 539 1.822506 TGTACTCCCTCTGTCTCACG 58.177 55.000 0.00 0.00 0.00 4.35
531 541 3.527507 AGTTGTACTCCCTCTGTCTCA 57.472 47.619 0.00 0.00 0.00 3.27
532 542 4.875561 AAAGTTGTACTCCCTCTGTCTC 57.124 45.455 0.00 0.00 0.00 3.36
533 543 5.632034 AAAAAGTTGTACTCCCTCTGTCT 57.368 39.130 0.00 0.00 0.00 3.41
534 544 5.932883 CCTAAAAAGTTGTACTCCCTCTGTC 59.067 44.000 0.00 0.00 0.00 3.51
535 545 5.368816 ACCTAAAAAGTTGTACTCCCTCTGT 59.631 40.000 0.00 0.00 0.00 3.41
536 546 5.701290 CACCTAAAAAGTTGTACTCCCTCTG 59.299 44.000 0.00 0.00 0.00 3.35
537 547 5.221864 CCACCTAAAAAGTTGTACTCCCTCT 60.222 44.000 0.00 0.00 0.00 3.69
578 588 4.009675 TGCGCTAATTCTTGGTCATCTTT 58.990 39.130 9.73 0.00 0.00 2.52
620 630 8.748412 TGTCAAGCAAATTAATAGTAGGCAAAT 58.252 29.630 0.00 0.00 0.00 2.32
884 4243 5.326900 TGGTTAGTTATTTGGGGAAAGGAC 58.673 41.667 0.00 0.00 0.00 3.85
918 4277 1.072505 GGGCGTTGGAGGAAGTTCA 59.927 57.895 5.01 0.00 0.00 3.18
919 4278 1.674651 GGGGCGTTGGAGGAAGTTC 60.675 63.158 0.00 0.00 0.00 3.01
937 4296 2.797087 CTTGGCAATTCTGCTAATGCGG 60.797 50.000 0.00 0.00 46.54 5.69
1241 4638 4.451150 TCTGCACATCGACGGGCC 62.451 66.667 2.03 0.00 0.00 5.80
1390 4794 3.250040 GCAGAAACCAAGAAACGCTTAGA 59.750 43.478 0.00 0.00 34.31 2.10
1393 4797 1.067060 GGCAGAAACCAAGAAACGCTT 59.933 47.619 0.00 0.00 37.29 4.68
1412 4816 4.445699 GCAATCCAGCCTACTCGG 57.554 61.111 0.00 0.00 0.00 4.63
1556 4960 0.041400 TTGCACATCGCGAACACAAG 60.041 50.000 15.24 1.12 46.97 3.16
1566 4970 2.226200 TGAGACCACAAATTGCACATCG 59.774 45.455 0.00 0.00 0.00 3.84
1670 5074 2.023320 GCCTAATCTGCGCGCAAC 59.977 61.111 35.50 14.04 0.00 4.17
1688 5092 3.305471 GCACGGAGTAATAGTCAGGATCC 60.305 52.174 2.48 2.48 41.61 3.36
1697 5101 3.799420 GCAAGAAGAGCACGGAGTAATAG 59.201 47.826 0.00 0.00 41.61 1.73
1720 5124 6.586344 TCACTTGTCTCCATATTCCAAGATC 58.414 40.000 0.00 0.00 36.79 2.75
1848 5252 0.251073 GCTTCCCCCGCTGTAAACTA 59.749 55.000 0.00 0.00 0.00 2.24
1968 5374 8.409358 AACTATGCCTATAAAACCATCCATTC 57.591 34.615 0.00 0.00 0.00 2.67
2043 5449 3.596310 TTGCATGTGAATGACCAATGG 57.404 42.857 0.00 0.00 0.00 3.16
2111 5517 8.680039 TCTTTTAGACCAAATTTCGGAGTAAA 57.320 30.769 11.98 11.05 0.00 2.01
2185 5591 5.344128 CAGCAACTGTTTACAAGAATCATGC 59.656 40.000 0.00 0.00 0.00 4.06
2433 5877 0.892063 GTCTCTCCAAGCTTCCGACT 59.108 55.000 0.00 0.00 0.00 4.18
2444 5912 0.110678 AGTCACGTGAGGTCTCTCCA 59.889 55.000 20.73 0.00 39.23 3.86
2462 5930 5.823045 ACTAAAAGGAGTCAAACCTGTTGAG 59.177 40.000 0.00 0.00 35.91 3.02
2596 6065 8.078596 GCATTCAGACAAGAAAGTAAGAACATT 58.921 33.333 0.00 0.00 0.00 2.71
3403 6971 5.786311 ACAACTGAATCCATTTTGACATGG 58.214 37.500 0.00 0.00 44.80 3.66
3801 7389 5.782893 ACAAAAGTGCTTGCAACCTATTA 57.217 34.783 0.00 0.00 0.00 0.98
3807 7395 3.780902 AGGTTACAAAAGTGCTTGCAAC 58.219 40.909 0.00 0.00 33.54 4.17
3808 7396 4.464069 AAGGTTACAAAAGTGCTTGCAA 57.536 36.364 0.00 0.00 0.00 4.08
4184 7813 0.177836 AAGCAAAAACTGGCCACCAC 59.822 50.000 0.00 0.00 0.00 4.16
4201 7831 5.275067 AGCTGCTACTAATCTGAGGAAAG 57.725 43.478 0.00 0.00 0.00 2.62
4287 7917 3.749226 TGATACTCACATTTGCCACACA 58.251 40.909 0.00 0.00 0.00 3.72
4323 7953 4.696877 AGAAATTCAGCACGACATTGATGA 59.303 37.500 0.00 0.00 40.09 2.92
4376 8006 3.056304 GAGCAGCGAGTCAGGAAATATC 58.944 50.000 0.00 0.00 0.00 1.63
4497 8129 1.881973 GCTTCCTCATTGAGTTGCACA 59.118 47.619 12.54 0.00 0.00 4.57
4715 8392 9.593134 CAGAAGAAGAATGTACAAGTATAAGCT 57.407 33.333 0.00 0.00 0.00 3.74
4931 8662 5.043903 TCGCACTGCAATATAGAGAGAAAC 58.956 41.667 1.11 0.00 0.00 2.78
5033 8765 7.117285 TGATGTTCTACTACTGAATCAGCAT 57.883 36.000 10.62 2.94 34.37 3.79
5256 9019 1.661341 CAGAATTCTGAAGGCTCCCG 58.339 55.000 28.13 0.00 46.59 5.14
5455 9237 1.663702 CGGTTCGTTCGCAAGGAGT 60.664 57.895 0.00 0.00 38.47 3.85


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

AutoCloner maintained by Alex Coulton.