Multiple sequence alignment - TraesCS5B01G137300

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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 TraesCS5B01G137300 chr5B 100.000 3035 0 0 1 3035 257003805 257000771 0.000000e+00 5605.0
1 TraesCS5B01G137300 chr5B 94.444 36 2 0 2775 2810 446015931 446015896 4.230000e-04 56.5
2 TraesCS5B01G137300 chr5B 94.444 36 2 0 2775 2810 446016886 446016851 4.230000e-04 56.5
3 TraesCS5B01G137300 chr5D 93.699 1825 98 10 623 2436 242014868 242013050 0.000000e+00 2717.0
4 TraesCS5B01G137300 chr5D 87.007 685 64 17 2371 3035 242013046 242012367 0.000000e+00 749.0
5 TraesCS5B01G137300 chr5D 85.069 576 33 13 36 601 242015390 242014858 3.440000e-149 538.0
6 TraesCS5B01G137300 chr5D 91.667 60 2 3 1 57 242015779 242015720 2.510000e-11 80.5
7 TraesCS5B01G137300 chr5A 92.810 1683 79 19 623 2278 312233715 312232048 0.000000e+00 2399.0
8 TraesCS5B01G137300 chr5A 88.660 485 44 7 2555 3035 312231786 312231309 5.640000e-162 580.0
9 TraesCS5B01G137300 chr5A 86.755 302 16 8 51 340 312234050 312233761 6.320000e-82 315.0
10 TraesCS5B01G137300 chr1A 75.676 259 47 12 1033 1280 505483968 505483715 6.880000e-22 115.0
11 TraesCS5B01G137300 chr1B 75.697 251 47 13 1033 1276 551230600 551230357 2.470000e-21 113.0
12 TraesCS5B01G137300 chr1B 75.379 264 45 15 1033 1280 551233744 551233485 3.200000e-20 110.0
13 TraesCS5B01G137300 chr1B 80.180 111 18 4 1183 1291 39565043 39565151 2.510000e-11 80.5
14 TraesCS5B01G137300 chr1D 75.290 259 47 14 1033 1278 409529037 409528783 1.150000e-19 108.0
15 TraesCS5B01G137300 chr3D 72.973 222 46 10 1066 1280 435444059 435444273 7.020000e-07 65.8
16 TraesCS5B01G137300 chr3B 79.381 97 17 3 1183 1278 10181285 10181379 7.020000e-07 65.8
17 TraesCS5B01G137300 chr7A 83.333 66 8 2 2746 2808 565353302 565353367 1.180000e-04 58.4


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 TraesCS5B01G137300 chr5B 257000771 257003805 3034 True 5605.000 5605 100.000000 1 3035 1 chr5B.!!$R1 3034
1 TraesCS5B01G137300 chr5D 242012367 242015779 3412 True 1021.125 2717 89.360500 1 3035 4 chr5D.!!$R1 3034
2 TraesCS5B01G137300 chr5A 312231309 312234050 2741 True 1098.000 2399 89.408333 51 3035 3 chr5A.!!$R1 2984

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
218 582 0.32511 CAGAGAGCTCCCCTGGAAGA 60.325 60.0 20.28 0.0 34.07 2.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2114 2525 0.609131 CGTGAGTTTGGCCCCTCATT 60.609 55.0 16.96 0.0 39.7 2.57 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
34 36 1.434555 TATGGACGCCAGTTTTCACG 58.565 50.000 4.90 0.00 36.75 4.35
46 48 5.276348 GCCAGTTTTCACGAAAATCTTGTTG 60.276 40.000 8.12 2.21 41.64 3.33
47 49 5.276348 CCAGTTTTCACGAAAATCTTGTTGC 60.276 40.000 8.12 0.00 41.64 4.17
48 50 4.803613 AGTTTTCACGAAAATCTTGTTGCC 59.196 37.500 8.12 0.00 41.64 4.52
49 51 4.647424 TTTCACGAAAATCTTGTTGCCT 57.353 36.364 0.00 0.00 0.00 4.75
50 52 5.759506 TTTCACGAAAATCTTGTTGCCTA 57.240 34.783 0.00 0.00 0.00 3.93
51 53 5.759506 TTCACGAAAATCTTGTTGCCTAA 57.240 34.783 0.00 0.00 0.00 2.69
189 553 0.463654 GGGTGTGCACTGTGTTCAGA 60.464 55.000 19.41 0.00 43.76 3.27
192 556 2.223340 GGTGTGCACTGTGTTCAGAAAG 60.223 50.000 19.41 0.00 43.76 2.62
198 562 5.060940 GTGCACTGTGTTCAGAAAGAAAAAC 59.939 40.000 10.32 0.00 43.76 2.43
218 582 0.325110 CAGAGAGCTCCCCTGGAAGA 60.325 60.000 20.28 0.00 34.07 2.87
219 583 0.415429 AGAGAGCTCCCCTGGAAGAA 59.585 55.000 10.93 0.00 34.07 2.52
220 584 1.009429 AGAGAGCTCCCCTGGAAGAAT 59.991 52.381 10.93 0.00 34.07 2.40
221 585 1.416030 GAGAGCTCCCCTGGAAGAATC 59.584 57.143 10.93 0.00 34.07 2.52
222 586 1.009429 AGAGCTCCCCTGGAAGAATCT 59.991 52.381 10.93 0.00 34.07 2.40
223 587 1.843206 GAGCTCCCCTGGAAGAATCTT 59.157 52.381 0.87 0.00 34.07 2.40
224 588 3.041946 GAGCTCCCCTGGAAGAATCTTA 58.958 50.000 0.87 0.00 34.07 2.10
225 589 3.456277 GAGCTCCCCTGGAAGAATCTTAA 59.544 47.826 0.87 0.00 34.07 1.85
226 590 4.050757 AGCTCCCCTGGAAGAATCTTAAT 58.949 43.478 0.00 0.00 34.07 1.40
315 682 6.575083 GATCAATCTTGACGATCGAAGAAA 57.425 37.500 24.34 11.16 39.52 2.52
316 683 6.968131 ATCAATCTTGACGATCGAAGAAAA 57.032 33.333 24.34 10.84 39.52 2.29
317 684 6.153212 TCAATCTTGACGATCGAAGAAAAC 57.847 37.500 24.34 4.53 33.39 2.43
318 685 5.120208 TCAATCTTGACGATCGAAGAAAACC 59.880 40.000 24.34 0.89 33.39 3.27
319 686 3.323243 TCTTGACGATCGAAGAAAACCC 58.677 45.455 24.34 0.00 43.58 4.11
334 712 5.321927 AGAAAACCCTCACCGTTTATGATT 58.678 37.500 0.00 0.00 33.17 2.57
375 753 6.275335 CAAGCACAATCCAAATTAATCGGAT 58.725 36.000 11.78 11.78 41.39 4.18
396 774 9.309516 TCGGATGATACTTAACTTGACATTTAC 57.690 33.333 0.00 0.00 0.00 2.01
401 779 8.941977 TGATACTTAACTTGACATTTACGCAAT 58.058 29.630 0.00 0.00 0.00 3.56
405 783 8.132362 ACTTAACTTGACATTTACGCAATTTGA 58.868 29.630 0.00 0.00 0.00 2.69
407 785 6.312399 ACTTGACATTTACGCAATTTGAGA 57.688 33.333 7.16 0.00 0.00 3.27
408 786 6.734137 ACTTGACATTTACGCAATTTGAGAA 58.266 32.000 7.16 0.00 0.00 2.87
409 787 6.857964 ACTTGACATTTACGCAATTTGAGAAG 59.142 34.615 7.16 0.74 0.00 2.85
410 788 5.153513 TGACATTTACGCAATTTGAGAAGC 58.846 37.500 7.16 0.00 0.00 3.86
413 791 4.845177 CGCAATTTGAGAAGCGCA 57.155 50.000 11.47 0.00 43.80 6.09
414 792 3.090598 CGCAATTTGAGAAGCGCAA 57.909 47.368 11.47 0.00 43.80 4.85
415 793 1.407434 CGCAATTTGAGAAGCGCAAA 58.593 45.000 11.47 0.18 43.80 3.68
416 794 1.384409 CGCAATTTGAGAAGCGCAAAG 59.616 47.619 11.47 0.00 43.80 2.77
417 795 2.664916 GCAATTTGAGAAGCGCAAAGA 58.335 42.857 11.47 0.00 36.69 2.52
440 818 3.084786 GTTATGGAAGCCAAGCTGAAGT 58.915 45.455 0.00 0.00 39.62 3.01
473 851 4.776308 AGAGACGTAAACTGGGAGGTTTAT 59.224 41.667 0.00 0.00 41.62 1.40
474 852 4.828829 AGACGTAAACTGGGAGGTTTATG 58.171 43.478 14.06 14.06 46.07 1.90
476 854 3.008704 ACGTAAACTGGGAGGTTTATGCT 59.991 43.478 15.03 4.87 45.27 3.79
488 866 2.424956 GGTTTATGCTCTTGAAGGCAGG 59.575 50.000 12.51 0.00 41.88 4.85
491 869 2.753446 GCTCTTGAAGGCAGGCCC 60.753 66.667 6.70 0.00 36.58 5.80
501 879 3.181434 TGAAGGCAGGCCCGATTATTTAT 60.181 43.478 6.70 0.00 39.21 1.40
510 888 6.655003 CAGGCCCGATTATTTATGTGTAAGAT 59.345 38.462 0.00 0.00 0.00 2.40
558 936 4.470764 GAGCTCTCTCCCCCACTT 57.529 61.111 6.43 0.00 33.19 3.16
567 945 1.705186 TCTCCCCCACTTGAAAGGAAG 59.295 52.381 0.00 0.00 0.00 3.46
593 978 3.190744 GGACGATATCTCAACCTGCGATA 59.809 47.826 0.34 0.00 29.87 2.92
594 979 4.142359 GGACGATATCTCAACCTGCGATAT 60.142 45.833 0.34 0.01 37.45 1.63
595 980 4.738124 ACGATATCTCAACCTGCGATATG 58.262 43.478 0.34 1.46 35.59 1.78
596 981 4.459337 ACGATATCTCAACCTGCGATATGA 59.541 41.667 0.34 0.00 35.59 2.15
597 982 4.795795 CGATATCTCAACCTGCGATATGAC 59.204 45.833 0.34 0.00 35.59 3.06
598 983 2.890808 TCTCAACCTGCGATATGACC 57.109 50.000 0.00 0.00 0.00 4.02
599 984 2.388735 TCTCAACCTGCGATATGACCT 58.611 47.619 0.00 0.00 0.00 3.85
600 985 2.766263 TCTCAACCTGCGATATGACCTT 59.234 45.455 0.00 0.00 0.00 3.50
601 986 3.197766 TCTCAACCTGCGATATGACCTTT 59.802 43.478 0.00 0.00 0.00 3.11
602 987 3.941483 CTCAACCTGCGATATGACCTTTT 59.059 43.478 0.00 0.00 0.00 2.27
603 988 4.331968 TCAACCTGCGATATGACCTTTTT 58.668 39.130 0.00 0.00 0.00 1.94
647 1032 1.464997 GACCTTCATCTTGTTCGTGCC 59.535 52.381 0.00 0.00 0.00 5.01
657 1042 2.033448 TTCGTGCCATGTGGACCC 59.967 61.111 2.55 0.00 37.39 4.46
669 1054 4.584325 CCATGTGGACCCGATTAATGATTT 59.416 41.667 0.00 0.00 37.39 2.17
720 1108 1.134367 CGTCCTTGATGAGGCGTCTAA 59.866 52.381 8.06 0.00 45.87 2.10
729 1117 6.315091 TGATGAGGCGTCTAATCTAAGTAC 57.685 41.667 15.45 0.00 32.98 2.73
787 1182 8.209917 AGGTTAATTGATCGAACTGGAAATAC 57.790 34.615 0.00 0.00 0.00 1.89
788 1183 7.011109 AGGTTAATTGATCGAACTGGAAATACG 59.989 37.037 0.00 0.00 0.00 3.06
789 1184 7.201582 GGTTAATTGATCGAACTGGAAATACGT 60.202 37.037 0.00 0.00 0.00 3.57
790 1185 8.810427 GTTAATTGATCGAACTGGAAATACGTA 58.190 33.333 0.00 0.00 0.00 3.57
791 1186 6.823678 ATTGATCGAACTGGAAATACGTAC 57.176 37.500 0.00 0.00 0.00 3.67
795 1190 4.345288 TCGAACTGGAAATACGTACATCG 58.655 43.478 0.00 0.00 46.00 3.84
800 1195 5.667466 ACTGGAAATACGTACATCGGAAAT 58.333 37.500 0.00 0.00 44.69 2.17
832 1227 0.988832 TGGATTGCTTAACCCCGAGT 59.011 50.000 0.00 0.00 0.00 4.18
871 1266 3.441572 GCATCCACAGTTAAGCAACAGAT 59.558 43.478 0.00 0.00 37.10 2.90
908 1303 0.374758 CGAGTTAACGATCGTCGGGA 59.625 55.000 22.98 4.58 45.59 5.14
937 1332 2.061509 TATCTGCACACGGTAGCCTA 57.938 50.000 2.81 0.00 0.00 3.93
967 1362 1.629861 TCATCCATTGCTGAGGTGACA 59.370 47.619 0.00 0.00 0.00 3.58
977 1372 2.344950 CTGAGGTGACAAAGCTAGCTG 58.655 52.381 20.16 10.45 36.52 4.24
990 1389 1.607628 GCTAGCTGCATTGGATTGGAG 59.392 52.381 7.70 0.00 42.31 3.86
1016 1419 0.688087 AAGATGGAGGGGGAGACGAC 60.688 60.000 0.00 0.00 0.00 4.34
1458 1867 2.103373 CTCATCGACCAGGAGAAGGAA 58.897 52.381 0.00 0.00 0.00 3.36
1761 2170 1.863662 GCCAGACGAACGAGACCTCA 61.864 60.000 0.14 0.00 0.00 3.86
2096 2507 5.804692 TCATGTGTCGTGTTTTACTGTTT 57.195 34.783 0.00 0.00 0.00 2.83
2109 2520 2.278923 TGTTTCTGCGCACGTCGA 60.279 55.556 5.66 0.00 41.67 4.20
2114 2525 0.941936 TTCTGCGCACGTCGAATTGA 60.942 50.000 5.66 0.00 41.67 2.57
2162 2573 2.520069 TGTTTGTGTGTGGGTCAAGTT 58.480 42.857 0.00 0.00 0.00 2.66
2225 2636 5.124936 ACTCACTTGCATATACTCACGTGTA 59.875 40.000 16.51 1.37 35.04 2.90
2228 2639 6.695713 TCACTTGCATATACTCACGTGTAATC 59.304 38.462 16.51 0.00 35.04 1.75
2231 2642 7.169813 ACTTGCATATACTCACGTGTAATCATG 59.830 37.037 16.51 14.81 36.71 3.07
2237 2648 2.789339 CTCACGTGTAATCATGGTAGCG 59.211 50.000 16.51 0.00 35.12 4.26
2239 2650 2.927477 CACGTGTAATCATGGTAGCGTT 59.073 45.455 7.58 0.00 35.12 4.84
2240 2651 3.000078 CACGTGTAATCATGGTAGCGTTC 60.000 47.826 7.58 0.00 35.12 3.95
2283 2740 7.571428 GCTTACAACTCTGTCTTCGCTAATTTT 60.571 37.037 0.00 0.00 36.96 1.82
2288 2745 7.583860 ACTCTGTCTTCGCTAATTTTAAGAC 57.416 36.000 7.03 7.03 45.15 3.01
2314 2771 3.628008 TGTGGGCTTAGTATCTCGAAGA 58.372 45.455 0.00 0.00 31.87 2.87
2344 2801 8.040727 TCATAAGTTTAGAGTGTGCATGTGTAT 58.959 33.333 0.00 0.00 0.00 2.29
2383 2840 9.645059 GAGTGTATATACATGTATGTGAGCATT 57.355 33.333 25.48 16.01 41.89 3.56
2396 2854 1.002576 TGAGCATTCACAGTTGCGTTG 60.003 47.619 0.00 0.00 43.61 4.10
2417 2875 9.702949 GCGTTGTGTTAAAAAGATAAATAAACG 57.297 29.630 0.00 0.00 37.71 3.60
2430 2962 8.928844 AGATAAATAAACGTGTGAACGAAAAG 57.071 30.769 5.12 0.00 36.85 2.27
2457 2989 8.779354 AAAAACTCAGTCTTCGCTTCTTATAT 57.221 30.769 0.00 0.00 0.00 0.86
2459 2991 9.871238 AAAACTCAGTCTTCGCTTCTTATATTA 57.129 29.630 0.00 0.00 0.00 0.98
2486 3021 3.684103 TCTTACACAGTTGCCGTTTTG 57.316 42.857 0.00 0.00 0.00 2.44
2517 3055 4.752146 TCATACTTCACTGCATGTCTCTG 58.248 43.478 0.00 0.00 0.00 3.35
2528 3066 2.486982 GCATGTCTCTGTCATTGCAAGT 59.513 45.455 4.94 0.00 0.00 3.16
2532 3070 5.581126 TGTCTCTGTCATTGCAAGTTTTT 57.419 34.783 4.94 0.00 0.00 1.94
2533 3071 5.342433 TGTCTCTGTCATTGCAAGTTTTTG 58.658 37.500 4.94 0.00 37.36 2.44
2534 3072 5.125257 TGTCTCTGTCATTGCAAGTTTTTGA 59.875 36.000 4.94 0.00 36.36 2.69
2535 3073 6.183360 TGTCTCTGTCATTGCAAGTTTTTGAT 60.183 34.615 4.94 0.00 36.36 2.57
2536 3074 6.698766 GTCTCTGTCATTGCAAGTTTTTGATT 59.301 34.615 4.94 0.00 36.36 2.57
2538 3076 8.412456 TCTCTGTCATTGCAAGTTTTTGATTTA 58.588 29.630 4.94 0.00 36.36 1.40
2574 3112 7.672738 TCAAATCTACGAACTCTTTTAATCGC 58.327 34.615 0.00 0.00 38.80 4.58
2578 3116 7.647907 TCTACGAACTCTTTTAATCGCTTTT 57.352 32.000 0.00 0.00 38.80 2.27
2586 3125 8.282124 ACTCTTTTAATCGCTTTTGTTTTAGC 57.718 30.769 0.00 0.00 0.00 3.09
2667 3206 9.705290 ATTTTACATTTTTATGAACGCTTTCCT 57.295 25.926 0.00 0.00 0.00 3.36
2942 3484 8.650714 GGTCAAATAATTTTTCACTTCTCATGC 58.349 33.333 0.00 0.00 0.00 4.06
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 59 7.226720 TCTGAGACAAGTGAACAAGATTTTACC 59.773 37.037 0.00 0.00 0.00 2.85
58 60 8.142994 TCTGAGACAAGTGAACAAGATTTTAC 57.857 34.615 0.00 0.00 0.00 2.01
119 474 8.786826 TTCCGTGAACAAGATTTCAGTATTAT 57.213 30.769 0.00 0.00 36.15 1.28
152 516 2.767960 ACCCACGAATACGACCCTTAAT 59.232 45.455 0.00 0.00 42.66 1.40
155 519 0.248289 CACCCACGAATACGACCCTT 59.752 55.000 0.00 0.00 42.66 3.95
162 526 0.796312 CAGTGCACACCCACGAATAC 59.204 55.000 21.04 0.00 40.59 1.89
168 532 1.029408 TGAACACAGTGCACACCCAC 61.029 55.000 21.04 6.33 35.98 4.61
189 553 3.491342 GGGAGCTCTCTGGTTTTTCTTT 58.509 45.455 14.64 0.00 0.00 2.52
192 556 1.352687 AGGGGAGCTCTCTGGTTTTTC 59.647 52.381 14.63 0.00 0.00 2.29
198 562 1.306482 TTCCAGGGGAGCTCTCTGG 60.306 63.158 32.27 32.27 46.91 3.86
242 606 1.275856 GAATTTCTGGTGGCAATGGCA 59.724 47.619 5.05 5.05 43.71 4.92
309 676 4.758165 TCATAAACGGTGAGGGTTTTCTTC 59.242 41.667 0.00 0.00 38.47 2.87
310 677 4.721132 TCATAAACGGTGAGGGTTTTCTT 58.279 39.130 0.00 0.00 38.47 2.52
311 678 4.360951 TCATAAACGGTGAGGGTTTTCT 57.639 40.909 0.00 0.00 38.47 2.52
312 679 5.182380 TCAATCATAAACGGTGAGGGTTTTC 59.818 40.000 0.00 0.00 38.47 2.29
313 680 5.074115 TCAATCATAAACGGTGAGGGTTTT 58.926 37.500 0.00 0.00 38.47 2.43
314 681 4.658063 TCAATCATAAACGGTGAGGGTTT 58.342 39.130 0.00 0.00 40.45 3.27
315 682 4.295141 TCAATCATAAACGGTGAGGGTT 57.705 40.909 0.00 0.00 0.00 4.11
316 683 3.992943 TCAATCATAAACGGTGAGGGT 57.007 42.857 0.00 0.00 0.00 4.34
317 684 3.815401 GGATCAATCATAAACGGTGAGGG 59.185 47.826 0.00 0.00 0.00 4.30
318 685 4.450976 TGGATCAATCATAAACGGTGAGG 58.549 43.478 0.00 0.00 0.00 3.86
319 686 5.561532 GCATGGATCAATCATAAACGGTGAG 60.562 44.000 0.00 0.00 0.00 3.51
334 712 2.554142 CTTGCTTCTACGCATGGATCA 58.446 47.619 0.00 0.00 40.04 2.92
375 753 7.892778 TGCGTAAATGTCAAGTTAAGTATCA 57.107 32.000 0.00 0.00 0.00 2.15
401 779 5.451908 CATAACTTCTTTGCGCTTCTCAAA 58.548 37.500 9.73 0.00 33.04 2.69
405 783 3.674997 TCCATAACTTCTTTGCGCTTCT 58.325 40.909 9.73 0.00 0.00 2.85
407 785 3.366374 GCTTCCATAACTTCTTTGCGCTT 60.366 43.478 9.73 0.00 0.00 4.68
408 786 2.162408 GCTTCCATAACTTCTTTGCGCT 59.838 45.455 9.73 0.00 0.00 5.92
409 787 2.519963 GCTTCCATAACTTCTTTGCGC 58.480 47.619 0.00 0.00 0.00 6.09
410 788 2.487762 TGGCTTCCATAACTTCTTTGCG 59.512 45.455 0.00 0.00 0.00 4.85
411 789 4.488879 CTTGGCTTCCATAACTTCTTTGC 58.511 43.478 0.00 0.00 31.53 3.68
412 790 4.219288 AGCTTGGCTTCCATAACTTCTTTG 59.781 41.667 0.00 0.00 33.89 2.77
413 791 4.219288 CAGCTTGGCTTCCATAACTTCTTT 59.781 41.667 0.00 0.00 36.40 2.52
414 792 3.760684 CAGCTTGGCTTCCATAACTTCTT 59.239 43.478 0.00 0.00 36.40 2.52
415 793 3.009473 TCAGCTTGGCTTCCATAACTTCT 59.991 43.478 0.00 0.00 36.40 2.85
416 794 3.347216 TCAGCTTGGCTTCCATAACTTC 58.653 45.455 0.00 0.00 36.40 3.01
417 795 3.439857 TCAGCTTGGCTTCCATAACTT 57.560 42.857 0.00 0.00 36.40 2.66
440 818 6.430308 CCCAGTTTACGTCTCTCTAGCATATA 59.570 42.308 0.00 0.00 0.00 0.86
473 851 2.034687 GGCCTGCCTTCAAGAGCA 59.965 61.111 0.00 1.27 37.46 4.26
474 852 2.753446 GGGCCTGCCTTCAAGAGC 60.753 66.667 8.29 0.00 36.10 4.09
476 854 1.852157 AATCGGGCCTGCCTTCAAGA 61.852 55.000 6.73 1.33 36.10 3.02
488 866 8.542497 TGTATCTTACACATAAATAATCGGGC 57.458 34.615 0.00 0.00 32.89 6.13
510 888 6.183360 CGTGCAAGAAATGTGTAAGCTATGTA 60.183 38.462 0.00 0.00 0.00 2.29
558 936 1.952621 ATCGTCCCTCCTTCCTTTCA 58.047 50.000 0.00 0.00 0.00 2.69
567 945 2.297597 CAGGTTGAGATATCGTCCCTCC 59.702 54.545 0.00 0.00 0.00 4.30
610 995 9.912634 GATGAAGGTCATATCTTGTTTCAAAAA 57.087 29.630 0.00 0.00 37.20 1.94
611 996 9.300681 AGATGAAGGTCATATCTTGTTTCAAAA 57.699 29.630 0.00 0.00 37.20 2.44
612 997 8.868522 AGATGAAGGTCATATCTTGTTTCAAA 57.131 30.769 0.00 0.00 37.20 2.69
613 998 8.733458 CAAGATGAAGGTCATATCTTGTTTCAA 58.267 33.333 14.73 0.00 46.34 2.69
614 999 8.272545 CAAGATGAAGGTCATATCTTGTTTCA 57.727 34.615 14.73 0.00 46.34 2.69
620 1005 6.536582 CACGAACAAGATGAAGGTCATATCTT 59.463 38.462 0.00 0.00 40.70 2.40
621 1006 6.045318 CACGAACAAGATGAAGGTCATATCT 58.955 40.000 0.00 0.00 37.20 1.98
622 1007 5.277058 GCACGAACAAGATGAAGGTCATATC 60.277 44.000 0.00 0.00 37.20 1.63
623 1008 4.572389 GCACGAACAAGATGAAGGTCATAT 59.428 41.667 0.00 0.00 37.20 1.78
624 1009 3.932710 GCACGAACAAGATGAAGGTCATA 59.067 43.478 0.00 0.00 37.20 2.15
625 1010 2.744202 GCACGAACAAGATGAAGGTCAT 59.256 45.455 0.00 0.00 40.34 3.06
647 1032 5.522456 CAAATCATTAATCGGGTCCACATG 58.478 41.667 0.00 0.00 0.00 3.21
657 1042 4.259770 GGCGGTTTTGCAAATCATTAATCG 60.260 41.667 13.65 10.04 36.28 3.34
669 1054 3.532155 GGTGTGGGCGGTTTTGCA 61.532 61.111 0.00 0.00 36.28 4.08
720 1108 9.796180 CCTACACTACTATGGAAGTACTTAGAT 57.204 37.037 8.42 6.12 39.80 1.98
729 1117 9.001542 GTAGTACATCCTACACTACTATGGAAG 57.998 40.741 0.00 0.00 40.84 3.46
787 1182 8.515473 TTTCTGTATATCATTTCCGATGTACG 57.485 34.615 0.00 0.00 40.78 3.67
789 1184 9.435688 CCATTTCTGTATATCATTTCCGATGTA 57.564 33.333 0.00 0.00 0.00 2.29
790 1185 8.156820 TCCATTTCTGTATATCATTTCCGATGT 58.843 33.333 0.00 0.00 0.00 3.06
791 1186 8.552083 TCCATTTCTGTATATCATTTCCGATG 57.448 34.615 0.00 0.00 0.00 3.84
795 1190 8.800332 AGCAATCCATTTCTGTATATCATTTCC 58.200 33.333 0.00 0.00 0.00 3.13
800 1195 9.066892 GGTTAAGCAATCCATTTCTGTATATCA 57.933 33.333 0.00 0.00 0.00 2.15
832 1227 3.365868 GGATGCAATGCAAGAAACGTGTA 60.366 43.478 13.45 0.00 43.62 2.90
895 1290 1.636988 GAATGTTCCCGACGATCGTT 58.363 50.000 23.63 6.02 38.40 3.85
908 1303 2.030823 CGTGTGCAGATATGCGAATGTT 59.969 45.455 7.97 0.00 37.69 2.71
937 1332 2.575279 AGCAATGGATGAAGAGACCAGT 59.425 45.455 0.00 0.00 37.12 4.00
967 1362 2.429610 CCAATCCAATGCAGCTAGCTTT 59.570 45.455 16.46 4.12 45.94 3.51
977 1372 0.526954 CTTGCGCTCCAATCCAATGC 60.527 55.000 9.73 0.00 31.91 3.56
990 1389 1.821332 CCCCTCCATCTTCTTGCGC 60.821 63.158 0.00 0.00 0.00 6.09
1543 1952 1.454111 CGGAGAGGTGGTCGAGGAT 60.454 63.158 0.00 0.00 0.00 3.24
2096 2507 0.941936 TTCAATTCGACGTGCGCAGA 60.942 50.000 12.22 0.18 40.61 4.26
2109 2520 2.833943 GAGTTTGGCCCCTCATTCAATT 59.166 45.455 0.00 0.00 0.00 2.32
2114 2525 0.609131 CGTGAGTTTGGCCCCTCATT 60.609 55.000 16.96 0.00 39.70 2.57
2191 2602 9.448438 AGTATATGCAAGTGAGTCATAACAAAA 57.552 29.630 0.00 0.00 0.00 2.44
2225 2636 3.937814 TGACTTGAACGCTACCATGATT 58.062 40.909 0.00 0.00 0.00 2.57
2228 2639 3.261580 TCATGACTTGAACGCTACCATG 58.738 45.455 0.00 0.00 33.32 3.66
2231 2642 4.631813 AGATTTCATGACTTGAACGCTACC 59.368 41.667 0.00 0.00 43.99 3.18
2237 2648 5.288543 AGCGAAGATTTCATGACTTGAAC 57.711 39.130 0.00 0.00 43.99 3.18
2239 2650 5.931724 TGTAAGCGAAGATTTCATGACTTGA 59.068 36.000 0.00 0.00 37.33 3.02
2240 2651 6.169419 TGTAAGCGAAGATTTCATGACTTG 57.831 37.500 0.00 0.00 37.33 3.16
2257 2668 2.678324 AGCGAAGACAGAGTTGTAAGC 58.322 47.619 0.00 0.00 37.76 3.09
2283 2740 2.829720 ACTAAGCCCACATCACGTCTTA 59.170 45.455 0.00 0.00 0.00 2.10
2288 2745 3.643763 GAGATACTAAGCCCACATCACG 58.356 50.000 0.00 0.00 0.00 4.35
2314 2771 7.391554 ACATGCACACTCTAAACTTATGAACAT 59.608 33.333 0.00 0.00 0.00 2.71
2383 2840 4.421033 TTTTAACACAACGCAACTGTGA 57.579 36.364 14.71 0.00 45.80 3.58
2387 2844 8.865590 ATTTATCTTTTTAACACAACGCAACT 57.134 26.923 0.00 0.00 0.00 3.16
2474 3009 2.306847 AGGATGAACAAAACGGCAACT 58.693 42.857 0.00 0.00 0.00 3.16
2486 3021 4.937620 TGCAGTGAAGTATGAAGGATGAAC 59.062 41.667 0.00 0.00 0.00 3.18
2538 3076 9.678941 GAGTTCGTAGATTTGAAAAAGGAAAAT 57.321 29.630 0.00 0.00 35.04 1.82
2923 3465 9.545105 AAAATGTGCATGAGAAGTGAAAAATTA 57.455 25.926 0.00 0.00 0.00 1.40
2963 3505 9.807649 ATGTTTACATGCTGAAAAGATTATTCC 57.192 29.630 0.00 0.00 34.83 3.01
2971 3514 7.851963 CCACAAAAATGTTTACATGCTGAAAAG 59.148 33.333 0.00 0.00 36.56 2.27


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

AutoCloner maintained by Alex Coulton.