Multiple sequence alignment - TraesCS7B01G048400

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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 TraesCS7B01G048400 chr7B 100.000 3182 0 0 1 3182 48338362 48341543 0.000000e+00 5877
1 TraesCS7B01G048400 chr7B 85.938 128 17 1 293 420 498186585 498186459 5.540000e-28 135
2 TraesCS7B01G048400 chr7A 91.400 2314 139 31 476 2765 97754814 97757091 0.000000e+00 3116
3 TraesCS7B01G048400 chr7A 86.307 241 29 2 2781 3021 97757323 97757559 3.150000e-65 259
4 TraesCS7B01G048400 chr7A 88.281 128 13 2 293 419 675583415 675583289 5.500000e-33 152
5 TraesCS7B01G048400 chr7D 94.455 1569 69 9 860 2422 94421780 94423336 0.000000e+00 2399
6 TraesCS7B01G048400 chr7D 88.876 881 58 15 1 860 94418793 94419654 0.000000e+00 1048
7 TraesCS7B01G048400 chr7D 87.811 402 36 4 2790 3182 94425896 94426293 2.890000e-125 459
8 TraesCS7B01G048400 chr7D 83.039 283 37 7 2415 2689 94425454 94425733 2.450000e-61 246
9 TraesCS7B01G048400 chr7D 85.827 127 16 2 294 419 585552979 585552854 1.990000e-27 134
10 TraesCS7B01G048400 chr3D 91.150 113 9 1 293 404 603647070 603646958 5.500000e-33 152
11 TraesCS7B01G048400 chr1D 90.909 110 7 3 294 402 310769556 310769663 9.200000e-31 145
12 TraesCS7B01G048400 chrUn 89.286 112 12 0 293 404 370989817 370989928 1.190000e-29 141
13 TraesCS7B01G048400 chr5A 85.938 128 17 1 293 419 525704503 525704630 5.540000e-28 135
14 TraesCS7B01G048400 chr2B 86.290 124 17 0 293 416 404429532 404429409 5.540000e-28 135


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 TraesCS7B01G048400 chr7B 48338362 48341543 3181 False 5877.0 5877 100.00000 1 3182 1 chr7B.!!$F1 3181
1 TraesCS7B01G048400 chr7A 97754814 97757559 2745 False 1687.5 3116 88.85350 476 3021 2 chr7A.!!$F1 2545
2 TraesCS7B01G048400 chr7D 94418793 94426293 7500 False 1038.0 2399 88.54525 1 3182 4 chr7D.!!$F1 3181

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
171 172 0.033504 GTGGTCGGCAAAGACAGAGA 59.966 55.000 8.17 0.0 42.62 3.10 F
460 485 1.002142 GTGTGAACCAGGTAAAACGGC 60.002 52.381 0.00 0.0 0.00 5.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1482 3639 1.443702 CTCGCCGTCGATTGACACA 60.444 57.895 13.58 0.0 45.8 3.72 R
2449 6744 1.668826 TTATCTCCTGTGTGCCCCTT 58.331 50.000 0.00 0.0 0.0 3.95 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
144 145 0.462047 GGTCGGGCTCATTGTGGTAG 60.462 60.000 0.00 0.00 0.00 3.18
166 167 0.958822 AAATGGTGGTCGGCAAAGAC 59.041 50.000 0.00 0.00 40.25 3.01
168 169 0.606401 ATGGTGGTCGGCAAAGACAG 60.606 55.000 8.17 0.00 42.62 3.51
171 172 0.033504 GTGGTCGGCAAAGACAGAGA 59.966 55.000 8.17 0.00 42.62 3.10
182 183 5.182760 GGCAAAGACAGAGATGTTCATTCTT 59.817 40.000 0.00 0.00 33.11 2.52
183 184 6.313252 GCAAAGACAGAGATGTTCATTCTTC 58.687 40.000 0.00 0.00 31.48 2.87
184 185 6.149142 GCAAAGACAGAGATGTTCATTCTTCT 59.851 38.462 0.00 0.00 31.48 2.85
185 186 7.623925 GCAAAGACAGAGATGTTCATTCTTCTC 60.624 40.741 0.00 0.00 38.25 2.87
186 187 6.602410 AGACAGAGATGTTCATTCTTCTCA 57.398 37.500 10.56 0.00 39.50 3.27
227 252 3.384168 AGGTACCTCTACATTGATGCCA 58.616 45.455 9.21 0.00 0.00 4.92
308 333 2.094659 GCGCTCGCTTCAGTGCTTA 61.095 57.895 0.00 0.00 44.98 3.09
314 339 3.039405 CTCGCTTCAGTGCTTATAGTCG 58.961 50.000 0.00 0.00 0.00 4.18
335 360 2.098770 GTCGCTAGGTGGTCTACGAATT 59.901 50.000 0.00 0.00 35.22 2.17
341 366 5.221382 GCTAGGTGGTCTACGAATTTGGATA 60.221 44.000 0.00 0.00 0.00 2.59
379 404 2.892373 ATGTTCGTTGTATTGCCGTG 57.108 45.000 0.00 0.00 0.00 4.94
383 408 3.995048 TGTTCGTTGTATTGCCGTGATTA 59.005 39.130 0.00 0.00 0.00 1.75
385 410 4.850859 TCGTTGTATTGCCGTGATTAAG 57.149 40.909 0.00 0.00 0.00 1.85
408 433 6.836242 AGGATGAATAGATTGAAAGTCCCTC 58.164 40.000 0.00 0.00 0.00 4.30
409 434 5.698545 GGATGAATAGATTGAAAGTCCCTCG 59.301 44.000 0.00 0.00 0.00 4.63
410 435 5.677319 TGAATAGATTGAAAGTCCCTCGT 57.323 39.130 0.00 0.00 0.00 4.18
416 441 9.462606 AATAGATTGAAAGTCCCTCGTAAAAAT 57.537 29.630 0.00 0.00 0.00 1.82
418 443 8.857694 AGATTGAAAGTCCCTCGTAAAAATAA 57.142 30.769 0.00 0.00 0.00 1.40
419 444 9.462606 AGATTGAAAGTCCCTCGTAAAAATAAT 57.537 29.630 0.00 0.00 0.00 1.28
450 475 6.561902 CGCAATACAAAAATTGTGTGAACCAG 60.562 38.462 0.00 0.00 45.03 4.00
460 485 1.002142 GTGTGAACCAGGTAAAACGGC 60.002 52.381 0.00 0.00 0.00 5.68
461 486 1.310904 GTGAACCAGGTAAAACGGCA 58.689 50.000 0.00 0.00 0.00 5.69
464 489 2.959707 TGAACCAGGTAAAACGGCAAAT 59.040 40.909 0.00 0.00 0.00 2.32
465 490 3.004944 TGAACCAGGTAAAACGGCAAATC 59.995 43.478 0.00 0.00 0.00 2.17
466 491 1.538075 ACCAGGTAAAACGGCAAATCG 59.462 47.619 0.00 0.00 0.00 3.34
467 492 1.538075 CCAGGTAAAACGGCAAATCGT 59.462 47.619 0.00 0.00 46.08 3.73
468 493 2.743126 CCAGGTAAAACGGCAAATCGTA 59.257 45.455 0.00 0.00 43.07 3.43
469 494 3.188873 CCAGGTAAAACGGCAAATCGTAA 59.811 43.478 0.00 0.00 43.07 3.18
470 495 4.320348 CCAGGTAAAACGGCAAATCGTAAA 60.320 41.667 0.00 0.00 43.07 2.01
471 496 4.849383 CAGGTAAAACGGCAAATCGTAAAG 59.151 41.667 0.00 0.00 43.07 1.85
472 497 4.516321 AGGTAAAACGGCAAATCGTAAAGT 59.484 37.500 0.00 0.00 43.07 2.66
473 498 5.008911 AGGTAAAACGGCAAATCGTAAAGTT 59.991 36.000 0.00 0.00 43.07 2.66
485 510 5.547181 ATCGTAAAGTTTCTAGCAAAGGC 57.453 39.130 0.00 0.00 41.61 4.35
535 560 1.476085 TGGCGAAACCTATGGCAAATG 59.524 47.619 0.00 0.00 40.22 2.32
548 573 2.166050 TGGCAAATGATCAAATCCCACG 59.834 45.455 0.00 0.00 0.00 4.94
549 574 2.481795 GGCAAATGATCAAATCCCACGG 60.482 50.000 0.00 0.00 0.00 4.94
551 576 3.368323 GCAAATGATCAAATCCCACGGTT 60.368 43.478 0.00 0.00 0.00 4.44
589 614 1.477030 GGCGCCATTACTACGTCACG 61.477 60.000 24.80 0.00 0.00 4.35
922 3075 2.559231 GGCAATCCGGGTGTTTTAGAAA 59.441 45.455 0.00 0.00 0.00 2.52
923 3076 3.366985 GGCAATCCGGGTGTTTTAGAAAG 60.367 47.826 0.00 0.00 0.00 2.62
924 3077 3.833442 CAATCCGGGTGTTTTAGAAAGC 58.167 45.455 0.00 0.00 0.00 3.51
997 3150 5.300792 ACAGCGACCCAAAATAAAGAAGAAA 59.699 36.000 0.00 0.00 0.00 2.52
1269 3426 2.841044 AACCTGTCGTGGTCCCGT 60.841 61.111 0.00 0.00 39.83 5.28
1347 3504 4.680237 CGGTTCGTGCTCCTGCCA 62.680 66.667 0.00 0.00 38.71 4.92
1482 3639 1.291272 GTCCGGGTACTTCGTGCTT 59.709 57.895 0.00 0.00 0.00 3.91
1488 3645 1.539496 GGGTACTTCGTGCTTGTGTCA 60.539 52.381 0.00 0.00 0.00 3.58
1890 4047 2.442084 GGTGGACGACAACGACATC 58.558 57.895 0.00 0.00 42.66 3.06
1994 4151 4.162690 GGGATCTTGGAGGCGCGT 62.163 66.667 8.43 0.27 0.00 6.01
2046 4203 4.634133 GTGTCCGTGGCGTCGACA 62.634 66.667 17.16 0.00 0.00 4.35
2326 4492 4.524316 TCTGGAATGCAATTTTGGTCAG 57.476 40.909 0.00 0.00 36.07 3.51
2338 4504 6.129194 GCAATTTTGGTCAGTTCGTCATTTAC 60.129 38.462 0.00 0.00 0.00 2.01
2341 4507 7.789273 TTTTGGTCAGTTCGTCATTTACTTA 57.211 32.000 0.00 0.00 0.00 2.24
2342 4508 7.972832 TTTGGTCAGTTCGTCATTTACTTAT 57.027 32.000 0.00 0.00 0.00 1.73
2345 4511 9.491675 TTGGTCAGTTCGTCATTTACTTATTTA 57.508 29.630 0.00 0.00 0.00 1.40
2346 4512 9.661563 TGGTCAGTTCGTCATTTACTTATTTAT 57.338 29.630 0.00 0.00 0.00 1.40
2390 4556 8.869109 AGGTCAAAGATTTGTTTCATCCATTAA 58.131 29.630 5.29 0.00 39.18 1.40
2462 6763 0.322322 TACGTTAAGGGGCACACAGG 59.678 55.000 0.00 0.00 0.00 4.00
2497 6798 8.808529 CATACAAACAGTATAAAGAAGGTCTCG 58.191 37.037 0.00 0.00 41.47 4.04
2514 6815 2.681344 TCTCGTCGAGCTAGCACATTAA 59.319 45.455 18.83 0.00 0.00 1.40
2535 6837 2.546778 TGTCACCGTCAACACTTCTTC 58.453 47.619 0.00 0.00 0.00 2.87
2536 6838 2.093921 TGTCACCGTCAACACTTCTTCA 60.094 45.455 0.00 0.00 0.00 3.02
2571 6873 0.831307 GCCGTCCCTTCTCCATTAGT 59.169 55.000 0.00 0.00 0.00 2.24
2578 6880 4.039366 GTCCCTTCTCCATTAGTAAGCGAT 59.961 45.833 0.00 0.00 0.00 4.58
2597 6899 2.971660 TTCCGACTTCACAACAGACA 57.028 45.000 0.00 0.00 0.00 3.41
2618 6920 1.378762 CGTCAATCCAACCCACCCT 59.621 57.895 0.00 0.00 0.00 4.34
2626 6928 1.299976 CAACCCACCCTGTAGAGGC 59.700 63.158 0.00 0.00 38.17 4.70
2627 6929 1.923909 AACCCACCCTGTAGAGGCC 60.924 63.158 0.00 0.00 38.17 5.19
2628 6930 2.041265 CCCACCCTGTAGAGGCCT 59.959 66.667 3.86 3.86 38.17 5.19
2629 6931 1.313475 CCCACCCTGTAGAGGCCTA 59.687 63.158 4.42 0.00 38.17 3.93
2631 6933 0.261991 CCACCCTGTAGAGGCCTAGA 59.738 60.000 4.42 0.00 38.17 2.43
2635 6937 0.558712 CCTGTAGAGGCCTAGAGGGT 59.441 60.000 4.42 0.00 46.95 4.34
2636 6938 1.698506 CTGTAGAGGCCTAGAGGGTG 58.301 60.000 4.42 0.00 33.85 4.61
2637 6939 0.397254 TGTAGAGGCCTAGAGGGTGC 60.397 60.000 4.42 0.00 37.43 5.01
2638 6940 1.152735 TAGAGGCCTAGAGGGTGCG 60.153 63.158 4.42 0.00 37.43 5.34
2639 6941 1.934459 TAGAGGCCTAGAGGGTGCGT 61.934 60.000 4.42 0.00 37.43 5.24
2640 6942 3.077556 AGGCCTAGAGGGTGCGTG 61.078 66.667 1.29 0.00 37.43 5.34
2641 6943 3.075005 GGCCTAGAGGGTGCGTGA 61.075 66.667 0.00 0.00 37.43 4.35
2644 6946 2.010582 GCCTAGAGGGTGCGTGAGAG 62.011 65.000 0.00 0.00 37.43 3.20
2645 6947 0.394488 CCTAGAGGGTGCGTGAGAGA 60.394 60.000 0.00 0.00 0.00 3.10
2646 6948 1.464734 CTAGAGGGTGCGTGAGAGAA 58.535 55.000 0.00 0.00 0.00 2.87
2647 6949 1.403679 CTAGAGGGTGCGTGAGAGAAG 59.596 57.143 0.00 0.00 0.00 2.85
2648 6950 0.540830 AGAGGGTGCGTGAGAGAAGT 60.541 55.000 0.00 0.00 0.00 3.01
2649 6951 0.109039 GAGGGTGCGTGAGAGAAGTC 60.109 60.000 0.00 0.00 0.00 3.01
2650 6952 0.540830 AGGGTGCGTGAGAGAAGTCT 60.541 55.000 0.00 0.00 34.86 3.24
2667 6969 0.107508 TCTATGCCAAGCACTCTGCC 60.108 55.000 0.00 0.00 46.52 4.85
2689 6991 2.331451 GCGACAAGGGCAACACAC 59.669 61.111 0.00 0.00 39.74 3.82
2728 7041 3.309954 CGAAGTAGAACTATGCAAAGGCC 59.690 47.826 0.00 0.00 40.13 5.19
2730 7043 4.301072 AGTAGAACTATGCAAAGGCCAA 57.699 40.909 5.01 0.00 40.13 4.52
2731 7044 4.010349 AGTAGAACTATGCAAAGGCCAAC 58.990 43.478 5.01 0.00 40.13 3.77
2732 7045 2.875296 AGAACTATGCAAAGGCCAACA 58.125 42.857 5.01 0.00 40.13 3.33
2733 7046 2.821969 AGAACTATGCAAAGGCCAACAG 59.178 45.455 5.01 0.00 40.13 3.16
2734 7047 0.890683 ACTATGCAAAGGCCAACAGC 59.109 50.000 5.01 3.72 40.13 4.40
2755 7235 3.551863 GCCATCAAAAATCACCGAACACA 60.552 43.478 0.00 0.00 0.00 3.72
2756 7236 3.980775 CCATCAAAAATCACCGAACACAC 59.019 43.478 0.00 0.00 0.00 3.82
2761 7241 0.472471 AATCACCGAACACACCACCT 59.528 50.000 0.00 0.00 0.00 4.00
2767 7247 0.603707 CGAACACACCACCTGATGCT 60.604 55.000 0.00 0.00 0.00 3.79
2768 7248 1.609208 GAACACACCACCTGATGCTT 58.391 50.000 0.00 0.00 0.00 3.91
2770 7250 2.185004 ACACACCACCTGATGCTTAC 57.815 50.000 0.00 0.00 0.00 2.34
2786 7266 0.986019 TTACCATCATCCCCACCGCT 60.986 55.000 0.00 0.00 0.00 5.52
2796 7329 4.680237 CCACCGCTGCAGACCGAA 62.680 66.667 20.43 0.00 0.00 4.30
2835 7368 1.154016 CGTGACTCCGACATCGCTT 60.154 57.895 0.00 0.00 38.18 4.68
2845 7378 1.470805 CGACATCGCTTACCCACATCA 60.471 52.381 0.00 0.00 0.00 3.07
2848 7381 1.794701 CATCGCTTACCCACATCATCG 59.205 52.381 0.00 0.00 0.00 3.84
2851 7384 2.427812 TCGCTTACCCACATCATCGTTA 59.572 45.455 0.00 0.00 0.00 3.18
2855 7388 4.703897 CTTACCCACATCATCGTTACCAT 58.296 43.478 0.00 0.00 0.00 3.55
2856 7389 3.194005 ACCCACATCATCGTTACCATC 57.806 47.619 0.00 0.00 0.00 3.51
2858 7391 1.526887 CCACATCATCGTTACCATCGC 59.473 52.381 0.00 0.00 0.00 4.58
2865 7398 2.270850 GTTACCATCGCAGCCCCA 59.729 61.111 0.00 0.00 0.00 4.96
2876 7409 4.299796 AGCCCCAACACCGCCATT 62.300 61.111 0.00 0.00 0.00 3.16
2913 7447 6.256975 CGGTGGAAGTTCGTCATTTATTCATA 59.743 38.462 0.00 0.00 0.00 2.15
2929 7463 5.591643 ATTCATATACACCGCGTGAATTC 57.408 39.130 11.66 0.00 36.43 2.17
2943 7477 4.245660 CGTGAATTCCTAGAGCAAAGTCA 58.754 43.478 2.27 0.00 0.00 3.41
2980 7514 1.142748 GAGTGGCGGTCAGATCCAG 59.857 63.158 0.00 0.00 0.00 3.86
3013 7547 3.640029 TGTTCCTTTCGTACTCTTCCACT 59.360 43.478 0.00 0.00 0.00 4.00
3024 7558 2.700897 ACTCTTCCACTAGCACAAGTGT 59.299 45.455 11.46 0.00 44.45 3.55
3044 7578 4.751600 GTGTGATCAACTTGTGAGTCATCA 59.248 41.667 0.00 0.00 40.43 3.07
3046 7580 5.221501 TGTGATCAACTTGTGAGTCATCAGA 60.222 40.000 0.00 0.00 40.43 3.27
3091 7625 2.433970 CAAACAGAAGCTTTTGGGGGAA 59.566 45.455 20.04 0.00 0.00 3.97
3119 7661 4.748144 CCACCTGGGGAAGCTGGC 62.748 72.222 0.00 0.00 0.00 4.85
3120 7662 3.970410 CACCTGGGGAAGCTGGCA 61.970 66.667 0.00 0.00 0.00 4.92
3146 7688 4.184629 CGTCTGAATCGGGAGAATTTTCT 58.815 43.478 0.00 0.00 45.37 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
100 101 7.290118 CCAACACTCTTGTTTTGTTTTGAAAG 58.710 34.615 0.00 0.00 43.89 2.62
125 126 0.462047 CTACCACAATGAGCCCGACC 60.462 60.000 0.00 0.00 0.00 4.79
144 145 2.554893 TCTTTGCCGACCACCATTTAAC 59.445 45.455 0.00 0.00 0.00 2.01
166 167 6.480651 CCTCATGAGAAGAATGAACATCTCTG 59.519 42.308 24.62 0.00 39.21 3.35
168 169 6.258287 CACCTCATGAGAAGAATGAACATCTC 59.742 42.308 24.62 0.00 38.98 2.75
171 172 5.191426 CCACCTCATGAGAAGAATGAACAT 58.809 41.667 24.62 0.00 33.76 2.71
182 183 6.778821 TCAATTCTTTTACCACCTCATGAGA 58.221 36.000 24.62 0.00 0.00 3.27
183 184 6.094603 CCTCAATTCTTTTACCACCTCATGAG 59.905 42.308 16.24 16.24 0.00 2.90
184 185 5.945784 CCTCAATTCTTTTACCACCTCATGA 59.054 40.000 0.00 0.00 0.00 3.07
185 186 5.711976 ACCTCAATTCTTTTACCACCTCATG 59.288 40.000 0.00 0.00 0.00 3.07
186 187 5.892348 ACCTCAATTCTTTTACCACCTCAT 58.108 37.500 0.00 0.00 0.00 2.90
252 277 2.808181 AATACCCGGACGTTGCCACC 62.808 60.000 0.73 0.00 0.00 4.61
266 291 8.062448 CGCAACTAAATTGACTAGCTAAATACC 58.938 37.037 0.00 0.00 41.23 2.73
308 333 1.134159 AGACCACCTAGCGACGACTAT 60.134 52.381 0.00 0.00 0.00 2.12
314 339 1.089920 TTCGTAGACCACCTAGCGAC 58.910 55.000 0.00 0.00 34.32 5.19
355 380 5.625721 CACGGCAATACAACGAACATAAAAA 59.374 36.000 0.00 0.00 0.00 1.94
356 381 5.049612 TCACGGCAATACAACGAACATAAAA 60.050 36.000 0.00 0.00 0.00 1.52
357 382 4.451435 TCACGGCAATACAACGAACATAAA 59.549 37.500 0.00 0.00 0.00 1.40
358 383 3.995048 TCACGGCAATACAACGAACATAA 59.005 39.130 0.00 0.00 0.00 1.90
359 384 3.586892 TCACGGCAATACAACGAACATA 58.413 40.909 0.00 0.00 0.00 2.29
360 385 2.418692 TCACGGCAATACAACGAACAT 58.581 42.857 0.00 0.00 0.00 2.71
361 386 1.867166 TCACGGCAATACAACGAACA 58.133 45.000 0.00 0.00 0.00 3.18
383 408 7.218314 AGGGACTTTCAATCTATTCATCCTT 57.782 36.000 0.00 0.00 27.25 3.36
385 410 5.698545 CGAGGGACTTTCAATCTATTCATCC 59.301 44.000 0.00 0.00 41.55 3.51
417 442 9.685828 ACACAATTTTTGTATTGCGTAACTATT 57.314 25.926 0.00 0.00 43.23 1.73
418 443 9.123709 CACACAATTTTTGTATTGCGTAACTAT 57.876 29.630 0.00 0.00 43.23 2.12
419 444 8.343366 TCACACAATTTTTGTATTGCGTAACTA 58.657 29.630 0.00 0.00 43.23 2.24
444 469 3.571571 GATTTGCCGTTTTACCTGGTTC 58.428 45.455 3.84 0.00 0.00 3.62
445 470 2.030628 CGATTTGCCGTTTTACCTGGTT 60.031 45.455 3.84 0.00 0.00 3.67
450 475 4.786507 ACTTTACGATTTGCCGTTTTACC 58.213 39.130 0.00 0.00 43.20 2.85
460 485 6.305638 GCCTTTGCTAGAAACTTTACGATTTG 59.694 38.462 0.00 0.00 33.53 2.32
461 486 6.016610 TGCCTTTGCTAGAAACTTTACGATTT 60.017 34.615 0.00 0.00 38.71 2.17
464 489 4.382291 TGCCTTTGCTAGAAACTTTACGA 58.618 39.130 0.00 0.00 38.71 3.43
465 490 4.742438 TGCCTTTGCTAGAAACTTTACG 57.258 40.909 0.00 0.00 38.71 3.18
466 491 4.859245 GCATGCCTTTGCTAGAAACTTTAC 59.141 41.667 6.36 0.00 39.57 2.01
467 492 4.522405 TGCATGCCTTTGCTAGAAACTTTA 59.478 37.500 16.68 0.00 43.18 1.85
468 493 3.321682 TGCATGCCTTTGCTAGAAACTTT 59.678 39.130 16.68 0.00 43.18 2.66
469 494 2.892852 TGCATGCCTTTGCTAGAAACTT 59.107 40.909 16.68 0.00 43.18 2.66
470 495 2.517959 TGCATGCCTTTGCTAGAAACT 58.482 42.857 16.68 0.00 43.18 2.66
471 496 3.302365 TTGCATGCCTTTGCTAGAAAC 57.698 42.857 16.68 0.00 43.18 2.78
472 497 4.039004 TCTTTTGCATGCCTTTGCTAGAAA 59.961 37.500 16.68 2.43 43.18 2.52
473 498 3.573538 TCTTTTGCATGCCTTTGCTAGAA 59.426 39.130 16.68 0.00 43.18 2.10
485 510 7.974243 TTCATCGTCATTTATCTTTTGCATG 57.026 32.000 0.00 0.00 0.00 4.06
535 560 4.642885 TGGAAATAACCGTGGGATTTGATC 59.357 41.667 5.95 0.00 0.00 2.92
548 573 4.481463 CGGTTGTGAATGTGGAAATAACC 58.519 43.478 0.00 0.00 34.48 2.85
549 574 4.481463 CCGGTTGTGAATGTGGAAATAAC 58.519 43.478 0.00 0.00 0.00 1.89
551 576 2.490115 GCCGGTTGTGAATGTGGAAATA 59.510 45.455 1.90 0.00 0.00 1.40
589 614 3.712907 TGAGGGCGGGGCAACTAC 61.713 66.667 0.00 0.00 0.00 2.73
636 661 1.700186 GGGGTTAGAGGGATGGATGAC 59.300 57.143 0.00 0.00 0.00 3.06
687 712 1.079438 GGTGACAGGGGAGAGGACT 59.921 63.158 0.00 0.00 0.00 3.85
875 3027 6.145534 TGCTTTCTACGTATTGTTTCTGTCAG 59.854 38.462 0.00 0.00 0.00 3.51
922 3075 7.011016 CGTGTTTTTCCTTTTTAATTTCAGGCT 59.989 33.333 0.00 0.00 0.00 4.58
923 3076 7.010645 TCGTGTTTTTCCTTTTTAATTTCAGGC 59.989 33.333 0.00 0.00 0.00 4.85
924 3077 8.325282 GTCGTGTTTTTCCTTTTTAATTTCAGG 58.675 33.333 0.00 0.00 0.00 3.86
997 3150 2.896685 TGACGGGATTTGCTTCCATTTT 59.103 40.909 3.81 0.00 37.53 1.82
1104 3257 2.962421 GTGGGATTGGTTTTTGAGTGGA 59.038 45.455 0.00 0.00 0.00 4.02
1338 3495 4.792804 GGGAGCAGTGGCAGGAGC 62.793 72.222 0.00 0.00 44.61 4.70
1482 3639 1.443702 CTCGCCGTCGATTGACACA 60.444 57.895 13.58 0.00 45.80 3.72
1690 3847 2.435059 GGCTCTCTTGCCGTCCAC 60.435 66.667 0.00 0.00 43.74 4.02
1848 4005 2.432628 GCCCCGTCAGTGTCGAAG 60.433 66.667 11.43 3.35 0.00 3.79
1890 4047 2.716244 CCGACGTCTCCATCCTCG 59.284 66.667 14.70 0.00 0.00 4.63
1976 4133 3.854669 CGCGCCTCCAAGATCCCT 61.855 66.667 0.00 0.00 0.00 4.20
2046 4203 4.925576 GACGATGACGCCGCGGAT 62.926 66.667 33.48 17.16 43.96 4.18
2259 4416 6.494491 AGGAAAGAAATCACATCAACAATCCA 59.506 34.615 0.00 0.00 0.00 3.41
2261 4418 7.869429 ACAAGGAAAGAAATCACATCAACAATC 59.131 33.333 0.00 0.00 0.00 2.67
2395 4563 8.193250 TCTGTTAACTAACCGCAATTATCTTC 57.807 34.615 7.22 0.00 35.37 2.87
2449 6744 1.668826 TTATCTCCTGTGTGCCCCTT 58.331 50.000 0.00 0.00 0.00 3.95
2497 6798 4.026475 GTGACATTAATGTGCTAGCTCGAC 60.026 45.833 25.42 6.50 41.95 4.20
2514 6815 2.910688 AGAAGTGTTGACGGTGACAT 57.089 45.000 0.00 0.00 0.00 3.06
2553 6855 3.492829 GCTTACTAATGGAGAAGGGACGG 60.493 52.174 0.00 0.00 0.00 4.79
2571 6873 2.991190 GTTGTGAAGTCGGAATCGCTTA 59.009 45.455 7.02 0.00 34.64 3.09
2578 6880 2.933906 GTTGTCTGTTGTGAAGTCGGAA 59.066 45.455 0.00 0.00 0.00 4.30
2597 6899 0.538746 GGTGGGTTGGATTGACGGTT 60.539 55.000 0.00 0.00 0.00 4.44
2618 6920 0.397254 GCACCCTCTAGGCCTCTACA 60.397 60.000 9.68 0.00 40.58 2.74
2626 6928 0.394488 TCTCTCACGCACCCTCTAGG 60.394 60.000 0.00 0.00 43.78 3.02
2627 6929 1.403679 CTTCTCTCACGCACCCTCTAG 59.596 57.143 0.00 0.00 0.00 2.43
2628 6930 1.271982 ACTTCTCTCACGCACCCTCTA 60.272 52.381 0.00 0.00 0.00 2.43
2629 6931 0.540830 ACTTCTCTCACGCACCCTCT 60.541 55.000 0.00 0.00 0.00 3.69
2631 6933 0.540830 AGACTTCTCTCACGCACCCT 60.541 55.000 0.00 0.00 0.00 4.34
2635 6937 1.135139 GGCATAGACTTCTCTCACGCA 59.865 52.381 0.00 0.00 0.00 5.24
2636 6938 1.135139 TGGCATAGACTTCTCTCACGC 59.865 52.381 0.00 0.00 0.00 5.34
2637 6939 3.443037 CTTGGCATAGACTTCTCTCACG 58.557 50.000 0.00 0.00 0.00 4.35
2638 6940 3.194062 GCTTGGCATAGACTTCTCTCAC 58.806 50.000 0.00 0.00 0.00 3.51
2639 6941 2.833943 TGCTTGGCATAGACTTCTCTCA 59.166 45.455 0.00 0.00 31.71 3.27
2640 6942 3.118811 AGTGCTTGGCATAGACTTCTCTC 60.119 47.826 0.00 0.00 41.91 3.20
2641 6943 2.836981 AGTGCTTGGCATAGACTTCTCT 59.163 45.455 0.00 0.00 41.91 3.10
2644 6946 2.935201 CAGAGTGCTTGGCATAGACTTC 59.065 50.000 0.00 0.00 41.91 3.01
2645 6947 2.938756 GCAGAGTGCTTGGCATAGACTT 60.939 50.000 0.00 0.00 41.91 3.01
2646 6948 1.406614 GCAGAGTGCTTGGCATAGACT 60.407 52.381 0.00 0.00 41.91 3.24
2647 6949 1.012841 GCAGAGTGCTTGGCATAGAC 58.987 55.000 0.00 0.00 41.91 2.59
2648 6950 0.107508 GGCAGAGTGCTTGGCATAGA 60.108 55.000 0.00 0.00 44.28 1.98
2649 6951 0.393402 TGGCAGAGTGCTTGGCATAG 60.393 55.000 0.00 0.00 44.28 2.23
2650 6952 0.677731 GTGGCAGAGTGCTTGGCATA 60.678 55.000 4.80 0.00 44.28 3.14
2667 6969 2.664851 TTGCCCTTGTCGCGAGTG 60.665 61.111 10.24 1.99 0.00 3.51
2726 7039 2.738314 GTGATTTTTGATGGCTGTTGGC 59.262 45.455 0.00 0.00 40.90 4.52
2728 7041 2.988493 CGGTGATTTTTGATGGCTGTTG 59.012 45.455 0.00 0.00 0.00 3.33
2730 7043 2.513753 TCGGTGATTTTTGATGGCTGT 58.486 42.857 0.00 0.00 0.00 4.40
2731 7044 3.244976 GTTCGGTGATTTTTGATGGCTG 58.755 45.455 0.00 0.00 0.00 4.85
2732 7045 2.890311 TGTTCGGTGATTTTTGATGGCT 59.110 40.909 0.00 0.00 0.00 4.75
2733 7046 2.986479 GTGTTCGGTGATTTTTGATGGC 59.014 45.455 0.00 0.00 0.00 4.40
2734 7047 3.980775 GTGTGTTCGGTGATTTTTGATGG 59.019 43.478 0.00 0.00 0.00 3.51
2739 7052 2.100087 GGTGGTGTGTTCGGTGATTTTT 59.900 45.455 0.00 0.00 0.00 1.94
2742 7055 0.472471 AGGTGGTGTGTTCGGTGATT 59.528 50.000 0.00 0.00 0.00 2.57
2755 7235 1.915489 TGATGGTAAGCATCAGGTGGT 59.085 47.619 0.00 0.00 41.11 4.16
2756 7236 2.715749 TGATGGTAAGCATCAGGTGG 57.284 50.000 0.00 0.00 34.50 4.61
2767 7247 0.986019 AGCGGTGGGGATGATGGTAA 60.986 55.000 0.00 0.00 0.00 2.85
2768 7248 1.383943 AGCGGTGGGGATGATGGTA 60.384 57.895 0.00 0.00 0.00 3.25
2770 7250 2.203252 CAGCGGTGGGGATGATGG 60.203 66.667 6.74 0.00 0.00 3.51
2781 7261 4.681978 GGTTCGGTCTGCAGCGGT 62.682 66.667 9.47 0.00 43.94 5.68
2786 7266 1.174078 TGTAGTCGGTTCGGTCTGCA 61.174 55.000 0.00 0.00 0.00 4.41
2796 7329 3.596214 GACAATGGTTGATGTAGTCGGT 58.404 45.455 0.00 0.00 0.00 4.69
2835 7368 3.243602 CGATGGTAACGATGATGTGGGTA 60.244 47.826 0.00 0.00 42.51 3.69
2845 7378 1.227556 GGGCTGCGATGGTAACGAT 60.228 57.895 0.00 0.00 42.51 3.73
2848 7381 1.377987 TTGGGGCTGCGATGGTAAC 60.378 57.895 0.00 0.00 0.00 2.50
2851 7384 3.965258 TGTTGGGGCTGCGATGGT 61.965 61.111 0.00 0.00 0.00 3.55
2865 7398 2.748647 GGCGGTAATGGCGGTGTT 60.749 61.111 0.00 0.00 0.00 3.32
2887 7420 2.536761 AAATGACGAACTTCCACCGA 57.463 45.000 0.00 0.00 0.00 4.69
2913 7447 2.691526 TCTAGGAATTCACGCGGTGTAT 59.308 45.455 12.47 3.01 34.79 2.29
2916 7450 1.560923 CTCTAGGAATTCACGCGGTG 58.439 55.000 12.47 6.71 34.45 4.94
2929 7463 6.801539 TTAACAATGTGACTTTGCTCTAGG 57.198 37.500 10.66 0.00 0.00 3.02
2943 7477 4.690748 CACTCACTCGTGGATTAACAATGT 59.309 41.667 0.00 0.00 0.00 2.71
2980 7514 2.125766 AAAGGAACAGCCCCTCGTCC 62.126 60.000 0.00 0.00 37.37 4.79
3024 7558 5.233225 GTCTGATGACTCACAAGTTGATCA 58.767 41.667 10.54 6.21 39.94 2.92
3029 7563 2.868044 GCGGTCTGATGACTCACAAGTT 60.868 50.000 0.00 0.00 42.54 2.66
3044 7578 0.110056 CACGTACGTACTTGCGGTCT 60.110 55.000 22.34 0.00 35.98 3.85
3046 7580 0.871722 TACACGTACGTACTTGCGGT 59.128 50.000 26.67 14.97 35.98 5.68
3115 7657 0.443869 CGATTCAGACGGTTTGCCAG 59.556 55.000 0.00 0.00 34.09 4.85


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

AutoCloner maintained by Alex Coulton.