Multiple sequence alignment - TraesCS1B01G453000

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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 TraesCS1B01G453000 chr1B 100.000 3527 0 0 1 3527 669657138 669660664 0.000000e+00 6514.0
1 TraesCS1B01G453000 chr1B 84.692 503 54 14 8 499 679718886 679718396 6.850000e-132 481.0
2 TraesCS1B01G453000 chr1D 95.429 2144 73 7 857 3000 481276392 481278510 0.000000e+00 3393.0
3 TraesCS1B01G453000 chr1D 93.536 526 30 1 3006 3527 481280670 481281195 0.000000e+00 780.0
4 TraesCS1B01G453000 chr1D 96.127 284 8 1 576 859 481275855 481276135 8.920000e-126 460.0
5 TraesCS1B01G453000 chr1D 88.657 335 37 1 3061 3394 481280682 481280348 1.180000e-109 407.0
6 TraesCS1B01G453000 chr5B 94.819 579 23 3 1 579 565895657 565896228 0.000000e+00 896.0
7 TraesCS1B01G453000 chr5B 89.362 470 44 2 1 464 491882184 491882653 1.410000e-163 586.0
8 TraesCS1B01G453000 chr2B 94.801 577 27 3 1 575 798313564 798314139 0.000000e+00 896.0
9 TraesCS1B01G453000 chr2B 82.133 1069 156 20 1475 2521 46004146 46003091 0.000000e+00 883.0
10 TraesCS1B01G453000 chr2B 93.515 586 27 11 1 576 300557745 300557161 0.000000e+00 861.0
11 TraesCS1B01G453000 chr2B 91.577 558 41 4 1 554 73623754 73624309 0.000000e+00 765.0
12 TraesCS1B01G453000 chr2B 87.629 97 9 3 2906 3000 54328899 54328994 3.720000e-20 110.0
13 TraesCS1B01G453000 chr7B 94.792 576 27 3 1 575 481828709 481828136 0.000000e+00 894.0
14 TraesCS1B01G453000 chr6B 86.473 584 52 20 4 580 276227473 276226910 1.800000e-172 616.0
15 TraesCS1B01G453000 chr6B 89.873 79 8 0 2922 3000 230488044 230487966 6.230000e-18 102.0
16 TraesCS1B01G453000 chr5D 90.604 447 36 5 1 442 410082041 410082486 3.920000e-164 588.0
17 TraesCS1B01G453000 chr5D 87.778 90 11 0 2911 3000 315929082 315928993 4.820000e-19 106.0
18 TraesCS1B01G453000 chr5D 87.778 90 11 0 2911 3000 472997540 472997451 4.820000e-19 106.0
19 TraesCS1B01G453000 chr6A 90.110 91 9 0 2910 3000 502244227 502244317 6.180000e-23 119.0
20 TraesCS1B01G453000 chr3D 89.247 93 10 0 2908 3000 513957275 513957367 2.220000e-22 117.0
21 TraesCS1B01G453000 chr7D 88.298 94 11 0 2907 3000 314966850 314966757 2.880000e-21 113.0
22 TraesCS1B01G453000 chr7D 90.244 82 6 2 2911 2991 467923538 467923618 4.820000e-19 106.0
23 TraesCS1B01G453000 chr7D 95.238 42 2 0 523 564 514346970 514346929 2.270000e-07 67.6
24 TraesCS1B01G453000 chr6D 91.667 48 4 0 523 570 422574123 422574076 2.270000e-07 67.6


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 TraesCS1B01G453000 chr1B 669657138 669660664 3526 False 6514.000000 6514 100.000000 1 3527 1 chr1B.!!$F1 3526
1 TraesCS1B01G453000 chr1D 481275855 481281195 5340 False 1544.333333 3393 95.030667 576 3527 3 chr1D.!!$F1 2951
2 TraesCS1B01G453000 chr5B 565895657 565896228 571 False 896.000000 896 94.819000 1 579 1 chr5B.!!$F2 578
3 TraesCS1B01G453000 chr2B 798313564 798314139 575 False 896.000000 896 94.801000 1 575 1 chr2B.!!$F3 574
4 TraesCS1B01G453000 chr2B 46003091 46004146 1055 True 883.000000 883 82.133000 1475 2521 1 chr2B.!!$R1 1046
5 TraesCS1B01G453000 chr2B 300557161 300557745 584 True 861.000000 861 93.515000 1 576 1 chr2B.!!$R2 575
6 TraesCS1B01G453000 chr2B 73623754 73624309 555 False 765.000000 765 91.577000 1 554 1 chr2B.!!$F2 553
7 TraesCS1B01G453000 chr7B 481828136 481828709 573 True 894.000000 894 94.792000 1 575 1 chr7B.!!$R1 574
8 TraesCS1B01G453000 chr6B 276226910 276227473 563 True 616.000000 616 86.473000 4 580 1 chr6B.!!$R2 576

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
998 1282 1.133823 TGGATCCACCACCATACATGC 60.134 52.381 11.44 0.0 44.64 4.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2694 2996 0.672091 ATCCACGCATACACACGCAA 60.672 50.0 0.0 0.0 0.0 4.85 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
351 367 8.306038 TCCACAATGAAATTAAATGGAAGTCTG 58.694 33.333 0.00 0.00 38.39 3.51
360 376 8.868522 AATTAAATGGAAGTCTGTTGATGAGA 57.131 30.769 0.00 0.00 0.00 3.27
459 479 2.171003 GCAGAAGGCCCACAAGTATTT 58.829 47.619 0.00 0.00 36.11 1.40
681 706 3.896888 GCCCATCCATGATAATTTGGTCA 59.103 43.478 0.00 0.00 34.48 4.02
778 803 9.691362 TGCAGTGTATTTTTCTTTTATCCTTTC 57.309 29.630 0.00 0.00 0.00 2.62
799 824 9.178758 CCTTTCTTTAGGTAAACTAATGAGCAT 57.821 33.333 0.00 0.00 42.94 3.79
851 876 2.752903 CCAGGGGCATTGTTGTACTTAC 59.247 50.000 0.00 0.00 0.00 2.34
859 884 6.317642 GGGCATTGTTGTACTTACATGATACA 59.682 38.462 0.00 0.00 35.89 2.29
860 885 7.148154 GGGCATTGTTGTACTTACATGATACAA 60.148 37.037 0.00 6.16 37.50 2.41
913 1197 6.867293 CGTAGAACATAATCCCTAAAGGCTAC 59.133 42.308 0.00 0.00 34.51 3.58
998 1282 1.133823 TGGATCCACCACCATACATGC 60.134 52.381 11.44 0.00 44.64 4.06
1190 1474 1.137404 CCATTTTCAAGCCTCGCCG 59.863 57.895 0.00 0.00 0.00 6.46
1209 1493 0.825840 GTAAGCCAACCCAGCAACCA 60.826 55.000 0.00 0.00 0.00 3.67
1221 1505 2.224606 CAGCAACCACAGAATCACACT 58.775 47.619 0.00 0.00 0.00 3.55
1342 1626 3.473647 CCCAGCCGCCTCTCATCA 61.474 66.667 0.00 0.00 0.00 3.07
1380 1664 1.813513 CCATCGTCAAGTTCCTTGCT 58.186 50.000 0.00 0.00 40.84 3.91
1383 1667 0.756294 TCGTCAAGTTCCTTGCTGGA 59.244 50.000 0.00 0.00 44.51 3.86
1404 1688 3.665190 AGAAGATTTCAACCTCGACACC 58.335 45.455 0.00 0.00 0.00 4.16
1427 1711 1.075659 GCTTCCTTGGTTGGGCTCT 59.924 57.895 0.00 0.00 0.00 4.09
1428 1712 0.540597 GCTTCCTTGGTTGGGCTCTT 60.541 55.000 0.00 0.00 0.00 2.85
1452 1736 2.048127 GAAGCCCGAGTTCGCAGT 60.048 61.111 0.00 0.00 38.18 4.40
1632 1919 2.470821 GTGTTCGTGTACTTGTCAGCT 58.529 47.619 0.00 0.00 0.00 4.24
1726 2013 0.737715 CACCGAGCTTCACAGGCTAC 60.738 60.000 0.00 0.00 40.40 3.58
1848 2135 1.597854 CGAAGCAGCAGGAACCACA 60.598 57.895 0.00 0.00 0.00 4.17
1849 2136 1.845809 CGAAGCAGCAGGAACCACAC 61.846 60.000 0.00 0.00 0.00 3.82
1915 2217 2.652530 GTAACCACGGGCTCGACA 59.347 61.111 15.95 0.00 40.11 4.35
2377 2679 0.516001 GGCAGCATATCATCACAGCG 59.484 55.000 0.00 0.00 0.00 5.18
2475 2777 0.443869 CTTTGATCTCCGTTGCCACG 59.556 55.000 2.82 2.82 46.71 4.94
2532 2834 6.892456 TCTATCATCCAGTCAAGTGAAGTAGT 59.108 38.462 0.00 0.00 0.00 2.73
2533 2835 8.053355 TCTATCATCCAGTCAAGTGAAGTAGTA 58.947 37.037 0.00 0.00 0.00 1.82
2534 2836 6.911250 TCATCCAGTCAAGTGAAGTAGTAA 57.089 37.500 0.00 0.00 0.00 2.24
2551 2853 2.963782 AGTAATAACTACCGGGCCAGAG 59.036 50.000 6.32 0.00 32.84 3.35
2599 2901 3.259625 AGTCCAAGAGCCTAAGAGTTGAC 59.740 47.826 0.00 0.00 0.00 3.18
2643 2945 9.561069 AAGTGACTTGATATTTTGTGTTCTACT 57.439 29.630 0.00 0.00 0.00 2.57
2680 2982 2.950781 TGGTGGTTGGCTGTTTATTGA 58.049 42.857 0.00 0.00 0.00 2.57
2694 2996 6.294508 GCTGTTTATTGATTGGTTACCTGTGT 60.295 38.462 2.07 0.00 0.00 3.72
2711 3013 1.154488 GTTGCGTGTGTATGCGTGG 60.154 57.895 0.00 0.00 41.84 4.94
2723 3025 4.388773 GTGTATGCGTGGATGTATATGGTG 59.611 45.833 0.00 0.00 0.00 4.17
2740 3042 4.098914 TGGTGAAGATGTAGTTTGCCTT 57.901 40.909 0.00 0.00 0.00 4.35
2843 3145 4.202441 AGTGCATTTTCTTATCCTCGCAT 58.798 39.130 0.00 0.00 0.00 4.73
2893 3195 1.639280 GTGTTGTGCACTGGGTTTTG 58.361 50.000 19.41 0.00 44.41 2.44
2902 3204 3.129638 TGCACTGGGTTTTGTGAGTTAAC 59.870 43.478 0.00 0.00 36.38 2.01
2919 3221 8.358895 GTGAGTTAACATTATACTACTCCCTCC 58.641 40.741 8.61 0.00 32.96 4.30
2920 3222 7.508296 TGAGTTAACATTATACTACTCCCTCCC 59.492 40.741 8.61 0.00 32.96 4.30
2921 3223 7.367828 AGTTAACATTATACTACTCCCTCCCA 58.632 38.462 8.61 0.00 0.00 4.37
2922 3224 8.017251 AGTTAACATTATACTACTCCCTCCCAT 58.983 37.037 8.61 0.00 0.00 4.00
2945 3247 6.961359 TCCATATTAGTTGTCACTGAAACG 57.039 37.500 0.00 0.00 34.06 3.60
2946 3248 5.872617 TCCATATTAGTTGTCACTGAAACGG 59.127 40.000 0.00 0.00 34.06 4.44
2968 3270 7.316640 ACGGATGTATCTAGACATATTTCAGC 58.683 38.462 0.00 0.00 40.18 4.26
2980 3282 6.484643 AGACATATTTCAGCGCTTGATACATT 59.515 34.615 7.50 0.00 35.27 2.71
2982 3284 6.260714 ACATATTTCAGCGCTTGATACATTCA 59.739 34.615 7.50 0.00 35.27 2.57
2991 3293 4.285292 GCTTGATACATTCATTTGAGCGG 58.715 43.478 0.00 0.00 33.34 5.52
2994 3296 2.017138 TACATTCATTTGAGCGGCGA 57.983 45.000 12.98 0.00 0.00 5.54
3000 3302 2.201732 TCATTTGAGCGGCGACTAATC 58.798 47.619 12.98 0.00 0.00 1.75
3001 3303 1.933181 CATTTGAGCGGCGACTAATCA 59.067 47.619 12.98 2.88 0.00 2.57
3003 3305 0.530744 TTGAGCGGCGACTAATCAGT 59.469 50.000 12.98 0.00 37.87 3.41
3004 3306 0.179137 TGAGCGGCGACTAATCAGTG 60.179 55.000 12.98 0.00 34.21 3.66
3014 5470 4.437239 CGACTAATCAGTGCCTGAAATCT 58.563 43.478 8.66 0.00 44.04 2.40
3020 5476 3.405831 TCAGTGCCTGAAATCTGAACTG 58.594 45.455 2.78 12.59 37.57 3.16
3025 5481 2.094417 GCCTGAAATCTGAACTGTACGC 59.906 50.000 0.00 0.00 0.00 4.42
3045 5501 3.124466 CGCGTCATTCCAATAGTTTGACA 59.876 43.478 0.00 0.00 37.20 3.58
3051 5507 7.271223 CGTCATTCCAATAGTTTGACAATGTTC 59.729 37.037 0.00 0.00 37.20 3.18
3052 5508 8.081633 GTCATTCCAATAGTTTGACAATGTTCA 58.918 33.333 0.00 0.00 37.30 3.18
3053 5509 8.081633 TCATTCCAATAGTTTGACAATGTTCAC 58.918 33.333 0.00 0.00 35.95 3.18
3105 5561 7.951565 GCAAAATGGAAATAAAATGTTCGACTG 59.048 33.333 0.00 0.00 0.00 3.51
3127 5583 7.375053 ACTGAACTAGAGAGTCAGTTGATTTC 58.625 38.462 13.59 0.00 39.21 2.17
3207 5663 5.248705 AGAGGAGGTTCTTCGGTAGAATTTT 59.751 40.000 0.29 0.00 44.39 1.82
3212 5668 7.490725 GGAGGTTCTTCGGTAGAATTTTACTAC 59.509 40.741 6.15 0.00 44.39 2.73
3216 5672 7.624360 TCTTCGGTAGAATTTTACTACGGTA 57.376 36.000 6.15 0.00 40.47 4.02
3232 5688 1.068472 CGGTAGCTGGTATTAGAGGCG 60.068 57.143 0.00 0.00 0.00 5.52
3283 5739 4.767928 AGTAACTATTATCTGGAGGCGGAG 59.232 45.833 0.00 0.00 0.00 4.63
3321 5777 4.323417 TGATTGTGTCTGATAACCGCTTT 58.677 39.130 0.00 0.00 0.00 3.51
3368 5828 7.650504 GTGATATTGCAATTGATATTGTGCACT 59.349 33.333 18.75 0.28 46.10 4.40
3384 5844 3.433615 GTGCACTGTCACCTCATTTAGAC 59.566 47.826 10.32 0.00 0.00 2.59
3488 5948 3.953612 TGATGGAACCAGTGAATTATGGC 59.046 43.478 0.00 0.00 40.45 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
566 591 9.935241 ATTTCAATGATAGATATGCGACTAAGT 57.065 29.630 0.00 0.00 0.00 2.24
633 658 3.010420 GGCCAGTGGAATAAGTCAACTC 58.990 50.000 15.20 0.00 38.60 3.01
681 706 4.375272 CACAATGATCTGTCTATTCGGCT 58.625 43.478 0.00 0.00 0.00 5.52
814 839 1.340017 CCTGGCCGGAAGAAAGAATCA 60.340 52.381 15.09 0.00 33.16 2.57
851 876 8.549338 AAGATGCTCTGATATGTTGTATCATG 57.451 34.615 0.00 0.00 33.93 3.07
859 884 4.141551 TGGCTGAAGATGCTCTGATATGTT 60.142 41.667 0.00 0.00 0.00 2.71
860 885 3.390311 TGGCTGAAGATGCTCTGATATGT 59.610 43.478 0.00 0.00 0.00 2.29
862 887 4.912317 ATGGCTGAAGATGCTCTGATAT 57.088 40.909 0.00 0.00 0.00 1.63
864 889 3.244491 GGTATGGCTGAAGATGCTCTGAT 60.244 47.826 0.00 0.00 0.00 2.90
865 890 2.103771 GGTATGGCTGAAGATGCTCTGA 59.896 50.000 0.00 0.00 0.00 3.27
866 891 2.492012 GGTATGGCTGAAGATGCTCTG 58.508 52.381 0.00 0.00 0.00 3.35
913 1197 6.371595 AATGAGATTCTATAAGGAGCCCTG 57.628 41.667 0.00 0.00 32.13 4.45
946 1230 4.156008 GCAAGGAAGAATGGTACGATTTGT 59.844 41.667 4.49 0.00 0.00 2.83
1014 1298 1.344438 CCTTGCGTATCCAGCTCCATA 59.656 52.381 0.00 0.00 35.28 2.74
1112 1396 0.689623 GTATGGAGGGATGCTCAGGG 59.310 60.000 0.00 0.00 0.00 4.45
1190 1474 0.825840 TGGTTGCTGGGTTGGCTTAC 60.826 55.000 0.00 0.00 0.00 2.34
1209 1493 1.625818 GAGGTCCCAGTGTGATTCTGT 59.374 52.381 0.00 0.00 0.00 3.41
1221 1505 3.324930 CTGCTGGCTGAGGTCCCA 61.325 66.667 0.00 0.00 0.00 4.37
1316 1600 4.489771 GCGGCTGGGGCTGTACAT 62.490 66.667 0.00 0.00 45.94 2.29
1342 1626 1.181098 GCACACTTCTTGGCATGGGT 61.181 55.000 0.00 0.00 0.00 4.51
1380 1664 3.323691 TGTCGAGGTTGAAATCTTCTCCA 59.676 43.478 0.00 0.00 0.00 3.86
1383 1667 3.665190 GGTGTCGAGGTTGAAATCTTCT 58.335 45.455 0.00 0.00 0.00 2.85
1404 1688 3.737172 CAACCAAGGAAGCCGGCG 61.737 66.667 23.20 7.32 0.00 6.46
1427 1711 1.768684 AACTCGGGCTTCCTGCTGAA 61.769 55.000 0.00 0.00 42.39 3.02
1428 1712 2.172483 GAACTCGGGCTTCCTGCTGA 62.172 60.000 0.00 0.00 42.39 4.26
1452 1736 2.202440 GAGTCGCGCTCGTAGCAA 60.202 61.111 5.56 0.00 42.58 3.91
1605 1889 3.638160 ACAAGTACACGAACACCTTCCTA 59.362 43.478 0.00 0.00 0.00 2.94
1726 2013 5.994250 TCCATGGAAGAAGGTATTTCTCAG 58.006 41.667 13.46 0.00 45.41 3.35
1848 2135 2.234908 GTGCAGGAGGTGATGAACTAGT 59.765 50.000 0.00 0.00 0.00 2.57
1849 2136 2.419297 GGTGCAGGAGGTGATGAACTAG 60.419 54.545 0.00 0.00 0.00 2.57
1915 2217 1.082117 CGGCGCAGGAACGAAGTATT 61.082 55.000 10.83 0.00 45.00 1.89
2475 2777 1.735559 GTACCCGGTGTTGACGAGC 60.736 63.158 0.00 0.00 0.00 5.03
2532 2834 2.322658 CCTCTGGCCCGGTAGTTATTA 58.677 52.381 0.00 0.00 0.00 0.98
2533 2835 1.129058 CCTCTGGCCCGGTAGTTATT 58.871 55.000 0.00 0.00 0.00 1.40
2534 2836 1.408453 GCCTCTGGCCCGGTAGTTAT 61.408 60.000 0.00 0.00 44.06 1.89
2561 2863 1.522302 GACTACGGCGATACTCCCCC 61.522 65.000 16.62 0.00 0.00 5.40
2577 2879 3.259625 GTCAACTCTTAGGCTCTTGGACT 59.740 47.826 0.00 0.00 37.00 3.85
2580 2882 3.685139 TGTCAACTCTTAGGCTCTTGG 57.315 47.619 0.00 0.00 0.00 3.61
2599 2901 7.810658 AGTCACTTATACAACAAGCAAAGATG 58.189 34.615 0.00 0.00 0.00 2.90
2640 2942 8.873144 ACCACCAAAAGAAGTACAATAGTAGTA 58.127 33.333 0.00 0.00 32.75 1.82
2641 2943 7.742767 ACCACCAAAAGAAGTACAATAGTAGT 58.257 34.615 0.00 0.00 35.40 2.73
2642 2944 8.504005 CAACCACCAAAAGAAGTACAATAGTAG 58.496 37.037 0.00 0.00 0.00 2.57
2643 2945 7.446013 CCAACCACCAAAAGAAGTACAATAGTA 59.554 37.037 0.00 0.00 0.00 1.82
2644 2946 6.264518 CCAACCACCAAAAGAAGTACAATAGT 59.735 38.462 0.00 0.00 0.00 2.12
2645 2947 6.677913 CCAACCACCAAAAGAAGTACAATAG 58.322 40.000 0.00 0.00 0.00 1.73
2646 2948 5.010213 GCCAACCACCAAAAGAAGTACAATA 59.990 40.000 0.00 0.00 0.00 1.90
2647 2949 4.202212 GCCAACCACCAAAAGAAGTACAAT 60.202 41.667 0.00 0.00 0.00 2.71
2648 2950 3.131400 GCCAACCACCAAAAGAAGTACAA 59.869 43.478 0.00 0.00 0.00 2.41
2649 2951 2.691011 GCCAACCACCAAAAGAAGTACA 59.309 45.455 0.00 0.00 0.00 2.90
2650 2952 2.956333 AGCCAACCACCAAAAGAAGTAC 59.044 45.455 0.00 0.00 0.00 2.73
2651 2953 2.955660 CAGCCAACCACCAAAAGAAGTA 59.044 45.455 0.00 0.00 0.00 2.24
2680 2982 1.606668 CACGCAACACAGGTAACCAAT 59.393 47.619 0.00 0.00 37.17 3.16
2694 2996 0.672091 ATCCACGCATACACACGCAA 60.672 50.000 0.00 0.00 0.00 4.85
2711 3013 8.499162 GCAAACTACATCTTCACCATATACATC 58.501 37.037 0.00 0.00 0.00 3.06
2746 3048 1.613437 ACAAGGGCTGGATTGAAAACG 59.387 47.619 0.00 0.00 0.00 3.60
2752 3054 4.170468 ACCTAATACAAGGGCTGGATTG 57.830 45.455 0.00 0.00 39.11 2.67
2753 3055 4.229582 TCAACCTAATACAAGGGCTGGATT 59.770 41.667 0.00 0.00 41.76 3.01
2790 3092 8.791327 AATTCTGAAAAACATTGAAACCAAGT 57.209 26.923 0.00 0.00 0.00 3.16
2793 3095 9.883142 ACTTAATTCTGAAAAACATTGAAACCA 57.117 25.926 0.00 0.00 0.00 3.67
2831 3133 0.954452 GGCCCAAATGCGAGGATAAG 59.046 55.000 0.00 0.00 0.00 1.73
2843 3145 1.070445 CTTCAAGTTGCATGGCCCAAA 59.930 47.619 0.00 0.00 0.00 3.28
2893 3195 8.358895 GGAGGGAGTAGTATAATGTTAACTCAC 58.641 40.741 7.22 0.34 37.59 3.51
2902 3204 5.342017 TGGATGGGAGGGAGTAGTATAATG 58.658 45.833 0.00 0.00 0.00 1.90
2911 3213 4.510303 ACTAATATGGATGGGAGGGAGT 57.490 45.455 0.00 0.00 0.00 3.85
2919 3221 7.465916 CGTTTCAGTGACAACTAATATGGATGG 60.466 40.741 12.98 0.00 33.79 3.51
2920 3222 7.401860 CGTTTCAGTGACAACTAATATGGATG 58.598 38.462 12.98 0.00 33.79 3.51
2921 3223 6.538742 CCGTTTCAGTGACAACTAATATGGAT 59.461 38.462 12.98 0.00 33.79 3.41
2922 3224 5.872617 CCGTTTCAGTGACAACTAATATGGA 59.127 40.000 12.98 0.00 33.79 3.41
2945 3247 6.254589 GCGCTGAAATATGTCTAGATACATCC 59.745 42.308 0.00 0.00 40.52 3.51
2946 3248 7.032580 AGCGCTGAAATATGTCTAGATACATC 58.967 38.462 10.39 0.00 40.52 3.06
2980 3282 2.201732 GATTAGTCGCCGCTCAAATGA 58.798 47.619 0.00 0.00 0.00 2.57
2982 3284 2.205074 CTGATTAGTCGCCGCTCAAAT 58.795 47.619 0.00 0.00 0.00 2.32
3001 3303 3.498774 ACAGTTCAGATTTCAGGCACT 57.501 42.857 0.00 0.00 43.88 4.40
3003 3305 3.325870 CGTACAGTTCAGATTTCAGGCA 58.674 45.455 0.00 0.00 0.00 4.75
3004 3306 2.094417 GCGTACAGTTCAGATTTCAGGC 59.906 50.000 0.00 0.00 0.00 4.85
3014 5470 1.000052 TGGAATGACGCGTACAGTTCA 60.000 47.619 13.97 13.67 0.00 3.18
3020 5476 4.327898 TCAAACTATTGGAATGACGCGTAC 59.672 41.667 13.97 6.75 37.15 3.67
3025 5481 6.611381 ACATTGTCAAACTATTGGAATGACG 58.389 36.000 15.15 0.00 42.47 4.35
3100 5556 4.452795 TCAACTGACTCTCTAGTTCAGTCG 59.547 45.833 14.89 8.09 40.30 4.18
3105 5561 5.287513 GCGAAATCAACTGACTCTCTAGTTC 59.712 44.000 0.00 0.00 35.56 3.01
3113 5569 3.743396 ACTTCTGCGAAATCAACTGACTC 59.257 43.478 0.00 0.00 0.00 3.36
3115 5571 5.786401 ATACTTCTGCGAAATCAACTGAC 57.214 39.130 0.00 0.00 0.00 3.51
3116 5572 5.351465 GGAATACTTCTGCGAAATCAACTGA 59.649 40.000 0.00 0.00 0.00 3.41
3127 5583 0.652592 CCGCTTGGAATACTTCTGCG 59.347 55.000 0.00 0.00 40.45 5.18
3142 5598 1.594331 GTTCCTTTGACAGAACCGCT 58.406 50.000 0.00 0.00 37.08 5.52
3151 5607 2.358322 TTCCAGGTGGTTCCTTTGAC 57.642 50.000 0.00 0.00 45.67 3.18
3207 5663 5.555017 CCTCTAATACCAGCTACCGTAGTA 58.445 45.833 7.40 0.00 0.00 1.82
3212 5668 1.068472 CGCCTCTAATACCAGCTACCG 60.068 57.143 0.00 0.00 0.00 4.02
3216 5672 1.789523 TTCCGCCTCTAATACCAGCT 58.210 50.000 0.00 0.00 0.00 4.24
3283 5739 2.855963 CAATCATGCGATGGTTTTGCTC 59.144 45.455 0.00 0.00 35.56 4.26
3296 5752 3.546815 GCGGTTATCAGACACAATCATGC 60.547 47.826 0.00 0.00 0.00 4.06
3321 5777 2.779755 AGTACGGAACATGGCATTGA 57.220 45.000 0.00 0.00 0.00 2.57
3368 5828 4.160329 AGTCCAGTCTAAATGAGGTGACA 58.840 43.478 0.00 0.00 32.41 3.58
3384 5844 9.477484 GACAACATGTATTTACCTATAGTCCAG 57.523 37.037 0.00 0.00 0.00 3.86
3471 5931 4.265073 AGTCAGCCATAATTCACTGGTTC 58.735 43.478 4.19 0.00 34.86 3.62
3488 5948 7.386851 TGAAGTCTCCCTATTTAACAAGTCAG 58.613 38.462 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.