Multiple sequence alignment - TraesCS5B01G416800

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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 TraesCS5B01G416800 chr5B 100.000 4505 0 0 1 4505 591520761 591525265 0.000000e+00 8320.0
1 TraesCS5B01G416800 chr5B 86.951 774 74 16 8 761 591514826 591515592 0.000000e+00 845.0
2 TraesCS5B01G416800 chr5B 93.023 387 24 1 730 1116 591515593 591515976 3.040000e-156 562.0
3 TraesCS5B01G416800 chr5A 93.022 4543 226 31 3 4505 601679164 601683655 0.000000e+00 6549.0
4 TraesCS5B01G416800 chr5A 90.625 64 4 1 97 158 90913528 90913591 2.890000e-12 84.2
5 TraesCS5B01G416800 chr5D 93.755 3539 140 32 977 4497 482142244 482145719 0.000000e+00 5236.0
6 TraesCS5B01G416800 chr5D 92.121 495 34 3 451 945 482141755 482142244 0.000000e+00 693.0
7 TraesCS5B01G416800 chr5D 86.698 421 37 6 3 407 482141341 482141758 2.470000e-122 449.0
8 TraesCS5B01G416800 chr5D 93.269 208 13 1 3642 3849 482151035 482151241 5.660000e-79 305.0
9 TraesCS5B01G416800 chr5D 89.498 219 9 6 3888 4098 482151247 482151459 9.610000e-67 265.0
10 TraesCS5B01G416800 chr5D 98.039 51 1 0 4179 4229 482166736 482166786 6.210000e-14 89.8
11 TraesCS5B01G416800 chr5D 90.625 64 4 1 97 158 95859878 95859941 2.890000e-12 84.2
12 TraesCS5B01G416800 chr5D 80.734 109 9 5 161 257 482141605 482141497 1.740000e-09 75.0
13 TraesCS5B01G416800 chr7D 84.306 2931 405 39 636 3534 20404206 20407113 0.000000e+00 2813.0
14 TraesCS5B01G416800 chr7D 84.325 2839 413 20 745 3566 89533025 89530202 0.000000e+00 2748.0
15 TraesCS5B01G416800 chr7D 84.563 2779 389 27 718 3476 555196402 555193644 0.000000e+00 2719.0
16 TraesCS5B01G416800 chr7D 83.586 2766 415 22 732 3477 20947149 20949895 0.000000e+00 2556.0
17 TraesCS5B01G416800 chr7D 82.223 2987 461 46 717 3660 20310838 20313797 0.000000e+00 2510.0
18 TraesCS5B01G416800 chr7D 83.196 1095 166 13 728 1817 20547346 20548427 0.000000e+00 987.0
19 TraesCS5B01G416800 chr7D 94.340 53 3 0 106 158 128138562 128138510 1.040000e-11 82.4
20 TraesCS5B01G416800 chr7D 97.619 42 1 0 160 201 600949250 600949209 6.250000e-09 73.1
21 TraesCS5B01G416800 chr7A 85.736 2650 331 32 1029 3650 20492157 20494787 0.000000e+00 2756.0
22 TraesCS5B01G416800 chr7A 84.022 2879 401 35 635 3475 20659540 20662397 0.000000e+00 2713.0
23 TraesCS5B01G416800 chr7A 83.809 2767 396 32 728 3470 20650807 20653545 0.000000e+00 2580.0
24 TraesCS5B01G416800 chr7A 83.525 2786 410 32 717 3476 20482790 20485552 0.000000e+00 2556.0
25 TraesCS5B01G416800 chr7A 83.640 2775 393 35 718 3469 20588739 20591475 0.000000e+00 2553.0
26 TraesCS5B01G416800 chr7A 83.388 2751 416 24 728 3461 20910693 20913419 0.000000e+00 2510.0
27 TraesCS5B01G416800 chr7A 82.597 2873 453 30 717 3563 20966264 20969115 0.000000e+00 2492.0
28 TraesCS5B01G416800 chr7A 85.950 911 105 15 636 1536 20721311 20722208 0.000000e+00 952.0
29 TraesCS5B01G416800 chr2A 84.254 2807 401 29 728 3513 733087777 733090563 0.000000e+00 2697.0
30 TraesCS5B01G416800 chr2D 83.857 2800 419 20 730 3512 598814077 598816860 0.000000e+00 2636.0
31 TraesCS5B01G416800 chr2D 91.228 57 4 1 103 158 395282480 395282536 4.830000e-10 76.8
32 TraesCS5B01G416800 chr2B 83.738 2804 413 27 730 3512 727686035 727688816 0.000000e+00 2612.0
33 TraesCS5B01G416800 chr4A 83.521 2755 404 34 725 3456 713032311 713035038 0.000000e+00 2527.0
34 TraesCS5B01G416800 chrUn 94.340 53 3 0 106 158 52974602 52974654 1.040000e-11 82.4
35 TraesCS5B01G416800 chr7B 96.000 50 2 0 106 155 327272932 327272981 1.040000e-11 82.4
36 TraesCS5B01G416800 chr7B 97.561 41 1 0 161 201 465122813 465122773 2.250000e-08 71.3
37 TraesCS5B01G416800 chr7B 97.500 40 1 0 162 201 439556207 439556168 8.090000e-08 69.4
38 TraesCS5B01G416800 chr1D 94.231 52 3 0 107 158 211693981 211693930 3.740000e-11 80.5
39 TraesCS5B01G416800 chr1D 87.719 57 7 0 217 273 3994700 3994756 2.910000e-07 67.6
40 TraesCS5B01G416800 chr6D 100.000 37 0 0 229 265 313280501 313280465 8.090000e-08 69.4
41 TraesCS5B01G416800 chr4B 95.122 41 2 0 161 201 478975691 478975651 1.050000e-06 65.8
42 TraesCS5B01G416800 chr3A 100.000 31 0 0 636 666 714514709 714514679 1.750000e-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 TraesCS5B01G416800 chr5B 591520761 591525265 4504 False 8320.0 8320 100.000 1 4505 1 chr5B.!!$F1 4504
1 TraesCS5B01G416800 chr5B 591514826 591515976 1150 False 703.5 845 89.987 8 1116 2 chr5B.!!$F2 1108
2 TraesCS5B01G416800 chr5A 601679164 601683655 4491 False 6549.0 6549 93.022 3 4505 1 chr5A.!!$F2 4502
3 TraesCS5B01G416800 chr5D 482141341 482145719 4378 False 2126.0 5236 90.858 3 4497 3 chr5D.!!$F3 4494
4 TraesCS5B01G416800 chr7D 20404206 20407113 2907 False 2813.0 2813 84.306 636 3534 1 chr7D.!!$F2 2898
5 TraesCS5B01G416800 chr7D 89530202 89533025 2823 True 2748.0 2748 84.325 745 3566 1 chr7D.!!$R1 2821
6 TraesCS5B01G416800 chr7D 555193644 555196402 2758 True 2719.0 2719 84.563 718 3476 1 chr7D.!!$R3 2758
7 TraesCS5B01G416800 chr7D 20947149 20949895 2746 False 2556.0 2556 83.586 732 3477 1 chr7D.!!$F4 2745
8 TraesCS5B01G416800 chr7D 20310838 20313797 2959 False 2510.0 2510 82.223 717 3660 1 chr7D.!!$F1 2943
9 TraesCS5B01G416800 chr7D 20547346 20548427 1081 False 987.0 987 83.196 728 1817 1 chr7D.!!$F3 1089
10 TraesCS5B01G416800 chr7A 20492157 20494787 2630 False 2756.0 2756 85.736 1029 3650 1 chr7A.!!$F2 2621
11 TraesCS5B01G416800 chr7A 20659540 20662397 2857 False 2713.0 2713 84.022 635 3475 1 chr7A.!!$F5 2840
12 TraesCS5B01G416800 chr7A 20650807 20653545 2738 False 2580.0 2580 83.809 728 3470 1 chr7A.!!$F4 2742
13 TraesCS5B01G416800 chr7A 20482790 20485552 2762 False 2556.0 2556 83.525 717 3476 1 chr7A.!!$F1 2759
14 TraesCS5B01G416800 chr7A 20588739 20591475 2736 False 2553.0 2553 83.640 718 3469 1 chr7A.!!$F3 2751
15 TraesCS5B01G416800 chr7A 20910693 20913419 2726 False 2510.0 2510 83.388 728 3461 1 chr7A.!!$F7 2733
16 TraesCS5B01G416800 chr7A 20966264 20969115 2851 False 2492.0 2492 82.597 717 3563 1 chr7A.!!$F8 2846
17 TraesCS5B01G416800 chr7A 20721311 20722208 897 False 952.0 952 85.950 636 1536 1 chr7A.!!$F6 900
18 TraesCS5B01G416800 chr2A 733087777 733090563 2786 False 2697.0 2697 84.254 728 3513 1 chr2A.!!$F1 2785
19 TraesCS5B01G416800 chr2D 598814077 598816860 2783 False 2636.0 2636 83.857 730 3512 1 chr2D.!!$F2 2782
20 TraesCS5B01G416800 chr2B 727686035 727688816 2781 False 2612.0 2612 83.738 730 3512 1 chr2B.!!$F1 2782
21 TraesCS5B01G416800 chr4A 713032311 713035038 2727 False 2527.0 2527 83.521 725 3456 1 chr4A.!!$F1 2731

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
25 26 0.243636 CGCCACCCTTCATTGTTTCC 59.756 55.000 0.00 0.00 0.00 3.13 F
631 660 0.329596 AGTCAGATGGCAACTTCCCC 59.670 55.000 0.00 0.00 41.53 4.81 F
1205 1287 0.332632 CCCATGACAATCAGTGGGGT 59.667 55.000 14.03 0.00 39.46 4.95 F
1207 1289 1.004628 CCATGACAATCAGTGGGGTCA 59.995 52.381 12.57 12.57 43.61 4.02 F
1208 1290 2.362736 CATGACAATCAGTGGGGTCAG 58.637 52.381 14.58 6.66 42.83 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1059 1141 4.231273 AGCCCCTTTTCAGGTAAAAACAT 58.769 39.130 0.0 0.0 38.79 2.71 R
2481 2579 2.093288 TCTTGACTCCTTGCATAGCAGG 60.093 50.000 0.0 0.0 40.61 4.85 R
3059 3161 0.321564 CTCATCCAACGCACCTTCCA 60.322 55.000 0.0 0.0 0.00 3.53 R
3294 3396 2.359531 ACCTTGCTGTATCTCTAGACGC 59.640 50.000 0.0 0.0 0.00 5.19 R
3593 3700 7.498900 ACATAACCAACATCGTATCACATCAAT 59.501 33.333 0.0 0.0 0.00 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
25 26 0.243636 CGCCACCCTTCATTGTTTCC 59.756 55.000 0.00 0.00 0.00 3.13
64 68 3.246226 CAGTCTGCAGTGTAGTTGTTGAC 59.754 47.826 14.67 0.00 0.00 3.18
85 89 1.229428 ATGCTTGTTCGTGGTGACAG 58.771 50.000 0.00 0.00 44.46 3.51
90 94 2.218953 TGTTCGTGGTGACAGACTTC 57.781 50.000 0.00 0.00 44.46 3.01
143 155 6.986231 CCCAAAAAGCTTGTCTTAGATTTGTT 59.014 34.615 0.00 0.00 34.28 2.83
170 182 7.633789 AGATACAGATGTAGTGTCCCAAAAAT 58.366 34.615 0.00 0.00 33.52 1.82
180 192 6.635030 AGTGTCCCAAAAATCTTGTCTTAC 57.365 37.500 0.00 0.00 0.00 2.34
185 197 9.137459 TGTCCCAAAAATCTTGTCTTACATTTA 57.863 29.630 0.00 0.00 0.00 1.40
244 268 7.879070 TGTACGTAGACAAATCTAAGACAAGT 58.121 34.615 0.00 0.00 39.20 3.16
286 314 1.808411 AGATACGGCACCACACAAAG 58.192 50.000 0.00 0.00 0.00 2.77
318 346 7.271511 CCTTCTAGAGTCAGCATTCTTGTTAT 58.728 38.462 0.00 0.00 0.00 1.89
341 369 2.770164 AGGAAATCCTGAAGTGGACG 57.230 50.000 0.00 0.00 46.55 4.79
350 378 0.742505 TGAAGTGGACGTCGTTGACT 59.257 50.000 9.92 5.94 0.00 3.41
365 393 6.455380 CGTCGTTGACTAGGTCTCTTAGTTAG 60.455 46.154 0.00 0.00 33.15 2.34
473 501 7.454260 AGAACATGTCAAATAAGTTCCTTCC 57.546 36.000 0.00 0.00 39.39 3.46
517 545 7.969690 TTCATCTTTGGGGCATTTATTCTTA 57.030 32.000 0.00 0.00 0.00 2.10
570 599 7.467267 GCATGTATGTTCAGTTATTTGGTCGAT 60.467 37.037 0.00 0.00 0.00 3.59
579 608 7.881142 TCAGTTATTTGGTCGATTGTCATTTT 58.119 30.769 0.00 0.00 0.00 1.82
616 645 5.825679 AGTAACACTAAATTTGCCACAGTCA 59.174 36.000 0.00 0.00 0.00 3.41
631 660 0.329596 AGTCAGATGGCAACTTCCCC 59.670 55.000 0.00 0.00 41.53 4.81
661 690 5.070580 AGCTGAGTGGACTAACAGTTTAACT 59.929 40.000 0.00 0.00 33.57 2.24
662 691 6.267014 AGCTGAGTGGACTAACAGTTTAACTA 59.733 38.462 0.00 0.00 33.57 2.24
663 692 6.927381 GCTGAGTGGACTAACAGTTTAACTAA 59.073 38.462 0.00 0.00 33.57 2.24
711 741 7.287466 TGCAGTGGCCATTCTAATAATATTTGT 59.713 33.333 9.72 0.00 40.13 2.83
723 753 6.469782 AATAATATTTGTGAAGGCCACCAG 57.530 37.500 5.01 0.00 45.09 4.00
743 823 5.100259 CCAGCAAAGACATTAGCAATTCTG 58.900 41.667 0.00 0.00 0.00 3.02
811 893 2.356135 GAATCGCCTTGGCAAGTAGAA 58.644 47.619 24.57 8.63 0.00 2.10
812 894 2.029838 ATCGCCTTGGCAAGTAGAAG 57.970 50.000 24.57 10.84 0.00 2.85
877 959 2.105006 ACAAGAGCTACATGGCAGTG 57.895 50.000 0.00 0.00 34.17 3.66
982 1064 1.338136 CGGCTGGTTGGAGGAGGTAT 61.338 60.000 0.00 0.00 0.00 2.73
1059 1141 4.385199 GGTCAGGAACATGATATTGGGTCA 60.385 45.833 0.00 0.00 0.00 4.02
1119 1201 5.240891 TCTCTGCTTTCTATGAACCAGTTG 58.759 41.667 0.00 0.00 0.00 3.16
1200 1282 1.710244 TGGGTTCCCATGACAATCAGT 59.290 47.619 6.46 0.00 0.00 3.41
1201 1283 2.094675 GGGTTCCCATGACAATCAGTG 58.905 52.381 2.59 0.00 0.00 3.66
1202 1284 2.094675 GGTTCCCATGACAATCAGTGG 58.905 52.381 0.00 0.00 0.00 4.00
1203 1285 2.094675 GTTCCCATGACAATCAGTGGG 58.905 52.381 15.02 15.02 41.98 4.61
1204 1286 0.625316 TCCCATGACAATCAGTGGGG 59.375 55.000 18.40 13.16 41.46 4.96
1205 1287 0.332632 CCCATGACAATCAGTGGGGT 59.667 55.000 14.03 0.00 39.46 4.95
1206 1288 1.683011 CCCATGACAATCAGTGGGGTC 60.683 57.143 14.03 0.00 39.46 4.46
1207 1289 1.004628 CCATGACAATCAGTGGGGTCA 59.995 52.381 12.57 12.57 43.61 4.02
1208 1290 2.362736 CATGACAATCAGTGGGGTCAG 58.637 52.381 14.58 6.66 42.83 3.51
1471 1553 2.406559 CCTGGGTCTCCATCTCTCAAT 58.593 52.381 0.00 0.00 43.11 2.57
1783 1868 8.185505 CACTAGAAGCTTTACGAGAAGATAAGT 58.814 37.037 0.00 3.45 0.00 2.24
1967 2061 9.308000 TGTGGAAGAATTAAATAACCAACTGAT 57.692 29.630 0.00 0.00 0.00 2.90
1980 2074 5.301835 ACCAACTGATCTGGGAGATAATG 57.698 43.478 4.49 0.00 34.53 1.90
2439 2537 4.810491 GGTTTACACCAACTTCGAAGTGTA 59.190 41.667 30.33 23.65 43.61 2.90
2481 2579 4.024670 AGTCACCATTCACTCTACTACCC 58.975 47.826 0.00 0.00 0.00 3.69
2563 2661 6.451292 AGAAGATTCCAGATGCTATTGGAT 57.549 37.500 4.81 0.00 42.73 3.41
2568 2666 7.794041 AGATTCCAGATGCTATTGGATATCTC 58.206 38.462 2.05 0.00 42.73 2.75
2926 3028 3.197766 TGTGAAGGGAATCTACTGCGAAT 59.802 43.478 0.00 0.00 0.00 3.34
3059 3161 2.445682 AGATTGAGAGGACGGCTACT 57.554 50.000 0.00 0.00 0.00 2.57
3294 3396 4.326826 TGACAGACCTGCCTAATTTGAAG 58.673 43.478 0.00 0.00 0.00 3.02
3445 3547 1.009389 CACCGGCGACTTCTTGTCTC 61.009 60.000 9.30 0.00 43.25 3.36
3678 3804 3.951680 TGGGTTTCCTCTGTTTCTTCAAC 59.048 43.478 0.00 0.00 35.71 3.18
3789 3915 0.666274 GATCGTGTGCTCGGTTGTCA 60.666 55.000 0.00 0.00 0.00 3.58
3808 3934 1.001048 CAGGTGTGACAATGTTGCCTG 60.001 52.381 3.68 3.68 36.49 4.85
3809 3935 1.032014 GGTGTGACAATGTTGCCTGT 58.968 50.000 0.00 0.00 0.00 4.00
3812 3938 2.098614 TGTGACAATGTTGCCTGTTGT 58.901 42.857 0.00 0.00 38.66 3.32
3814 3940 3.056250 TGTGACAATGTTGCCTGTTGTTT 60.056 39.130 0.00 0.00 36.30 2.83
3820 3946 6.344500 ACAATGTTGCCTGTTGTTTAATTCA 58.656 32.000 0.00 0.00 32.53 2.57
3822 3948 4.942852 TGTTGCCTGTTGTTTAATTCAGG 58.057 39.130 4.60 4.60 46.96 3.86
3875 4002 5.063438 GTGTTTCATATTCAGACTAGCGCAA 59.937 40.000 11.47 0.00 0.00 4.85
3876 4003 5.817296 TGTTTCATATTCAGACTAGCGCAAT 59.183 36.000 11.47 0.43 0.00 3.56
4078 4213 4.693095 TGCTATTCGTGTGTGCTATTTCAA 59.307 37.500 0.00 0.00 0.00 2.69
4087 4222 3.621268 GTGTGCTATTTCAACTGCGGATA 59.379 43.478 0.00 0.00 0.00 2.59
4143 4280 1.226746 CTCGGGTATTCATTTCCGGC 58.773 55.000 0.00 0.00 42.44 6.13
4172 4309 9.651718 GATATGGCTATTGTCTTTACTTTTTCG 57.348 33.333 0.00 0.00 0.00 3.46
4230 4367 5.443283 TCTTATTTTGGATCTCTGCATGCT 58.557 37.500 20.33 0.00 0.00 3.79
4289 4426 8.344831 TGAGCAATAATAATACACTGATGCAAC 58.655 33.333 0.00 0.00 33.89 4.17
4294 4431 3.610040 AATACACTGATGCAACGAGGA 57.390 42.857 0.00 0.00 0.00 3.71
4320 4457 4.803426 GCCGGCTCTCACTCGTGG 62.803 72.222 22.15 0.00 0.00 4.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 1.243902 GAAACAATGAAGGGTGGCGA 58.756 50.000 0.00 0.00 0.00 5.54
6 7 0.243636 GGAAACAATGAAGGGTGGCG 59.756 55.000 0.00 0.00 0.00 5.69
25 26 5.050499 GCAGACTGATTCCAGATATTTGTCG 60.050 44.000 6.65 0.00 43.02 4.35
143 155 7.727578 TTTGGGACACTACATCTGTATCTTA 57.272 36.000 0.00 0.00 39.29 2.10
158 170 6.385649 TGTAAGACAAGATTTTTGGGACAC 57.614 37.500 0.00 0.00 39.29 3.67
159 171 7.595819 AATGTAAGACAAGATTTTTGGGACA 57.404 32.000 0.00 0.00 0.00 4.02
217 229 7.677454 TGTCTTAGATTTGTCTACGTACAGA 57.323 36.000 0.00 0.00 0.00 3.41
218 230 8.021973 ACTTGTCTTAGATTTGTCTACGTACAG 58.978 37.037 0.00 0.00 0.00 2.74
219 231 7.879070 ACTTGTCTTAGATTTGTCTACGTACA 58.121 34.615 0.00 0.00 0.00 2.90
220 232 8.739649 AACTTGTCTTAGATTTGTCTACGTAC 57.260 34.615 0.00 0.00 0.00 3.67
286 314 4.822026 TGCTGACTCTAGAAGGCTAAAAC 58.178 43.478 0.00 0.00 32.31 2.43
318 346 2.978978 TCCACTTCAGGATTTCCTCACA 59.021 45.455 0.00 0.00 46.65 3.58
341 369 5.625921 AACTAAGAGACCTAGTCAACGAC 57.374 43.478 0.00 0.00 34.60 4.34
365 393 7.329588 AGGAAACGTCAACATATAATTTCCC 57.670 36.000 8.79 0.00 42.97 3.97
473 501 5.757886 TGAAAATTTGAGGCAAGTAAGACG 58.242 37.500 0.00 0.00 0.00 4.18
517 545 4.315803 CCGTAAAGTGACATCTCAGGTTT 58.684 43.478 0.00 0.00 0.00 3.27
593 622 6.017440 TCTGACTGTGGCAAATTTAGTGTTAC 60.017 38.462 0.00 0.00 0.00 2.50
711 741 0.823356 GTCTTTGCTGGTGGCCTTCA 60.823 55.000 3.32 0.75 40.92 3.02
723 753 6.187125 TCTCAGAATTGCTAATGTCTTTGC 57.813 37.500 0.00 0.00 34.27 3.68
743 823 9.890352 GAATTACAATCTCTGCCATTATTTCTC 57.110 33.333 0.00 0.00 0.00 2.87
828 910 5.417580 TGCTTTGTACTTTCCAAACTGAACT 59.582 36.000 0.00 0.00 0.00 3.01
831 913 4.702612 TGTGCTTTGTACTTTCCAAACTGA 59.297 37.500 0.00 0.00 0.00 3.41
982 1064 5.395657 CCTCCATCACATGTGCTACTTTCTA 60.396 44.000 21.38 0.43 0.00 2.10
1059 1141 4.231273 AGCCCCTTTTCAGGTAAAAACAT 58.769 39.130 0.00 0.00 38.79 2.71
1119 1201 5.010282 TCTATTTCCTTCACCTTGAAAGCC 58.990 41.667 0.00 0.00 35.73 4.35
1471 1553 9.130661 CCTCAAGACATCTTCTCTAGAATAAGA 57.869 37.037 15.84 15.84 36.22 2.10
1783 1868 5.804944 TTTTTGCAAAAGAGATCCCATGA 57.195 34.783 22.78 2.82 0.00 3.07
1813 1898 7.853524 TGACAATCATGATTTGTTTCTTTTGC 58.146 30.769 18.41 6.65 0.00 3.68
1967 2061 7.615403 CCTCGAATTATTCATTATCTCCCAGA 58.385 38.462 5.76 0.00 0.00 3.86
2439 2537 6.924060 GTGACTTACTATCGCCTGATGTAATT 59.076 38.462 0.00 0.00 35.99 1.40
2481 2579 2.093288 TCTTGACTCCTTGCATAGCAGG 60.093 50.000 0.00 0.00 40.61 4.85
2563 2661 5.997746 CCAAATGGCGGAGATTAAAGAGATA 59.002 40.000 0.00 0.00 0.00 1.98
2568 2666 3.023832 ACCCAAATGGCGGAGATTAAAG 58.976 45.455 0.00 0.00 37.83 1.85
2800 2902 5.519722 CGTTTGCAGGTTTGTTAGATTTCT 58.480 37.500 0.00 0.00 0.00 2.52
2926 3028 5.665916 TGAACTAGAGATTCACTGATGCA 57.334 39.130 0.00 0.00 31.11 3.96
3059 3161 0.321564 CTCATCCAACGCACCTTCCA 60.322 55.000 0.00 0.00 0.00 3.53
3294 3396 2.359531 ACCTTGCTGTATCTCTAGACGC 59.640 50.000 0.00 0.00 0.00 5.19
3593 3700 7.498900 ACATAACCAACATCGTATCACATCAAT 59.501 33.333 0.00 0.00 0.00 2.57
3789 3915 1.321474 CAGGCAACATTGTCACACCT 58.679 50.000 0.00 0.00 34.61 4.00
3808 3934 6.215845 ACAATCACAGCCTGAATTAAACAAC 58.784 36.000 0.00 0.00 30.60 3.32
3809 3935 6.403866 ACAATCACAGCCTGAATTAAACAA 57.596 33.333 0.00 0.00 30.60 2.83
3812 3938 8.296713 GTCTTAACAATCACAGCCTGAATTAAA 58.703 33.333 0.00 0.00 30.60 1.52
3814 3940 7.119699 CAGTCTTAACAATCACAGCCTGAATTA 59.880 37.037 0.00 0.00 30.60 1.40
3820 3946 3.077359 GCAGTCTTAACAATCACAGCCT 58.923 45.455 0.00 0.00 0.00 4.58
3822 3948 2.736721 TCGCAGTCTTAACAATCACAGC 59.263 45.455 0.00 0.00 0.00 4.40
3939 4066 6.584185 TTGGAAGGGAAAATAACTTACAGC 57.416 37.500 0.00 0.00 36.50 4.40
3944 4072 7.578763 CGCCTTATTTGGAAGGGAAAATAACTT 60.579 37.037 4.45 0.00 45.40 2.66
3959 4087 4.000988 ACAGTAAGTGTCGCCTTATTTGG 58.999 43.478 0.00 0.00 31.90 3.28
4005 4140 9.241317 GTGAAAATGCAATTAGTCTGAATATGG 57.759 33.333 0.00 0.00 33.67 2.74
4099 4234 9.632807 AGCATTATTAAACGCAAATCAAAAGTA 57.367 25.926 4.58 0.00 0.00 2.24
4156 4293 8.505625 AGTTACAACACGAAAAAGTAAAGACAA 58.494 29.630 0.00 0.00 0.00 3.18
4165 4302 5.679792 GGTAGCAAGTTACAACACGAAAAAG 59.320 40.000 0.00 0.00 0.00 2.27
4172 4309 3.881089 ACCAAGGTAGCAAGTTACAACAC 59.119 43.478 0.00 0.00 0.00 3.32
4252 4389 9.547753 GTATTATTATTGCTCAAGAAGACAGGA 57.452 33.333 0.00 0.00 0.00 3.86
4289 4426 2.126307 CGGCAGTGTGTCTCCTCG 60.126 66.667 0.00 0.00 0.00 4.63
4294 4431 2.919856 AGAGCCGGCAGTGTGTCT 60.920 61.111 31.54 18.81 0.00 3.41
4320 4457 1.066573 ACAGACATCACTAGTGGCAGC 60.067 52.381 22.48 10.22 0.00 5.25
4328 4465 2.100197 CTCCCGGAACAGACATCACTA 58.900 52.381 0.73 0.00 0.00 2.74
4330 4467 0.108138 CCTCCCGGAACAGACATCAC 60.108 60.000 0.73 0.00 0.00 3.06
4449 4591 3.876320 GCTCCTATCTCAAGAAAAGGCAG 59.124 47.826 6.83 6.78 33.62 4.85


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

AutoCloner maintained by Alex Coulton.