Multiple sequence alignment - TraesCS4D01G213500

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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 TraesCS4D01G213500 chr4D 100.000 6434 0 0 1 6434 366316487 366322920 0.000000e+00 11882
1 TraesCS4D01G213500 chr4D 96.163 834 30 2 1 833 506031742 506030910 0.000000e+00 1362
2 TraesCS4D01G213500 chr4D 93.333 75 5 0 4287 4361 509048867 509048941 1.900000e-20 111
3 TraesCS4D01G213500 chr4B 95.914 4968 121 30 832 5742 450908937 450913879 0.000000e+00 7974
4 TraesCS4D01G213500 chr4B 96.983 663 18 2 5773 6434 450914005 450914666 0.000000e+00 1112
5 TraesCS4D01G213500 chr4B 89.822 393 31 8 4363 4747 623988817 623989208 4.480000e-136 496
6 TraesCS4D01G213500 chr4B 88.172 93 8 2 3577 3666 42727212 42727304 2.450000e-19 108
7 TraesCS4D01G213500 chr4A 95.426 1924 56 19 1704 3616 98604654 98602752 0.000000e+00 3037
8 TraesCS4D01G213500 chr4A 95.711 1702 53 8 4747 6434 98601990 98600295 0.000000e+00 2721
9 TraesCS4D01G213500 chr4A 95.838 889 27 3 838 1717 98605558 98604671 0.000000e+00 1428
10 TraesCS4D01G213500 chr4A 95.541 785 29 4 3577 4361 98602758 98601980 0.000000e+00 1251
11 TraesCS4D01G213500 chr4A 92.428 766 56 1 4747 5510 56482882 56482117 0.000000e+00 1092
12 TraesCS4D01G213500 chr4A 87.153 288 27 3 4075 4361 56483150 56482872 1.040000e-82 318
13 TraesCS4D01G213500 chrUn 96.043 834 31 2 1 833 46247441 46246609 0.000000e+00 1356
14 TraesCS4D01G213500 chr1D 95.923 834 31 3 4 836 464851065 464850234 0.000000e+00 1349
15 TraesCS4D01G213500 chr1D 94.856 836 40 3 1 835 9311006 9311839 0.000000e+00 1303
16 TraesCS4D01G213500 chr5D 95.574 836 35 2 1 835 13915724 13916558 0.000000e+00 1338
17 TraesCS4D01G213500 chr5D 93.130 393 20 4 4358 4745 489685463 489685073 2.600000e-158 569
18 TraesCS4D01G213500 chr3D 95.329 835 35 4 1 834 436041048 436040217 0.000000e+00 1323
19 TraesCS4D01G213500 chr3D 95.090 835 34 6 1 835 594499813 594500640 0.000000e+00 1308
20 TraesCS4D01G213500 chr3D 93.995 766 44 1 4747 5510 443673800 443673035 0.000000e+00 1158
21 TraesCS4D01G213500 chr3D 88.194 288 26 3 4075 4361 443674070 443673790 2.870000e-88 337
22 TraesCS4D01G213500 chr3D 95.946 74 3 0 3577 3650 127342792 127342719 3.150000e-23 121
23 TraesCS4D01G213500 chr2D 94.970 835 39 3 2 836 234762105 234761274 0.000000e+00 1306
24 TraesCS4D01G213500 chr7D 94.964 834 39 3 1 833 628444038 628443207 0.000000e+00 1304
25 TraesCS4D01G213500 chr7D 91.237 388 28 3 4364 4746 483872570 483872956 2.060000e-144 523
26 TraesCS4D01G213500 chr2A 90.348 632 59 1 4901 5530 578017975 578017344 0.000000e+00 828
27 TraesCS4D01G213500 chr2A 86.392 316 32 9 4047 4361 578033424 578033119 1.030000e-87 335
28 TraesCS4D01G213500 chr2A 96.471 170 6 0 4747 4916 578033129 578032960 1.370000e-71 281
29 TraesCS4D01G213500 chr2A 93.443 122 7 1 3933 4054 578038893 578038773 5.130000e-41 180
30 TraesCS4D01G213500 chr3A 91.603 393 26 6 4360 4746 641628132 641628523 2.640000e-148 536
31 TraesCS4D01G213500 chr3A 94.872 78 4 0 3577 3654 621323812 621323735 8.760000e-24 122
32 TraesCS4D01G213500 chr3A 93.590 78 5 0 3577 3654 686191287 686191210 4.080000e-22 117
33 TraesCS4D01G213500 chr5B 90.331 393 33 4 4358 4745 603690832 603690440 1.600000e-140 510
34 TraesCS4D01G213500 chr6A 89.974 389 31 6 4364 4747 565568393 565568008 4.480000e-136 496
35 TraesCS4D01G213500 chr3B 90.026 391 24 8 4360 4745 663414270 663414650 5.800000e-135 492
36 TraesCS4D01G213500 chr3B 96.154 78 3 0 3577 3654 637088566 637088489 1.880000e-25 128
37 TraesCS4D01G213500 chr7A 90.836 371 27 3 4382 4746 674407045 674406676 2.080000e-134 490
38 TraesCS4D01G213500 chr6B 87.847 288 27 3 4075 4361 101435028 101435308 1.340000e-86 331
39 TraesCS4D01G213500 chr6B 92.683 205 14 1 5307 5510 101435318 101435522 1.750000e-75 294
40 TraesCS4D01G213500 chr1B 97.260 73 2 0 3578 3650 40610072 40610144 2.440000e-24 124
41 TraesCS4D01G213500 chr7B 92.683 82 5 1 3577 3657 740050365 740050284 4.080000e-22 117


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 TraesCS4D01G213500 chr4D 366316487 366322920 6433 False 11882.00 11882 100.0000 1 6434 1 chr4D.!!$F1 6433
1 TraesCS4D01G213500 chr4D 506030910 506031742 832 True 1362.00 1362 96.1630 1 833 1 chr4D.!!$R1 832
2 TraesCS4D01G213500 chr4B 450908937 450914666 5729 False 4543.00 7974 96.4485 832 6434 2 chr4B.!!$F3 5602
3 TraesCS4D01G213500 chr4A 98600295 98605558 5263 True 2109.25 3037 95.6290 838 6434 4 chr4A.!!$R2 5596
4 TraesCS4D01G213500 chr4A 56482117 56483150 1033 True 705.00 1092 89.7905 4075 5510 2 chr4A.!!$R1 1435
5 TraesCS4D01G213500 chrUn 46246609 46247441 832 True 1356.00 1356 96.0430 1 833 1 chrUn.!!$R1 832
6 TraesCS4D01G213500 chr1D 464850234 464851065 831 True 1349.00 1349 95.9230 4 836 1 chr1D.!!$R1 832
7 TraesCS4D01G213500 chr1D 9311006 9311839 833 False 1303.00 1303 94.8560 1 835 1 chr1D.!!$F1 834
8 TraesCS4D01G213500 chr5D 13915724 13916558 834 False 1338.00 1338 95.5740 1 835 1 chr5D.!!$F1 834
9 TraesCS4D01G213500 chr3D 436040217 436041048 831 True 1323.00 1323 95.3290 1 834 1 chr3D.!!$R2 833
10 TraesCS4D01G213500 chr3D 594499813 594500640 827 False 1308.00 1308 95.0900 1 835 1 chr3D.!!$F1 834
11 TraesCS4D01G213500 chr3D 443673035 443674070 1035 True 747.50 1158 91.0945 4075 5510 2 chr3D.!!$R3 1435
12 TraesCS4D01G213500 chr2D 234761274 234762105 831 True 1306.00 1306 94.9700 2 836 1 chr2D.!!$R1 834
13 TraesCS4D01G213500 chr7D 628443207 628444038 831 True 1304.00 1304 94.9640 1 833 1 chr7D.!!$R1 832
14 TraesCS4D01G213500 chr2A 578017344 578017975 631 True 828.00 828 90.3480 4901 5530 1 chr2A.!!$R1 629

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
287 288 0.846427 ATGGAGTGGCTGGGGAGAAA 60.846 55.000 0.00 0.0 0.00 2.52 F
799 802 1.017177 CGGCCGAAAAATCGTCTGGA 61.017 55.000 24.07 0.0 0.00 3.86 F
848 851 1.941325 CTCTTAGCCTTACGCCCTTG 58.059 55.000 0.00 0.0 38.78 3.61 F
1869 1913 1.439353 CGAATGCTATGCTGGCCGTT 61.439 55.000 0.00 0.0 0.00 4.44 F
2576 2628 1.821216 ATTTGGACCAACCTGCTACG 58.179 50.000 6.36 0.0 39.86 3.51 F
3316 3369 3.072476 AGCCTACTGTGTTTTCCAGCTTA 59.928 43.478 0.00 0.0 33.09 3.09 F
4078 4170 1.617357 AGGTTGTGGGAGACGACTTAC 59.383 52.381 0.00 0.0 40.14 2.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1483 1490 0.033781 GCTTGGCAATGCAGGAACAA 59.966 50.000 7.79 0.39 0.00 2.83 R
1611 1625 2.354003 GCAAGCCAGTGCCAAATATTGT 60.354 45.455 0.00 0.00 38.66 2.71 R
2154 2200 3.487207 GCAGTCTGCAAAGCAAAGTTTAC 59.513 43.478 20.16 0.00 44.26 2.01 R
3423 3476 1.205417 GGTCAAATGGTGCCTGATTGG 59.795 52.381 0.00 0.00 39.35 3.16 R
3684 3775 1.359459 GCAGGGAAGTTAACTCGCGG 61.359 60.000 8.95 11.88 0.00 6.46 R
4724 4823 0.248458 GAGTGGTGTTTTGGCACACG 60.248 55.000 0.00 0.00 46.98 4.49 R
5906 6115 0.951040 GGAGTTCCTTGTGTGCCTCG 60.951 60.000 0.00 0.00 0.00 4.63 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
287 288 0.846427 ATGGAGTGGCTGGGGAGAAA 60.846 55.000 0.00 0.00 0.00 2.52
337 338 1.414866 GGCTGGGGGAGAAGAGATCC 61.415 65.000 0.00 0.00 35.99 3.36
656 657 1.439693 CGCGCCAAAAACGATTCGT 60.440 52.632 5.75 5.75 43.97 3.85
668 669 4.708386 ATTCGTCCGGCGCCCAAA 62.708 61.111 23.46 8.48 41.07 3.28
670 671 4.931633 TCGTCCGGCGCCCAAAAA 62.932 61.111 23.46 0.19 41.07 1.94
671 672 4.398598 CGTCCGGCGCCCAAAAAG 62.399 66.667 23.46 5.12 0.00 2.27
672 673 4.717629 GTCCGGCGCCCAAAAAGC 62.718 66.667 23.46 0.05 0.00 3.51
799 802 1.017177 CGGCCGAAAAATCGTCTGGA 61.017 55.000 24.07 0.00 0.00 3.86
848 851 1.941325 CTCTTAGCCTTACGCCCTTG 58.059 55.000 0.00 0.00 38.78 3.61
856 859 2.270874 CTTACGCCCTTGCCCCTCAT 62.271 60.000 0.00 0.00 0.00 2.90
866 869 4.344104 CCTTGCCCCTCATAAGAAAAAGA 58.656 43.478 0.00 0.00 0.00 2.52
1459 1466 3.197116 ACAGTCGAAACCCCGATTATTCT 59.803 43.478 0.00 0.00 40.91 2.40
1460 1467 3.555956 CAGTCGAAACCCCGATTATTCTG 59.444 47.826 0.00 0.00 40.91 3.02
1483 1490 8.756927 TCTGTCTCTCATTCTCTATTGTTGATT 58.243 33.333 0.00 0.00 0.00 2.57
1522 1529 7.095439 GCCAAGCTCTATTTGTGTAGATATGAC 60.095 40.741 0.00 0.00 30.75 3.06
1557 1571 2.635714 TGAGGATGCTGTTATGCTGTG 58.364 47.619 0.00 0.00 0.00 3.66
1572 1586 2.438021 TGCTGTGTCTAGGTGTTTTCCT 59.562 45.455 0.00 0.00 41.20 3.36
1611 1625 1.538512 GTGTACTCTGCTACACGGTGA 59.461 52.381 16.29 0.00 37.76 4.02
1869 1913 1.439353 CGAATGCTATGCTGGCCGTT 61.439 55.000 0.00 0.00 0.00 4.44
1954 1998 5.073144 TGGGTCTTAGGTGAAAATTGAGTCT 59.927 40.000 0.00 0.00 0.00 3.24
1955 1999 5.412904 GGGTCTTAGGTGAAAATTGAGTCTG 59.587 44.000 0.00 0.00 0.00 3.51
2049 2095 2.423892 TCTTGTTGGTAAAAGCGCAACA 59.576 40.909 11.47 6.65 34.47 3.33
2258 2308 6.780522 TCTTCTATAAACCCCAAAACTTTGCT 59.219 34.615 0.00 0.00 36.86 3.91
2493 2545 5.277825 TCCATTTTAACAAACTGCTTCACG 58.722 37.500 0.00 0.00 0.00 4.35
2576 2628 1.821216 ATTTGGACCAACCTGCTACG 58.179 50.000 6.36 0.00 39.86 3.51
3218 3270 7.016914 TCTTGGGCATCTACATAACTATACCT 58.983 38.462 0.00 0.00 0.00 3.08
3316 3369 3.072476 AGCCTACTGTGTTTTCCAGCTTA 59.928 43.478 0.00 0.00 33.09 3.09
3328 3381 6.978080 TGTTTTCCAGCTTATTCTTTGTGTTC 59.022 34.615 0.00 0.00 0.00 3.18
3423 3476 9.956720 AAAGCATACTATTGTAATCAGCATTTC 57.043 29.630 0.00 0.00 31.80 2.17
3466 3522 7.820648 ACCAATCTCTTGCTATTTTACTGTTG 58.179 34.615 0.00 0.00 0.00 3.33
3469 3525 9.334693 CAATCTCTTGCTATTTTACTGTTGTTC 57.665 33.333 0.00 0.00 0.00 3.18
3860 3951 5.940617 TGTGGATTTACATATTCTGGGAGG 58.059 41.667 0.00 0.00 0.00 4.30
4014 4105 5.381757 TGTCAGGTACCTATTGTGCTTTTT 58.618 37.500 15.80 0.00 0.00 1.94
4078 4170 1.617357 AGGTTGTGGGAGACGACTTAC 59.383 52.381 0.00 0.00 40.14 2.34
4201 4293 9.270640 TGATGTTTATAAATTTGCTGCTTTGTT 57.729 25.926 0.00 0.00 0.00 2.83
4221 4313 2.951101 AAGTTACTGGGACCGCCGG 61.951 63.158 0.00 0.00 33.83 6.13
4255 4348 2.237143 CCACAGACTCTGGAATTAGGCA 59.763 50.000 10.86 0.00 35.51 4.75
4256 4349 3.118112 CCACAGACTCTGGAATTAGGCAT 60.118 47.826 10.86 0.00 35.51 4.40
4492 4591 3.604392 CACGTCAAGTTTCGGAGAAAAC 58.396 45.455 0.00 0.00 45.90 2.43
4558 4657 6.588373 TCTTGTGAAAAGCACTTTTTAACACC 59.412 34.615 17.74 4.73 45.58 4.16
4580 4679 3.179599 CGGATTTTGTCTTTTTCACACGC 59.820 43.478 0.00 0.00 0.00 5.34
4604 4703 5.812652 GACACATAACTTGTCGGTTTTTCA 58.187 37.500 0.00 0.00 36.00 2.69
4626 4725 2.032894 CGAAACGACTTTGTGAGCATGT 60.033 45.455 0.00 0.00 0.00 3.21
4628 4727 4.455124 GAAACGACTTTGTGAGCATGTAC 58.545 43.478 0.00 0.00 0.00 2.90
4716 4815 3.428534 CACATTTTAAAAACCAGGAGCGC 59.571 43.478 4.44 0.00 0.00 5.92
4856 4959 9.935682 GAATTCACGAAGATGAGCAATTAATAA 57.064 29.630 0.00 0.00 0.00 1.40
5250 5353 2.237643 TGCTTGCTGCCTTTTATGTGA 58.762 42.857 0.00 0.00 42.00 3.58
5380 5485 7.147585 TGCAGCTTCTAAGAATAGAGGAAGAAT 60.148 37.037 0.00 0.00 39.29 2.40
5462 5567 1.003003 TCACTGGATTCCGTTGATGCA 59.997 47.619 0.00 0.00 0.00 3.96
5585 5696 1.488812 AGGTGTAGTGGTTGAACTGCA 59.511 47.619 0.00 0.00 39.99 4.41
5610 5722 5.412904 GGGACTTTACTTTGAGAGATGTTGG 59.587 44.000 0.00 0.00 0.00 3.77
5748 5861 6.485313 CACAGTTCCAATGTACTCCAGTTTTA 59.515 38.462 0.00 0.00 0.00 1.52
5754 5867 7.936584 TCCAATGTACTCCAGTTTTACTTTTG 58.063 34.615 0.00 0.00 0.00 2.44
5759 5872 8.570068 TGTACTCCAGTTTTACTTTTGAAGTT 57.430 30.769 0.00 0.00 42.81 2.66
5792 5999 9.933723 ATATACGTAGTTAGTCCAAAGTGTTTT 57.066 29.630 0.08 0.00 37.78 2.43
5906 6115 1.661112 GTGCTGAAGTATCGAAGCACC 59.339 52.381 21.54 8.29 44.53 5.01
5918 6127 1.845809 GAAGCACCGAGGCACACAAG 61.846 60.000 1.23 0.00 35.83 3.16
6207 6417 4.347453 GTTTGTGCTGCCGCCTGG 62.347 66.667 0.00 0.00 38.77 4.45
6408 6618 4.654262 TGGTAGGACTTCTCTTCAACTGTT 59.346 41.667 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
508 509 2.123248 TTGATTCCTCACAGGCGGCA 62.123 55.000 13.08 0.00 34.61 5.69
515 516 2.231964 GCTTTGCCATTGATTCCTCACA 59.768 45.455 0.00 0.00 0.00 3.58
550 551 1.037030 GCGGGGAATCAATGGCAAGA 61.037 55.000 0.00 0.00 0.00 3.02
812 815 3.499737 GCATCTCCAACCGCACCG 61.500 66.667 0.00 0.00 0.00 4.94
873 876 2.033141 CAGACCAGCACCCTGTGG 59.967 66.667 0.00 0.00 37.38 4.17
874 877 2.033141 CCAGACCAGCACCCTGTG 59.967 66.667 0.00 0.00 37.38 3.66
878 881 1.003233 GAAGACCAGACCAGCACCC 60.003 63.158 0.00 0.00 0.00 4.61
879 882 0.398318 AAGAAGACCAGACCAGCACC 59.602 55.000 0.00 0.00 0.00 5.01
1440 1445 3.528532 ACAGAATAATCGGGGTTTCGAC 58.471 45.455 0.00 0.00 42.21 4.20
1441 1446 3.449737 AGACAGAATAATCGGGGTTTCGA 59.550 43.478 0.00 0.00 43.61 3.71
1459 1466 9.159364 CAAATCAACAATAGAGAATGAGAGACA 57.841 33.333 0.00 0.00 0.00 3.41
1460 1467 9.160496 ACAAATCAACAATAGAGAATGAGAGAC 57.840 33.333 0.00 0.00 0.00 3.36
1483 1490 0.033781 GCTTGGCAATGCAGGAACAA 59.966 50.000 7.79 0.39 0.00 2.83
1572 1586 7.455058 AGTACACAATTGGAGTATGTGGTTAA 58.545 34.615 10.83 0.00 46.67 2.01
1611 1625 2.354003 GCAAGCCAGTGCCAAATATTGT 60.354 45.455 0.00 0.00 38.66 2.71
1664 1678 4.270245 ACAACCATCGAAAATGGCAAAT 57.730 36.364 3.39 0.00 42.82 2.32
1666 1680 4.855715 TTACAACCATCGAAAATGGCAA 57.144 36.364 3.39 0.00 42.82 4.52
1954 1998 9.647797 ACTATAAGAATTTGTGTTATCGTCACA 57.352 29.630 0.00 0.00 42.84 3.58
2049 2095 4.699522 GCTGGGACGGGAAGCGTT 62.700 66.667 0.00 0.00 33.56 4.84
2154 2200 3.487207 GCAGTCTGCAAAGCAAAGTTTAC 59.513 43.478 20.16 0.00 44.26 2.01
2258 2308 7.051623 ACAAGGTAGTAACAATCTCAAACACA 58.948 34.615 0.00 0.00 0.00 3.72
2493 2545 7.008992 GCACGGTGTTATTATCGAAGTATATCC 59.991 40.741 10.24 0.00 0.00 2.59
2576 2628 3.620488 TCCTAGAATGTTTGATGGGCAC 58.380 45.455 0.00 0.00 0.00 5.01
3218 3270 6.724263 CACGCCATTACTTGCATTTCTATTA 58.276 36.000 0.00 0.00 0.00 0.98
3328 3381 4.440758 CAGCTGTAAAAACAACAACGATGG 59.559 41.667 5.25 0.00 0.00 3.51
3423 3476 1.205417 GGTCAAATGGTGCCTGATTGG 59.795 52.381 0.00 0.00 39.35 3.16
3466 3522 6.292542 GGTCGTACACTTCCAAAAAGTAGAAC 60.293 42.308 0.00 0.00 0.00 3.01
3469 3525 5.295152 AGGTCGTACACTTCCAAAAAGTAG 58.705 41.667 0.00 0.00 0.00 2.57
3556 3612 1.453762 GGGACGGAGGGAGTACATCG 61.454 65.000 0.00 0.00 0.00 3.84
3684 3775 1.359459 GCAGGGAAGTTAACTCGCGG 61.359 60.000 8.95 11.88 0.00 6.46
3860 3951 6.218746 AGGTTCATGAAGTCAAAAGATTTGC 58.781 36.000 8.80 0.00 0.00 3.68
4014 4105 8.758829 TGAGCTCCTGACAGTAAATAGAAAATA 58.241 33.333 12.15 0.00 0.00 1.40
4065 4157 2.753452 TGACATCAGTAAGTCGTCTCCC 59.247 50.000 0.00 0.00 37.58 4.30
4078 4170 2.200067 GCGTTCAGGATCTGACATCAG 58.800 52.381 2.24 2.24 40.46 2.90
4188 4280 5.101628 CAGTAACTTGAACAAAGCAGCAAA 58.898 37.500 0.00 0.00 39.76 3.68
4201 4293 1.675219 GGCGGTCCCAGTAACTTGA 59.325 57.895 0.00 0.00 0.00 3.02
4221 4313 4.160626 AGAGTCTGTGGTATTGTTAGCCTC 59.839 45.833 0.00 0.00 0.00 4.70
4277 4371 5.219633 GTGGTTAGTCAAAATGAATTGCGT 58.780 37.500 0.00 0.00 0.00 5.24
4279 4373 5.119125 GCTGTGGTTAGTCAAAATGAATTGC 59.881 40.000 0.00 0.00 0.00 3.56
4361 4455 1.994779 CATGTGCCAAAGCGAATTTCC 59.005 47.619 0.00 0.00 44.31 3.13
4433 4527 6.143919 GTCGAGATCACCAAATTTTTGTTTCC 59.856 38.462 0.00 0.00 36.45 3.13
4558 4657 3.179599 GCGTGTGAAAAAGACAAAATCCG 59.820 43.478 0.00 0.00 0.00 4.18
4604 4703 1.647346 TGCTCACAAAGTCGTTTCGT 58.353 45.000 0.00 0.00 0.00 3.85
4626 4725 3.485633 GCGCGTACATCTCGATATTGTA 58.514 45.455 8.43 0.00 0.00 2.41
4628 4727 1.649171 GGCGCGTACATCTCGATATTG 59.351 52.381 8.43 0.00 0.00 1.90
4693 4792 4.616953 CGCTCCTGGTTTTTAAAATGTGT 58.383 39.130 0.55 0.00 0.00 3.72
4724 4823 0.248458 GAGTGGTGTTTTGGCACACG 60.248 55.000 0.00 0.00 46.98 4.49
4856 4959 6.319658 CCTTATGTGCCTACAATCAGTTCAAT 59.680 38.462 0.00 0.00 40.84 2.57
5250 5353 4.523083 ACCAATACTTCGGTGCATGTATT 58.477 39.130 0.00 0.00 36.43 1.89
5305 5410 7.509546 AGACCACTCAAGACAAATTAAGAAGA 58.490 34.615 0.00 0.00 0.00 2.87
5324 5429 2.031682 GCACACAGTCATCAAAGACCAC 60.032 50.000 0.00 0.00 39.34 4.16
5380 5485 2.232399 GTAAACCCCTTCGCTTCCAAA 58.768 47.619 0.00 0.00 0.00 3.28
5585 5696 6.234177 CAACATCTCTCAAAGTAAAGTCCCT 58.766 40.000 0.00 0.00 0.00 4.20
5718 5830 6.636705 TGGAGTACATTGGAACTGTGTATAC 58.363 40.000 0.00 0.00 33.29 1.47
5759 5872 8.969260 TTGGACTAACTACGTATATCTGAAGA 57.031 34.615 0.00 0.00 0.00 2.87
5770 5883 6.990341 AAAAACACTTTGGACTAACTACGT 57.010 33.333 0.00 0.00 0.00 3.57
5906 6115 0.951040 GGAGTTCCTTGTGTGCCTCG 60.951 60.000 0.00 0.00 0.00 4.63
5918 6127 6.570692 TCTGTTCGTTGATATAAGGAGTTCC 58.429 40.000 0.00 0.00 0.00 3.62
5954 6164 5.772521 AGAAATTGTTGTGCATCAAGTACC 58.227 37.500 0.00 0.00 36.66 3.34
6408 6618 6.322712 AGTTGTTAAACCAAATCTTGCAGGTA 59.677 34.615 0.00 0.00 36.94 3.08


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

AutoCloner maintained by Alex Coulton.