Multiple sequence alignment - TraesCS7A01G121900

Loading Multiple Alignment...

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 TraesCS7A01G121900 chr7A 100.000 4304 0 0 1 4304 78508273 78512576 0.000000e+00 7949
1 TraesCS7A01G121900 chr7A 80.547 622 66 27 3077 3658 78564791 78565397 1.110000e-115 427
2 TraesCS7A01G121900 chr7D 92.186 4377 223 57 1 4304 74597036 74601366 0.000000e+00 6078
3 TraesCS7A01G121900 chr7D 85.714 231 19 5 3071 3301 74867040 74867256 9.310000e-57 231
4 TraesCS7A01G121900 chr7B 94.370 2025 81 17 2295 4304 18207430 18209436 0.000000e+00 3077
5 TraesCS7A01G121900 chr7B 91.790 1754 96 25 451 2180 18205589 18207318 0.000000e+00 2398
6 TraesCS7A01G121900 chr7B 89.286 336 35 1 2866 3201 18449161 18449495 1.850000e-113 420
7 TraesCS7A01G121900 chr1D 84.424 963 121 21 2353 3303 455114995 455115940 0.000000e+00 920
8 TraesCS7A01G121900 chr1D 77.564 936 160 26 750 1658 455113487 455114399 1.770000e-143 520
9 TraesCS7A01G121900 chr1B 83.825 915 110 22 2510 3399 625809566 625810467 0.000000e+00 835
10 TraesCS7A01G121900 chr1B 77.395 929 167 28 750 1667 625808671 625809567 2.970000e-141 512
11 TraesCS7A01G121900 chr1B 83.744 203 29 2 1461 1659 625777304 625777506 5.680000e-44 189
12 TraesCS7A01G121900 chr1A 79.724 725 113 17 983 1679 549047589 549048307 1.080000e-135 494
13 TraesCS7A01G121900 chr1A 84.941 425 48 10 2355 2770 549048853 549049270 2.390000e-112 416
14 TraesCS7A01G121900 chr1A 79.720 572 77 19 2765 3303 549054072 549054637 1.130000e-100 377


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 TraesCS7A01G121900 chr7A 78508273 78512576 4303 False 7949.0 7949 100.0000 1 4304 1 chr7A.!!$F1 4303
1 TraesCS7A01G121900 chr7A 78564791 78565397 606 False 427.0 427 80.5470 3077 3658 1 chr7A.!!$F2 581
2 TraesCS7A01G121900 chr7D 74597036 74601366 4330 False 6078.0 6078 92.1860 1 4304 1 chr7D.!!$F1 4303
3 TraesCS7A01G121900 chr7B 18205589 18209436 3847 False 2737.5 3077 93.0800 451 4304 2 chr7B.!!$F2 3853
4 TraesCS7A01G121900 chr1D 455113487 455115940 2453 False 720.0 920 80.9940 750 3303 2 chr1D.!!$F1 2553
5 TraesCS7A01G121900 chr1B 625808671 625810467 1796 False 673.5 835 80.6100 750 3399 2 chr1B.!!$F2 2649
6 TraesCS7A01G121900 chr1A 549047589 549049270 1681 False 455.0 494 82.3325 983 2770 2 chr1A.!!$F2 1787
7 TraesCS7A01G121900 chr1A 549054072 549054637 565 False 377.0 377 79.7200 2765 3303 1 chr1A.!!$F1 538

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
804 835 0.315568 TGCCCCATTAACAACGCAAC 59.684 50.000 0.0 0.0 0.0 4.17 F
1318 1387 0.037790 GACCTATGAGATGAGCCGCC 60.038 60.000 0.0 0.0 0.0 6.13 F
1686 1785 0.865769 CGTTTGAACTGAACCGAGGG 59.134 55.000 0.0 0.0 0.0 4.30 F
2826 3312 1.071987 CAAGGTCACTGCTGCTCCA 59.928 57.895 0.0 0.0 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2166 2608 2.045561 TTTTGAGTGCCGGTTTGAGA 57.954 45.000 1.90 0.0 0.00 3.27 R
2994 3480 0.753262 AGTCATCGCATGTAGGGACC 59.247 55.000 0.00 0.0 42.47 4.46 R
3059 3545 1.003812 TGCTGTAAACCGGGTATTGCT 59.996 47.619 6.32 0.0 0.00 3.91 R
3906 4502 0.249238 CCTGAGCGCAGATGTCCTAC 60.249 60.000 19.95 0.0 45.17 3.18 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
155 156 4.894203 GTACGTACCGCCCGCTCG 62.894 72.222 15.00 0.00 0.00 5.03
173 174 2.683933 TCCTCCGCCCCAGTTCTC 60.684 66.667 0.00 0.00 0.00 2.87
179 180 4.035102 GCCCCAGTTCTCCGGCTT 62.035 66.667 0.00 0.00 38.41 4.35
237 241 8.614469 CTAAATAAGCTAGATTTCTTCCCCTG 57.386 38.462 0.00 0.00 0.00 4.45
265 270 1.001974 GGGGTTCCATTTTGTTCCAGC 59.998 52.381 0.00 0.00 0.00 4.85
270 275 0.729140 CCATTTTGTTCCAGCGCGTC 60.729 55.000 8.43 0.00 0.00 5.19
289 294 2.164624 GTCATGGTCTGAGCTCGTAGTT 59.835 50.000 9.64 0.00 33.51 2.24
398 403 4.133820 TGAATATACACTTTCATGCCCCG 58.866 43.478 0.00 0.00 0.00 5.73
416 421 1.681264 CCGGCCAGAAACAAAGTCTTT 59.319 47.619 2.24 0.00 0.00 2.52
425 430 7.267857 CCAGAAACAAAGTCTTTCCATTTTCT 58.732 34.615 11.52 11.52 33.40 2.52
427 432 9.237846 CAGAAACAAAGTCTTTCCATTTTCTAC 57.762 33.333 14.53 0.00 32.24 2.59
434 439 7.823745 AGTCTTTCCATTTTCTACAACATGT 57.176 32.000 0.00 0.00 0.00 3.21
436 441 7.285401 AGTCTTTCCATTTTCTACAACATGTGT 59.715 33.333 0.00 2.49 44.82 3.72
438 443 6.951062 TTCCATTTTCTACAACATGTGTGA 57.049 33.333 0.00 0.00 41.89 3.58
439 444 7.523293 TTCCATTTTCTACAACATGTGTGAT 57.477 32.000 0.00 0.00 41.89 3.06
444 449 9.069078 CATTTTCTACAACATGTGTGATTGATC 57.931 33.333 0.00 0.00 41.89 2.92
446 451 5.478407 TCTACAACATGTGTGATTGATCGT 58.522 37.500 0.00 0.00 41.89 3.73
447 452 6.626302 TCTACAACATGTGTGATTGATCGTA 58.374 36.000 0.00 0.00 41.89 3.43
454 460 7.768240 ACATGTGTGATTGATCGTACTACTTA 58.232 34.615 0.00 0.00 0.00 2.24
463 469 9.171701 GATTGATCGTACTACTTAGACATGAAC 57.828 37.037 0.00 0.00 0.00 3.18
475 481 3.661944 AGACATGAACTCTGCACTCTTG 58.338 45.455 0.00 0.00 0.00 3.02
490 496 3.879295 CACTCTTGGAGAAAACTGCTTGA 59.121 43.478 1.31 0.00 33.32 3.02
498 504 4.378874 GGAGAAAACTGCTTGAAAGGATCG 60.379 45.833 0.00 0.00 0.00 3.69
500 506 1.168714 AACTGCTTGAAAGGATCGCC 58.831 50.000 0.00 0.00 0.00 5.54
536 543 9.234384 CAGAATGAATTTACATCTGAATTCTGC 57.766 33.333 7.05 0.00 41.38 4.26
540 547 7.884257 TGAATTTACATCTGAATTCTGCACAA 58.116 30.769 7.05 0.00 40.93 3.33
545 561 9.545105 TTTACATCTGAATTCTGCACAAATTTT 57.455 25.926 7.05 0.00 0.00 1.82
574 590 5.770162 AGCCAAGTAGATGTGCTTTACTTTT 59.230 36.000 0.00 0.00 35.93 2.27
575 591 6.940298 AGCCAAGTAGATGTGCTTTACTTTTA 59.060 34.615 0.00 0.00 35.93 1.52
576 592 7.021790 GCCAAGTAGATGTGCTTTACTTTTAC 58.978 38.462 0.00 0.00 35.93 2.01
577 593 7.094762 GCCAAGTAGATGTGCTTTACTTTTACT 60.095 37.037 0.00 0.00 36.52 2.24
578 594 8.230486 CCAAGTAGATGTGCTTTACTTTTACTG 58.770 37.037 0.00 0.00 35.71 2.74
601 617 6.491394 TGTACATCACAAAGGAAAACGAAAG 58.509 36.000 0.00 0.00 32.95 2.62
613 629 4.941873 GGAAAACGAAAGGACTGATGGTAT 59.058 41.667 0.00 0.00 0.00 2.73
659 684 2.945008 CCATGCACTCGGATGTTAATGT 59.055 45.455 0.00 0.00 39.21 2.71
665 690 4.631813 GCACTCGGATGTTAATGTCTTCTT 59.368 41.667 0.00 0.00 0.00 2.52
671 696 6.590292 TCGGATGTTAATGTCTTCTTGACTTC 59.410 38.462 0.00 0.00 45.54 3.01
680 705 3.188048 GTCTTCTTGACTTCACCAGCATG 59.812 47.826 0.00 0.00 42.21 4.06
722 753 2.845967 GCCACGTTTTCTGAATAATGCG 59.154 45.455 0.00 0.00 0.00 4.73
804 835 0.315568 TGCCCCATTAACAACGCAAC 59.684 50.000 0.00 0.00 0.00 4.17
857 888 1.133167 GCCATTAAGGGGCCATAAGGT 60.133 52.381 8.48 0.00 45.87 3.50
863 894 2.070650 GGGGCCATAAGGTCGGTCT 61.071 63.158 4.39 0.00 41.80 3.85
940 971 1.134371 GTAGACAGGAACCAGCATCCC 60.134 57.143 0.00 0.00 37.71 3.85
1046 1091 2.512515 GGGGAGCTGCGATGACAC 60.513 66.667 0.00 0.00 0.00 3.67
1131 1176 4.540153 CCTGTCGGCGGATCAATT 57.460 55.556 7.21 0.00 0.00 2.32
1172 1223 3.537795 TCCTGACTACTACCCACAAGT 57.462 47.619 0.00 0.00 0.00 3.16
1173 1224 3.853207 TCCTGACTACTACCCACAAGTT 58.147 45.455 0.00 0.00 0.00 2.66
1182 1233 2.604174 CCCACAAGTTGCGACGACC 61.604 63.158 1.81 0.00 0.00 4.79
1293 1362 4.918201 GGAGGCGGCCTTGGATCG 62.918 72.222 24.71 0.00 31.76 3.69
1318 1387 0.037790 GACCTATGAGATGAGCCGCC 60.038 60.000 0.00 0.00 0.00 6.13
1377 1446 4.326826 TCAAGAGGGCTAATGTTGTCAAG 58.673 43.478 0.00 0.00 0.00 3.02
1686 1785 0.865769 CGTTTGAACTGAACCGAGGG 59.134 55.000 0.00 0.00 0.00 4.30
1775 1874 9.809096 TTGCTTTGACTGTGTTTAATGAAATAA 57.191 25.926 0.00 0.00 0.00 1.40
1851 2229 2.036604 TGTCGTTGGTCAGTCTGCAATA 59.963 45.455 0.00 0.00 0.00 1.90
1873 2315 9.033481 CAATACATTATGGGTGCACTAAATTTG 57.967 33.333 17.98 10.72 0.00 2.32
2190 2632 3.886505 TCAAACCGGCACTCAAAAACTAT 59.113 39.130 0.00 0.00 0.00 2.12
2216 2658 2.861147 ACCCTTCTAGTGAGCCAAAC 57.139 50.000 0.00 0.00 0.00 2.93
2280 2722 9.547279 AGAAAACATAAACTGAGGGGAAATATT 57.453 29.630 0.00 0.00 0.00 1.28
2318 2792 8.316214 ACTAGAAACAATGCATCATGGAAAATT 58.684 29.630 0.00 0.00 0.00 1.82
2336 2810 5.391312 AAATTATGTTGTTGACCAGAGCC 57.609 39.130 0.00 0.00 0.00 4.70
2370 2844 8.437274 TCAAATAACCTTTGCCCCTATTAAAA 57.563 30.769 0.00 0.00 0.00 1.52
2496 2980 9.500785 TTTTTGTCAAGTTCTTTTTCCTGAAAT 57.499 25.926 0.00 0.00 0.00 2.17
2658 3144 1.934399 GCAGAGATAGCTAAGCGCCTG 60.934 57.143 2.29 0.55 40.39 4.85
2826 3312 1.071987 CAAGGTCACTGCTGCTCCA 59.928 57.895 0.00 0.00 0.00 3.86
2843 3329 1.165270 CCACTAGCCCCAAAAGAACG 58.835 55.000 0.00 0.00 0.00 3.95
2869 3355 1.352017 TGTCACCATCTTCACCAGCAT 59.648 47.619 0.00 0.00 0.00 3.79
2939 3425 3.902218 ACCCATCCAACATAATGGTCAG 58.098 45.455 0.00 0.00 40.76 3.51
2941 3427 2.291465 CCATCCAACATAATGGTCAGCG 59.709 50.000 0.00 0.00 41.46 5.18
2994 3480 5.334724 GGCTGACTCTTGTGAAGAAATTCTG 60.335 44.000 0.00 0.00 37.02 3.02
3006 3492 3.891049 AGAAATTCTGGTCCCTACATGC 58.109 45.455 0.00 0.00 0.00 4.06
3019 3505 4.404394 TCCCTACATGCGATGACTTTTCTA 59.596 41.667 0.00 0.00 0.00 2.10
3059 3545 6.208599 GGTTTATTTGACACAAAGGAGGATGA 59.791 38.462 0.00 0.00 0.00 2.92
3268 3787 1.362584 TCCAGGTGAAGGAGGAGATGA 59.637 52.381 0.00 0.00 0.00 2.92
3295 3814 0.313987 TGAGCTGGTCACACGTACAG 59.686 55.000 5.28 0.00 0.00 2.74
3367 3942 4.887655 CCTTTTGGATGTTACTATGGGACC 59.112 45.833 0.00 0.00 44.07 4.46
3411 3986 3.121738 ACCTTCTGGTTGTTTCCGTAG 57.878 47.619 0.00 0.00 46.05 3.51
3684 4270 6.039717 ACATTTATGGATAACATGTCAGTGCC 59.960 38.462 0.00 0.00 40.82 5.01
3695 4281 1.227527 TCAGTGCCGTGGTGACTTG 60.228 57.895 0.00 0.00 0.00 3.16
3729 4315 2.517598 CACTGACACGGTGCACTAC 58.482 57.895 17.98 0.00 33.85 2.73
3730 4316 0.249280 CACTGACACGGTGCACTACA 60.249 55.000 17.98 8.92 33.85 2.74
3789 4385 7.558807 TCAGCATCCAACATTCAGATAATTCTT 59.441 33.333 0.00 0.00 0.00 2.52
3860 4456 7.907841 AGGTTGTTTTAAGTTAGAACCCATT 57.092 32.000 12.39 0.00 34.57 3.16
3906 4502 4.671880 TTTTTATCACATCGACCCAACG 57.328 40.909 0.00 0.00 0.00 4.10
3933 4529 4.447989 TGCGCTCAGGCTCAGCTC 62.448 66.667 9.21 0.00 34.45 4.09
3959 4555 8.702438 CATACAACCATTCATTCTTTGTTCAAC 58.298 33.333 0.00 0.00 32.73 3.18
4010 4606 6.183360 TGCACACGATCGTAATAGGTAGTTAA 60.183 38.462 22.26 0.00 0.00 2.01
4084 4680 3.032017 TCTGCACAAGCTGTTCTAGTC 57.968 47.619 0.00 0.00 42.74 2.59
4262 4858 7.765695 ATGAGTTTTCCTTTTTGCTGAGATA 57.234 32.000 0.00 0.00 0.00 1.98
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
95 96 2.343758 GAAGTGCTGGTCTCGCCA 59.656 61.111 0.00 0.00 46.95 5.69
96 97 2.435059 GGAAGTGCTGGTCTCGCC 60.435 66.667 0.00 0.00 37.90 5.54
97 98 2.435059 GGGAAGTGCTGGTCTCGC 60.435 66.667 0.00 0.00 0.00 5.03
98 99 2.125912 CGGGAAGTGCTGGTCTCG 60.126 66.667 0.00 0.00 0.00 4.04
99 100 1.374758 CACGGGAAGTGCTGGTCTC 60.375 63.158 0.00 0.00 44.72 3.36
100 101 2.743718 CACGGGAAGTGCTGGTCT 59.256 61.111 0.00 0.00 44.72 3.85
155 156 3.003763 AGAACTGGGGCGGAGGAC 61.004 66.667 0.00 0.00 0.00 3.85
237 241 2.877786 CAAAATGGAACCCCTTTTGTGC 59.122 45.455 14.32 0.00 39.08 4.57
265 270 1.875813 GAGCTCAGACCATGACGCG 60.876 63.158 9.40 3.53 37.24 6.01
270 275 2.949451 AACTACGAGCTCAGACCATG 57.051 50.000 15.40 0.00 0.00 3.66
289 294 7.597288 TCGGTATAGATTGAAGATGAAGGAA 57.403 36.000 0.00 0.00 0.00 3.36
384 389 3.451894 GGCCGGGGCATGAAAGTG 61.452 66.667 16.76 0.00 44.11 3.16
389 394 3.656280 TTTCTGGCCGGGGCATGA 61.656 61.111 24.64 19.11 44.11 3.07
398 403 2.693074 TGGAAAGACTTTGTTTCTGGCC 59.307 45.455 4.85 0.00 34.81 5.36
416 421 7.230309 TCAATCACACATGTTGTAGAAAATGGA 59.770 33.333 7.62 0.00 35.67 3.41
425 430 6.394809 AGTACGATCAATCACACATGTTGTA 58.605 36.000 0.00 0.00 35.67 2.41
427 432 5.784750 AGTACGATCAATCACACATGTTG 57.215 39.130 0.00 0.00 0.00 3.33
434 439 7.619964 TGTCTAAGTAGTACGATCAATCACA 57.380 36.000 0.00 0.00 0.00 3.58
436 441 8.446599 TCATGTCTAAGTAGTACGATCAATCA 57.553 34.615 0.00 0.00 0.00 2.57
438 443 8.904834 AGTTCATGTCTAAGTAGTACGATCAAT 58.095 33.333 0.00 0.00 0.00 2.57
439 444 8.277490 AGTTCATGTCTAAGTAGTACGATCAA 57.723 34.615 0.00 0.00 0.00 2.57
444 449 5.966503 GCAGAGTTCATGTCTAAGTAGTACG 59.033 44.000 0.00 0.00 0.00 3.67
446 451 6.659668 AGTGCAGAGTTCATGTCTAAGTAGTA 59.340 38.462 0.00 0.00 0.00 1.82
447 452 5.478679 AGTGCAGAGTTCATGTCTAAGTAGT 59.521 40.000 0.00 0.00 0.00 2.73
454 460 3.556633 CCAAGAGTGCAGAGTTCATGTCT 60.557 47.826 0.00 0.00 0.00 3.41
463 469 3.497640 CAGTTTTCTCCAAGAGTGCAGAG 59.502 47.826 0.00 0.00 0.00 3.35
475 481 4.378874 CGATCCTTTCAAGCAGTTTTCTCC 60.379 45.833 0.00 0.00 0.00 3.71
490 496 2.280628 GAACTGAATCGGCGATCCTTT 58.719 47.619 24.20 13.55 0.00 3.11
498 504 4.889832 ATTCATTCTGAACTGAATCGGC 57.110 40.909 15.83 0.00 39.45 5.54
500 506 9.430838 GATGTAAATTCATTCTGAACTGAATCG 57.569 33.333 19.10 2.52 40.33 3.34
545 561 6.648879 AAAGCACATCTACTTGGCTAAAAA 57.351 33.333 0.00 0.00 33.80 1.94
574 590 6.282167 TCGTTTTCCTTTGTGATGTACAGTA 58.718 36.000 0.33 0.00 41.10 2.74
575 591 5.120399 TCGTTTTCCTTTGTGATGTACAGT 58.880 37.500 0.33 0.00 41.10 3.55
576 592 5.666969 TCGTTTTCCTTTGTGATGTACAG 57.333 39.130 0.33 0.00 41.10 2.74
577 593 6.438259 TTTCGTTTTCCTTTGTGATGTACA 57.562 33.333 0.00 0.00 37.56 2.90
578 594 5.912955 CCTTTCGTTTTCCTTTGTGATGTAC 59.087 40.000 0.00 0.00 0.00 2.90
601 617 5.363868 TGCTATATGCCTATACCATCAGTCC 59.636 44.000 0.00 0.00 42.00 3.85
644 660 5.869888 GTCAAGAAGACATTAACATCCGAGT 59.130 40.000 0.00 0.00 46.77 4.18
645 661 6.337853 GTCAAGAAGACATTAACATCCGAG 57.662 41.667 0.00 0.00 46.77 4.63
659 684 3.181451 ACATGCTGGTGAAGTCAAGAAGA 60.181 43.478 0.00 0.00 0.00 2.87
665 690 0.953727 GCAACATGCTGGTGAAGTCA 59.046 50.000 5.52 0.00 37.20 3.41
671 696 0.320073 CCCTTTGCAACATGCTGGTG 60.320 55.000 0.00 0.00 45.31 4.17
680 705 0.179113 CACACACCACCCTTTGCAAC 60.179 55.000 0.00 0.00 0.00 4.17
687 712 3.415983 TGGCACACACACCACCCT 61.416 61.111 0.00 0.00 0.00 4.34
804 835 7.365206 CCAAGGGGGTTTTATGGGTTTATTAAG 60.365 40.741 0.00 0.00 0.00 1.85
857 888 7.491372 GTCACATTATATCTTGACAAAGACCGA 59.509 37.037 0.00 0.00 45.12 4.69
940 971 2.764547 GGGGAAGAGGGACCGGAG 60.765 72.222 9.46 0.00 0.00 4.63
967 999 2.110006 GCTGGCTACTGCTAGGGC 59.890 66.667 3.77 0.00 46.16 5.19
1029 1074 2.512515 GTGTCATCGCAGCTCCCC 60.513 66.667 0.00 0.00 0.00 4.81
1046 1091 0.523968 CACATGGAAATCAAGCGGCG 60.524 55.000 0.51 0.51 0.00 6.46
1172 1223 2.664851 CAGCCTTGGTCGTCGCAA 60.665 61.111 0.00 0.00 0.00 4.85
1173 1224 3.858868 GACAGCCTTGGTCGTCGCA 62.859 63.158 0.00 0.00 0.00 5.10
1182 1233 1.522355 ATCGCCGATGACAGCCTTG 60.522 57.895 0.00 0.00 0.00 3.61
1293 1362 4.557695 CGGCTCATCTCATAGGTCTTGTAC 60.558 50.000 0.00 0.00 0.00 2.90
1318 1387 3.798889 GCCTTCTTTCTTGGGAAAAACCG 60.799 47.826 0.00 0.00 40.41 4.44
1377 1446 0.967380 CTTCCAGTGTCCATTGCCCC 60.967 60.000 0.00 0.00 0.00 5.80
1433 1502 4.211164 TGCAAACAGAGACAATACTGAACG 59.789 41.667 0.00 0.00 37.54 3.95
1561 1660 2.988010 TTTGCGCTATCTGAGACCAT 57.012 45.000 9.73 0.00 0.00 3.55
1816 2193 5.547465 ACCAACGACATTCAAATCTCACTA 58.453 37.500 0.00 0.00 0.00 2.74
1851 2229 5.104982 CCCAAATTTAGTGCACCCATAATGT 60.105 40.000 14.63 0.59 0.00 2.71
1873 2315 7.902920 AATGGCATCATGTATATAATTCCCC 57.097 36.000 0.00 0.00 33.18 4.81
1893 2335 9.603921 AATCTGATATAAGCAAACCAAAAATGG 57.396 29.630 0.00 0.00 0.00 3.16
1980 2422 8.243961 TCCCTGAATGTATTCAAAGTTTCAAA 57.756 30.769 8.48 0.00 45.26 2.69
1986 2428 7.890127 TCAAATCTCCCTGAATGTATTCAAAGT 59.110 33.333 8.48 0.00 45.26 2.66
1987 2429 8.284945 TCAAATCTCCCTGAATGTATTCAAAG 57.715 34.615 8.48 6.80 45.26 2.77
2166 2608 2.045561 TTTTGAGTGCCGGTTTGAGA 57.954 45.000 1.90 0.00 0.00 3.27
2190 2632 4.103469 TGGCTCACTAGAAGGGTACAAAAA 59.897 41.667 0.00 0.00 0.00 1.94
2195 2637 3.007614 TGTTTGGCTCACTAGAAGGGTAC 59.992 47.826 0.00 0.00 0.00 3.34
2204 2646 6.772716 AGAATTTTCTTCTGTTTGGCTCACTA 59.227 34.615 0.00 0.00 32.55 2.74
2216 2658 7.533426 CCATGTCAGGTTAGAATTTTCTTCTG 58.467 38.462 0.00 5.26 38.70 3.02
2285 2727 8.980610 CATGATGCATTGTTTCTAGTTTTTCAA 58.019 29.630 0.00 0.00 0.00 2.69
2286 2728 7.599621 CCATGATGCATTGTTTCTAGTTTTTCA 59.400 33.333 0.00 0.00 0.00 2.69
2318 2792 3.719268 ATGGCTCTGGTCAACAACATA 57.281 42.857 0.00 0.00 0.00 2.29
2336 2810 7.035612 GGGCAAAGGTTATTTGAACTTCTATG 58.964 38.462 4.59 0.00 0.00 2.23
2658 3144 2.155279 GAGTTTTCAGTTCTCCCAGGC 58.845 52.381 0.00 0.00 0.00 4.85
2826 3312 1.271217 GGACGTTCTTTTGGGGCTAGT 60.271 52.381 0.00 0.00 0.00 2.57
2869 3355 1.337118 GCCAGATTTTGTGTTGGGGA 58.663 50.000 0.00 0.00 0.00 4.81
2939 3425 1.929836 CTGTGCTGAATAGTCCTTCGC 59.070 52.381 0.00 0.00 0.00 4.70
2941 3427 4.808364 GTCATCTGTGCTGAATAGTCCTTC 59.192 45.833 0.00 0.00 0.00 3.46
2994 3480 0.753262 AGTCATCGCATGTAGGGACC 59.247 55.000 0.00 0.00 42.47 4.46
3006 3492 6.957635 CACACATGTCAATAGAAAAGTCATCG 59.042 38.462 0.00 0.00 0.00 3.84
3019 3505 7.814107 GTCAAATAAACCATCACACATGTCAAT 59.186 33.333 0.00 0.00 0.00 2.57
3059 3545 1.003812 TGCTGTAAACCGGGTATTGCT 59.996 47.619 6.32 0.00 0.00 3.91
3268 3787 3.615110 CGTGTGACCAGCTCAACTAGATT 60.615 47.826 0.00 0.00 0.00 2.40
3399 3974 7.096312 GGTCGTCATATAATCTACGGAAACAAC 60.096 40.741 0.00 0.00 36.08 3.32
3403 3978 6.889301 AGGTCGTCATATAATCTACGGAAA 57.111 37.500 0.00 0.00 36.08 3.13
3407 3982 6.148976 TCCAGAAGGTCGTCATATAATCTACG 59.851 42.308 0.00 0.00 36.71 3.51
3408 3983 7.450124 TCCAGAAGGTCGTCATATAATCTAC 57.550 40.000 0.00 0.00 35.89 2.59
3411 3986 6.692486 ACATCCAGAAGGTCGTCATATAATC 58.308 40.000 0.00 0.00 35.89 1.75
3684 4270 2.911819 ACAAACAACAAGTCACCACG 57.088 45.000 0.00 0.00 0.00 4.94
3695 4281 4.213270 TGTCAGTGCATAGCTACAAACAAC 59.787 41.667 0.00 0.00 0.00 3.32
3728 4314 8.562892 CACAATCTCTCAGTTTGAATTAAGTGT 58.437 33.333 2.11 0.00 31.27 3.55
3729 4315 8.562892 ACACAATCTCTCAGTTTGAATTAAGTG 58.437 33.333 2.11 0.00 31.27 3.16
3730 4316 8.562892 CACACAATCTCTCAGTTTGAATTAAGT 58.437 33.333 2.11 0.00 31.27 2.24
3731 4317 8.019669 CCACACAATCTCTCAGTTTGAATTAAG 58.980 37.037 2.11 0.00 31.27 1.85
3734 4320 5.829924 ACCACACAATCTCTCAGTTTGAATT 59.170 36.000 2.11 0.00 31.27 2.17
3888 4484 3.181484 CCTACGTTGGGTCGATGTGATAA 60.181 47.826 8.29 0.00 34.70 1.75
3906 4502 0.249238 CCTGAGCGCAGATGTCCTAC 60.249 60.000 19.95 0.00 45.17 3.18
3933 4529 8.702438 GTTGAACAAAGAATGAATGGTTGTATG 58.298 33.333 0.00 0.00 32.32 2.39
3959 4555 5.824904 ATCAACGAAATTTCCTGGATCAG 57.175 39.130 12.54 0.00 0.00 2.90
4021 4617 9.921637 CCTTTTTAAACATGTCTTTGCCTATTA 57.078 29.630 0.00 0.00 0.00 0.98
4027 4623 7.279981 AGGTTTCCTTTTTAAACATGTCTTTGC 59.720 33.333 0.00 0.00 38.34 3.68
4137 4733 6.154203 TGAACAAGATTGCCAACATGTAAA 57.846 33.333 0.00 0.00 0.00 2.01
4138 4734 5.781210 TGAACAAGATTGCCAACATGTAA 57.219 34.783 0.00 0.00 0.00 2.41
4139 4735 5.781210 TTGAACAAGATTGCCAACATGTA 57.219 34.783 0.00 0.00 0.00 2.29


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

AutoCloner maintained by Alex Coulton.