Multiple sequence alignment - TraesCS2B01G210600

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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 TraesCS2B01G210600 chr2B 100.000 3945 0 0 1 3945 194377707 194381651 0.000000e+00 7286
1 TraesCS2B01G210600 chr2B 81.316 1884 279 44 1085 2946 134702500 134704332 0.000000e+00 1461
2 TraesCS2B01G210600 chr2B 95.211 522 25 0 1593 2114 784041198 784040677 0.000000e+00 826
3 TraesCS2B01G210600 chr2D 94.312 3991 141 35 1 3935 136164968 136168928 0.000000e+00 6034
4 TraesCS2B01G210600 chr2D 83.636 880 129 7 2076 2946 83064663 83065536 0.000000e+00 813
5 TraesCS2B01G210600 chr2A 90.995 4042 196 57 1 3940 144260763 144264738 0.000000e+00 5293
6 TraesCS2B01G210600 chr2A 82.020 1396 202 28 1575 2946 83691169 83689799 0.000000e+00 1142
7 TraesCS2B01G210600 chr2A 81.304 583 102 3 2364 2946 83652017 83651442 2.150000e-127 466
8 TraesCS2B01G210600 chrUn 90.591 2030 114 26 1800 3785 69740087 69738091 0.000000e+00 2619
9 TraesCS2B01G210600 chrUn 82.885 929 135 18 1575 2499 238397473 238398381 0.000000e+00 813
10 TraesCS2B01G210600 chr5D 89.303 2094 106 34 1800 3856 362898016 362896004 0.000000e+00 2518
11 TraesCS2B01G210600 chr5D 96.591 88 3 0 3848 3935 362893485 362893398 3.180000e-31 147
12 TraesCS2B01G210600 chr5D 85.124 121 12 3 2553 2667 501504226 501504106 6.930000e-23 119
13 TraesCS2B01G210600 chr5A 94.268 1291 53 8 1800 3071 464195571 464196859 0.000000e+00 1954
14 TraesCS2B01G210600 chr5A 91.949 236 9 5 3065 3291 464198708 464198942 4.920000e-84 322
15 TraesCS2B01G210600 chr5A 91.156 147 6 2 3795 3935 464200859 464201004 4.020000e-45 193
16 TraesCS2B01G210600 chr3A 92.337 522 39 1 1593 2114 29620550 29620030 0.000000e+00 741


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 TraesCS2B01G210600 chr2B 194377707 194381651 3944 False 7286.0 7286 100.000000 1 3945 1 chr2B.!!$F2 3944
1 TraesCS2B01G210600 chr2B 134702500 134704332 1832 False 1461.0 1461 81.316000 1085 2946 1 chr2B.!!$F1 1861
2 TraesCS2B01G210600 chr2B 784040677 784041198 521 True 826.0 826 95.211000 1593 2114 1 chr2B.!!$R1 521
3 TraesCS2B01G210600 chr2D 136164968 136168928 3960 False 6034.0 6034 94.312000 1 3935 1 chr2D.!!$F2 3934
4 TraesCS2B01G210600 chr2D 83064663 83065536 873 False 813.0 813 83.636000 2076 2946 1 chr2D.!!$F1 870
5 TraesCS2B01G210600 chr2A 144260763 144264738 3975 False 5293.0 5293 90.995000 1 3940 1 chr2A.!!$F1 3939
6 TraesCS2B01G210600 chr2A 83689799 83691169 1370 True 1142.0 1142 82.020000 1575 2946 1 chr2A.!!$R2 1371
7 TraesCS2B01G210600 chr2A 83651442 83652017 575 True 466.0 466 81.304000 2364 2946 1 chr2A.!!$R1 582
8 TraesCS2B01G210600 chrUn 69738091 69740087 1996 True 2619.0 2619 90.591000 1800 3785 1 chrUn.!!$R1 1985
9 TraesCS2B01G210600 chrUn 238397473 238398381 908 False 813.0 813 82.885000 1575 2499 1 chrUn.!!$F1 924
10 TraesCS2B01G210600 chr5D 362893398 362898016 4618 True 1332.5 2518 92.947000 1800 3935 2 chr5D.!!$R2 2135
11 TraesCS2B01G210600 chr5A 464195571 464201004 5433 False 823.0 1954 92.457667 1800 3935 3 chr5A.!!$F1 2135
12 TraesCS2B01G210600 chr3A 29620030 29620550 520 True 741.0 741 92.337000 1593 2114 1 chr3A.!!$R1 521

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
989 1038 0.179113 GCTGCTCTGCTAGTGTCTCC 60.179 60.0 0.00 0.00 0.00 3.71 F
1320 1369 0.988063 TTGTCAATGGGGATCGGTCA 59.012 50.0 0.00 0.00 0.00 4.02 F
2155 2234 0.454789 CGTGTACCATGTACGCGTCA 60.455 55.0 18.63 14.75 43.76 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2155 2234 0.175073 GCCCGAAGTAACACTCCGAT 59.825 55.000 0.00 0.0 0.00 4.18 R
2425 2513 1.006571 GCGGACGAACTGGAACTGA 60.007 57.895 0.00 0.0 0.00 3.41 R
3769 6182 0.239082 CGCAGTCAAGAAAGCATGCA 59.761 50.000 21.98 0.0 33.33 3.96 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
67 73 2.512515 CTAGCCGCCCAGTTGCTC 60.513 66.667 0.00 0.00 36.57 4.26
68 74 3.315142 CTAGCCGCCCAGTTGCTCA 62.315 63.158 0.00 0.00 36.57 4.26
69 75 2.599645 CTAGCCGCCCAGTTGCTCAT 62.600 60.000 0.00 0.00 36.57 2.90
210 233 2.123428 GCACACTGGCATCCATCCC 61.123 63.158 0.00 0.00 30.82 3.85
347 371 1.270968 CACATTTAGCGAGCGAGCG 59.729 57.895 0.00 0.00 43.00 5.03
348 372 1.138883 ACATTTAGCGAGCGAGCGA 59.861 52.632 1.41 0.00 43.00 4.93
349 373 0.867753 ACATTTAGCGAGCGAGCGAG 60.868 55.000 1.41 0.00 43.00 5.03
350 374 1.946650 ATTTAGCGAGCGAGCGAGC 60.947 57.895 9.12 9.12 43.00 5.03
351 375 4.888741 TTAGCGAGCGAGCGAGCG 62.889 66.667 10.81 7.62 43.00 5.03
371 398 1.625315 GAGCAGGCCCCAATTTTTCTT 59.375 47.619 0.00 0.00 0.00 2.52
375 402 3.866066 GCAGGCCCCAATTTTTCTTCTTC 60.866 47.826 0.00 0.00 0.00 2.87
380 407 4.306600 CCCCAATTTTTCTTCTTCCGTTG 58.693 43.478 0.00 0.00 0.00 4.10
520 557 3.925238 CGTCGCATAACCGCTGCC 61.925 66.667 0.00 0.00 36.24 4.85
560 597 2.370281 ACGAAGATGCGTCAAGACAT 57.630 45.000 8.99 0.00 41.22 3.06
619 656 3.418684 ACTTTGGCACTCGTATCCTTT 57.581 42.857 0.00 0.00 0.00 3.11
633 670 0.394216 TCCTTTACCGTCGGGATCGA 60.394 55.000 17.28 0.00 43.86 3.59
858 895 3.236047 TCTGACACAGGCTTAGTACCAA 58.764 45.455 0.00 0.00 31.51 3.67
938 984 2.139118 CCGGCATTCTTTAGCTAGCTC 58.861 52.381 23.26 3.63 0.00 4.09
989 1038 0.179113 GCTGCTCTGCTAGTGTCTCC 60.179 60.000 0.00 0.00 0.00 3.71
1122 1171 4.528674 AAGCTGCGCTTCATCGAT 57.471 50.000 9.73 0.00 46.77 3.59
1308 1357 1.466856 ACATCCAGCGCATTGTCAAT 58.533 45.000 11.47 0.00 0.00 2.57
1320 1369 0.988063 TTGTCAATGGGGATCGGTCA 59.012 50.000 0.00 0.00 0.00 4.02
1341 1390 4.082523 ATCCTGTCCACGCACCCG 62.083 66.667 0.00 0.00 41.14 5.28
1470 1519 2.874457 GCCGGTCATGAACCTGTAAGTT 60.874 50.000 4.85 0.00 46.87 2.66
1528 1577 1.977854 TGGCAGTCCAAAGCTAGAGAA 59.022 47.619 0.00 0.00 39.99 2.87
2155 2234 0.454789 CGTGTACCATGTACGCGTCA 60.455 55.000 18.63 14.75 43.76 4.35
2164 2243 1.136147 GTACGCGTCATCGGAGTGT 59.864 57.895 18.63 0.00 37.56 3.55
2416 2504 1.302192 CGTGACGGGGTTCCACAAT 60.302 57.895 0.00 0.00 0.00 2.71
2992 3105 1.153823 CGACGTCTCCGCCTGAATT 60.154 57.895 14.70 0.00 37.70 2.17
2996 3109 1.212616 CGTCTCCGCCTGAATTGATC 58.787 55.000 0.00 0.00 0.00 2.92
3000 3114 0.918983 TCCGCCTGAATTGATCCCTT 59.081 50.000 0.00 0.00 0.00 3.95
3015 3129 6.245890 TGATCCCTTGTTGAAAATTTTGGT 57.754 33.333 8.47 0.00 0.00 3.67
3160 5154 6.942005 TGCCGGAGTATGATTAATGATTGATT 59.058 34.615 5.05 0.00 0.00 2.57
3256 5268 2.989166 CCTCCAAAACCGTACGAGTTAC 59.011 50.000 18.76 0.00 0.00 2.50
3295 5621 6.930722 GCAAGATATTTCCCCCAATTATTGTG 59.069 38.462 4.15 0.00 0.00 3.33
3310 5636 2.034048 TTGTGCACTAGCCGACACCA 62.034 55.000 19.41 0.00 41.13 4.17
3330 5656 2.560542 CAGCATAGACTAGAGGCCGATT 59.439 50.000 0.00 0.00 0.00 3.34
3331 5657 2.560542 AGCATAGACTAGAGGCCGATTG 59.439 50.000 0.00 0.00 0.00 2.67
3334 5670 4.022242 GCATAGACTAGAGGCCGATTGTTA 60.022 45.833 0.00 0.00 0.00 2.41
3339 5675 4.704965 ACTAGAGGCCGATTGTTATTTCC 58.295 43.478 0.00 0.00 0.00 3.13
3353 5689 7.572523 TTGTTATTTCCTCATTATCCTGCTG 57.427 36.000 0.00 0.00 0.00 4.41
3372 5708 1.487976 TGTTGGCCTTTCCATTTTGCA 59.512 42.857 3.32 0.00 46.04 4.08
3373 5709 2.145536 GTTGGCCTTTCCATTTTGCAG 58.854 47.619 3.32 0.00 46.04 4.41
3374 5710 0.686224 TGGCCTTTCCATTTTGCAGG 59.314 50.000 3.32 0.00 40.72 4.85
3375 5711 0.975887 GGCCTTTCCATTTTGCAGGA 59.024 50.000 0.00 0.00 34.01 3.86
3376 5712 1.347378 GGCCTTTCCATTTTGCAGGAA 59.653 47.619 0.00 1.16 41.92 3.36
3377 5713 2.613725 GGCCTTTCCATTTTGCAGGAAG 60.614 50.000 5.41 0.00 44.15 3.46
3378 5714 2.037641 GCCTTTCCATTTTGCAGGAAGT 59.962 45.455 5.41 0.00 44.15 3.01
3379 5715 3.656559 CCTTTCCATTTTGCAGGAAGTG 58.343 45.455 5.41 3.80 44.15 3.16
3380 5716 3.070015 CCTTTCCATTTTGCAGGAAGTGT 59.930 43.478 5.41 0.00 44.15 3.55
3381 5717 4.443315 CCTTTCCATTTTGCAGGAAGTGTT 60.443 41.667 5.41 0.00 44.15 3.32
3391 5727 2.869636 GCAGGAAGTGTTCTGTGAGAGG 60.870 54.545 0.00 0.00 33.81 3.69
3406 5742 1.963338 GAGGTCGTTGCTGCTGCTT 60.963 57.895 17.00 0.00 40.48 3.91
3415 5751 0.822811 TGCTGCTGCTTGTTGGAAAA 59.177 45.000 17.00 0.00 40.48 2.29
3432 5809 3.181506 GGAAAATGTTAGCAAGAGGAGCG 60.182 47.826 0.00 0.00 37.01 5.03
3438 5815 3.010420 GTTAGCAAGAGGAGCGGAATTT 58.990 45.455 0.00 0.00 37.01 1.82
3462 5839 1.402852 GCGTGATATAGCTCATCGCCA 60.403 52.381 13.39 0.00 38.52 5.69
3463 5840 2.254459 CGTGATATAGCTCATCGCCAC 58.746 52.381 13.39 5.43 40.39 5.01
3464 5841 2.095008 CGTGATATAGCTCATCGCCACT 60.095 50.000 13.39 0.00 40.39 4.00
3465 5842 3.249091 GTGATATAGCTCATCGCCACTG 58.751 50.000 9.58 0.00 40.39 3.66
3466 5843 3.057245 GTGATATAGCTCATCGCCACTGA 60.057 47.826 9.58 0.00 40.39 3.41
3467 5844 3.192212 TGATATAGCTCATCGCCACTGAG 59.808 47.826 0.00 0.00 42.47 3.35
3468 5845 1.697284 ATAGCTCATCGCCACTGAGA 58.303 50.000 8.56 0.00 42.22 3.27
3469 5846 1.697284 TAGCTCATCGCCACTGAGAT 58.303 50.000 8.56 5.23 42.22 2.75
3470 5847 0.829333 AGCTCATCGCCACTGAGATT 59.171 50.000 8.56 0.00 42.22 2.40
3471 5848 0.935898 GCTCATCGCCACTGAGATTG 59.064 55.000 8.56 0.00 42.22 2.67
3472 5849 1.579698 CTCATCGCCACTGAGATTGG 58.420 55.000 0.00 0.00 42.22 3.16
3473 5850 0.178767 TCATCGCCACTGAGATTGGG 59.821 55.000 0.00 0.00 34.35 4.12
3474 5851 0.107508 CATCGCCACTGAGATTGGGT 60.108 55.000 0.00 0.00 34.35 4.51
3475 5852 0.179000 ATCGCCACTGAGATTGGGTC 59.821 55.000 0.00 0.00 34.35 4.46
3476 5853 1.811266 CGCCACTGAGATTGGGTCG 60.811 63.158 0.00 0.00 34.35 4.79
3477 5854 1.596934 GCCACTGAGATTGGGTCGA 59.403 57.895 0.00 0.00 34.35 4.20
3478 5855 0.460987 GCCACTGAGATTGGGTCGAG 60.461 60.000 0.00 0.00 34.35 4.04
3479 5856 0.176680 CCACTGAGATTGGGTCGAGG 59.823 60.000 0.00 0.00 0.00 4.63
3480 5857 0.460987 CACTGAGATTGGGTCGAGGC 60.461 60.000 0.00 0.00 0.00 4.70
3481 5858 1.227089 CTGAGATTGGGTCGAGGCG 60.227 63.158 0.00 0.00 0.00 5.52
3538 5935 3.808174 GGTCGACTTTTACTGCTTCAAGT 59.192 43.478 16.46 0.00 32.02 3.16
3629 6026 5.047306 TGACACTTGATTAGACAAGATCGGT 60.047 40.000 14.00 7.24 46.85 4.69
3655 6057 2.202236 ATCAGGCCCATGACAAGCGT 62.202 55.000 0.00 0.00 30.46 5.07
3693 6095 2.124695 GGACCCAAGCACGATCCC 60.125 66.667 0.00 0.00 0.00 3.85
3703 6108 3.381983 ACGATCCCGCTGTCTGCA 61.382 61.111 2.42 0.00 43.06 4.41
3715 6124 1.112916 TGTCTGCAAGGGTCGTCAGA 61.113 55.000 0.00 0.00 33.64 3.27
3752 6165 2.307496 TGGTCTTCGGGGTACTGTTA 57.693 50.000 0.00 0.00 0.00 2.41
3769 6182 2.240667 TGTTACTAGTAGGAGCGGACCT 59.759 50.000 2.23 5.58 43.32 3.85
3940 9968 1.877443 CTGGTACGTTTGTTTCCCTGG 59.123 52.381 0.00 0.00 0.00 4.45
3941 9969 1.212441 TGGTACGTTTGTTTCCCTGGT 59.788 47.619 0.00 0.00 0.00 4.00
3942 9970 1.875514 GGTACGTTTGTTTCCCTGGTC 59.124 52.381 0.00 0.00 0.00 4.02
3943 9971 1.875514 GTACGTTTGTTTCCCTGGTCC 59.124 52.381 0.00 0.00 0.00 4.46
3944 9972 0.256464 ACGTTTGTTTCCCTGGTCCA 59.744 50.000 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
194 217 2.300967 ACGGGATGGATGCCAGTGT 61.301 57.895 0.00 0.00 38.32 3.55
273 297 0.673644 AACTTCGAATCACCGGCCTG 60.674 55.000 0.00 0.00 0.00 4.85
347 371 4.496336 ATTGGGGCCTGCTCGCTC 62.496 66.667 0.84 0.00 0.00 5.03
348 372 3.590466 AAATTGGGGCCTGCTCGCT 62.590 57.895 0.84 0.00 0.00 4.93
349 373 2.171209 AAAAATTGGGGCCTGCTCGC 62.171 55.000 0.84 0.00 0.00 5.03
350 374 0.108662 GAAAAATTGGGGCCTGCTCG 60.109 55.000 0.84 0.00 0.00 5.03
351 375 1.269958 AGAAAAATTGGGGCCTGCTC 58.730 50.000 0.84 0.00 0.00 4.26
352 376 1.625315 GAAGAAAAATTGGGGCCTGCT 59.375 47.619 0.84 0.00 0.00 4.24
353 377 1.625315 AGAAGAAAAATTGGGGCCTGC 59.375 47.619 0.84 0.00 0.00 4.85
354 378 3.306989 GGAAGAAGAAAAATTGGGGCCTG 60.307 47.826 0.84 0.00 0.00 4.85
355 379 2.906389 GGAAGAAGAAAAATTGGGGCCT 59.094 45.455 0.84 0.00 0.00 5.19
356 380 2.353704 CGGAAGAAGAAAAATTGGGGCC 60.354 50.000 0.00 0.00 0.00 5.80
357 381 2.299013 ACGGAAGAAGAAAAATTGGGGC 59.701 45.455 0.00 0.00 0.00 5.80
358 382 4.306600 CAACGGAAGAAGAAAAATTGGGG 58.693 43.478 0.00 0.00 0.00 4.96
359 383 4.306600 CCAACGGAAGAAGAAAAATTGGG 58.693 43.478 0.00 0.00 33.25 4.12
361 385 3.425193 CGCCAACGGAAGAAGAAAAATTG 59.575 43.478 0.00 0.00 34.97 2.32
362 386 3.316868 TCGCCAACGGAAGAAGAAAAATT 59.683 39.130 0.00 0.00 40.63 1.82
363 387 2.882137 TCGCCAACGGAAGAAGAAAAAT 59.118 40.909 0.00 0.00 40.63 1.82
371 398 2.508439 GCGATCGCCAACGGAAGA 60.508 61.111 29.48 0.00 40.63 2.87
434 465 2.283529 TTGGGAGAGCGACTGGGAC 61.284 63.158 0.00 0.00 0.00 4.46
503 535 3.925238 GGCAGCGGTTATGCGACG 61.925 66.667 0.00 0.00 44.80 5.12
520 557 0.659427 CCATGCATGTAACAGAGGCG 59.341 55.000 24.58 2.03 0.00 5.52
544 581 1.089920 GCCATGTCTTGACGCATCTT 58.910 50.000 0.00 0.00 0.00 2.40
773 810 0.316841 GATGAGGATGACGGAGCTCC 59.683 60.000 23.79 23.79 0.00 4.70
803 840 4.349930 GTGGGCAGTTATTTATAGGGGAGA 59.650 45.833 0.00 0.00 0.00 3.71
858 895 2.182791 CTCGATCGGCTGCTGTGT 59.817 61.111 16.41 0.00 0.00 3.72
964 1013 1.875813 CTAGCAGAGCAGCGAACGG 60.876 63.158 0.00 0.00 40.15 4.44
989 1038 1.587088 GCCGCCATTTGCTGAATCG 60.587 57.895 0.00 0.00 38.05 3.34
1083 1132 3.050275 GCGTCCTTGGCTTTCGCT 61.050 61.111 0.00 0.00 42.88 4.93
1122 1171 0.388520 CGACGTTGCAGGTCATCTCA 60.389 55.000 16.99 0.00 32.93 3.27
1320 1369 2.994995 TGCGTGGACAGGATCGGT 60.995 61.111 0.00 0.00 0.00 4.69
1392 1441 0.180171 CGTCCTTGATGGTGGGCATA 59.820 55.000 0.00 0.00 37.07 3.14
1470 1519 1.451927 GGAATGCCATCGAGTGCCA 60.452 57.895 6.50 0.00 0.00 4.92
1491 1540 4.019174 CTGCCACCCAAGATTAGTTGATT 58.981 43.478 0.00 0.00 0.00 2.57
1528 1577 3.638627 TGGATCGATCAATCAGTAGCTGT 59.361 43.478 25.93 0.00 32.61 4.40
2005 2075 1.971167 GGCCCAGTCGTCATTGCAA 60.971 57.895 0.00 0.00 0.00 4.08
2155 2234 0.175073 GCCCGAAGTAACACTCCGAT 59.825 55.000 0.00 0.00 0.00 4.18
2164 2243 1.337447 CGAAGGTTGAGCCCGAAGTAA 60.337 52.381 0.00 0.00 38.26 2.24
2425 2513 1.006571 GCGGACGAACTGGAACTGA 60.007 57.895 0.00 0.00 0.00 3.41
2767 2874 3.991536 GAGCTCCTCGAACGTGCCC 62.992 68.421 0.87 0.00 0.00 5.36
2992 3105 6.245890 ACCAAAATTTTCAACAAGGGATCA 57.754 33.333 0.00 0.00 0.00 2.92
2996 3109 6.320944 CAACAACCAAAATTTTCAACAAGGG 58.679 36.000 0.00 0.10 0.00 3.95
3000 3114 4.142816 CGGCAACAACCAAAATTTTCAACA 60.143 37.500 0.00 0.00 0.00 3.33
3032 3146 4.159244 ACTGCTACTGCTACTACTAGCT 57.841 45.455 0.00 0.00 45.20 3.32
3160 5154 4.826733 AGACAAGCACATCAACCATTAACA 59.173 37.500 0.00 0.00 0.00 2.41
3224 5235 1.339929 GTTTTGGAGGCATGTTCCGTT 59.660 47.619 12.02 0.00 37.54 4.44
3256 5268 9.250624 GGAAATATCTTGCAAGTACAGTACTAG 57.749 37.037 25.19 7.67 38.26 2.57
3295 5621 2.815647 GCTGGTGTCGGCTAGTGC 60.816 66.667 0.00 0.00 41.88 4.40
3310 5636 2.560542 CAATCGGCCTCTAGTCTATGCT 59.439 50.000 0.00 0.00 0.00 3.79
3330 5656 6.662755 ACAGCAGGATAATGAGGAAATAACA 58.337 36.000 0.00 0.00 0.00 2.41
3331 5657 7.420800 CAACAGCAGGATAATGAGGAAATAAC 58.579 38.462 0.00 0.00 0.00 1.89
3334 5670 4.891756 CCAACAGCAGGATAATGAGGAAAT 59.108 41.667 0.00 0.00 0.00 2.17
3339 5675 1.952296 GGCCAACAGCAGGATAATGAG 59.048 52.381 0.00 0.00 46.50 2.90
3372 5708 2.630580 GACCTCTCACAGAACACTTCCT 59.369 50.000 0.00 0.00 0.00 3.36
3373 5709 2.608261 CGACCTCTCACAGAACACTTCC 60.608 54.545 0.00 0.00 0.00 3.46
3374 5710 2.034812 ACGACCTCTCACAGAACACTTC 59.965 50.000 0.00 0.00 0.00 3.01
3375 5711 2.032620 ACGACCTCTCACAGAACACTT 58.967 47.619 0.00 0.00 0.00 3.16
3376 5712 1.693627 ACGACCTCTCACAGAACACT 58.306 50.000 0.00 0.00 0.00 3.55
3377 5713 2.128035 CAACGACCTCTCACAGAACAC 58.872 52.381 0.00 0.00 0.00 3.32
3378 5714 1.538204 GCAACGACCTCTCACAGAACA 60.538 52.381 0.00 0.00 0.00 3.18
3379 5715 1.140816 GCAACGACCTCTCACAGAAC 58.859 55.000 0.00 0.00 0.00 3.01
3380 5716 1.040646 AGCAACGACCTCTCACAGAA 58.959 50.000 0.00 0.00 0.00 3.02
3381 5717 0.315251 CAGCAACGACCTCTCACAGA 59.685 55.000 0.00 0.00 0.00 3.41
3391 5727 0.931662 CAACAAGCAGCAGCAACGAC 60.932 55.000 3.17 0.00 45.49 4.34
3406 5742 5.136828 TCCTCTTGCTAACATTTTCCAACA 58.863 37.500 0.00 0.00 0.00 3.33
3415 5751 1.195115 TCCGCTCCTCTTGCTAACAT 58.805 50.000 0.00 0.00 0.00 2.71
3432 5809 2.412847 GCTATATCACGCGGCAAATTCC 60.413 50.000 12.47 0.00 0.00 3.01
3438 5815 0.603065 ATGAGCTATATCACGCGGCA 59.397 50.000 12.47 0.00 30.46 5.69
3462 5839 1.901085 GCCTCGACCCAATCTCAGT 59.099 57.895 0.00 0.00 0.00 3.41
3463 5840 1.227089 CGCCTCGACCCAATCTCAG 60.227 63.158 0.00 0.00 0.00 3.35
3464 5841 2.721167 CCGCCTCGACCCAATCTCA 61.721 63.158 0.00 0.00 0.00 3.27
3465 5842 2.107141 CCGCCTCGACCCAATCTC 59.893 66.667 0.00 0.00 0.00 2.75
3466 5843 4.162690 GCCGCCTCGACCCAATCT 62.163 66.667 0.00 0.00 0.00 2.40
3467 5844 3.840102 TATTGCCGCCTCGACCCAATC 62.840 57.143 0.00 0.00 0.00 2.67
3468 5845 1.978455 TATTGCCGCCTCGACCCAAT 61.978 55.000 0.00 0.00 0.00 3.16
3469 5846 2.186602 TTATTGCCGCCTCGACCCAA 62.187 55.000 0.00 0.00 0.00 4.12
3470 5847 1.978455 ATTATTGCCGCCTCGACCCA 61.978 55.000 0.00 0.00 0.00 4.51
3471 5848 0.818040 AATTATTGCCGCCTCGACCC 60.818 55.000 0.00 0.00 0.00 4.46
3472 5849 0.307760 CAATTATTGCCGCCTCGACC 59.692 55.000 0.00 0.00 0.00 4.79
3473 5850 1.261619 CTCAATTATTGCCGCCTCGAC 59.738 52.381 0.00 0.00 0.00 4.20
3474 5851 1.581934 CTCAATTATTGCCGCCTCGA 58.418 50.000 0.00 0.00 0.00 4.04
3475 5852 0.588252 CCTCAATTATTGCCGCCTCG 59.412 55.000 0.00 0.00 0.00 4.63
3476 5853 0.312102 GCCTCAATTATTGCCGCCTC 59.688 55.000 0.00 0.00 0.00 4.70
3477 5854 1.447317 CGCCTCAATTATTGCCGCCT 61.447 55.000 0.00 0.00 0.00 5.52
3478 5855 1.008538 CGCCTCAATTATTGCCGCC 60.009 57.895 0.00 0.00 0.00 6.13
3479 5856 0.317020 GACGCCTCAATTATTGCCGC 60.317 55.000 0.00 3.38 0.00 6.53
3480 5857 0.307760 GGACGCCTCAATTATTGCCG 59.692 55.000 0.00 5.66 0.00 5.69
3481 5858 0.307760 CGGACGCCTCAATTATTGCC 59.692 55.000 0.00 0.00 0.00 4.52
3517 5914 5.387137 CGTACTTGAAGCAGTAAAAGTCGAC 60.387 44.000 7.70 7.70 34.76 4.20
3519 5916 4.143389 CCGTACTTGAAGCAGTAAAAGTCG 60.143 45.833 0.00 0.00 34.76 4.18
3525 5922 1.670674 CCGCCGTACTTGAAGCAGTAA 60.671 52.381 0.00 0.00 30.86 2.24
3538 5935 1.002142 CACGATCAGATTACCGCCGTA 60.002 52.381 0.00 0.00 0.00 4.02
3629 6026 2.025131 TGTCATGGGCCTGATGATCAAA 60.025 45.455 17.62 5.52 32.53 2.69
3635 6032 1.721664 CGCTTGTCATGGGCCTGATG 61.722 60.000 4.53 5.78 0.00 3.07
3642 6039 3.924238 GCAATACGCTTGTCATGGG 57.076 52.632 0.00 1.70 37.77 4.00
3655 6057 3.057386 CCGGCATGCATGATTTAGCAATA 60.057 43.478 30.64 0.00 44.88 1.90
3703 6108 1.115930 AGCACTGTCTGACGACCCTT 61.116 55.000 2.98 0.00 39.47 3.95
3715 6124 3.290710 ACCATTCAAACAAGAGCACTGT 58.709 40.909 0.00 0.00 0.00 3.55
3717 6126 3.825328 AGACCATTCAAACAAGAGCACT 58.175 40.909 0.00 0.00 0.00 4.40
3752 6165 0.752376 GCAGGTCCGCTCCTACTAGT 60.752 60.000 0.00 0.00 35.87 2.57
3769 6182 0.239082 CGCAGTCAAGAAAGCATGCA 59.761 50.000 21.98 0.00 33.33 3.96


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

AutoCloner maintained by Alex Coulton.