Multiple sequence alignment - TraesCS6B01G317400

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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 TraesCS6B01G317400 chr6B 100.000 3941 0 0 1 3941 565392388 565396328 0.000000e+00 7278.0
1 TraesCS6B01G317400 chr6B 80.783 1712 314 14 1223 2925 63150988 63149283 0.000000e+00 1325.0
2 TraesCS6B01G317400 chr6B 80.473 1439 266 14 1496 2925 63169006 63167574 0.000000e+00 1086.0
3 TraesCS6B01G317400 chr6D 91.155 3957 186 48 54 3941 379047703 379051564 0.000000e+00 5217.0
4 TraesCS6B01G317400 chr6A 92.596 3525 172 43 1 3478 520439884 520443366 0.000000e+00 4981.0
5 TraesCS6B01G317400 chr6A 79.147 422 46 17 3558 3941 520508354 520508771 1.820000e-63 254.0
6 TraesCS6B01G317400 chr6A 83.898 118 10 7 565 676 61868846 61868732 1.940000e-18 104.0
7 TraesCS6B01G317400 chr6A 94.118 68 3 1 3485 3551 520508230 520508297 6.970000e-18 102.0
8 TraesCS6B01G317400 chr5A 85.024 207 24 4 474 675 139831185 139831389 1.860000e-48 204.0
9 TraesCS6B01G317400 chr3D 82.353 170 27 3 489 658 438247223 438247389 1.140000e-30 145.0
10 TraesCS6B01G317400 chr1D 82.667 150 21 4 473 619 237768455 237768308 1.150000e-25 128.0
11 TraesCS6B01G317400 chr1A 97.222 36 0 1 70 105 555594944 555594910 4.250000e-05 60.2
12 TraesCS6B01G317400 chr2B 100.000 29 0 0 506 534 73298870 73298842 2.000000e-03 54.7


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 TraesCS6B01G317400 chr6B 565392388 565396328 3940 False 7278 7278 100.000 1 3941 1 chr6B.!!$F1 3940
1 TraesCS6B01G317400 chr6B 63149283 63150988 1705 True 1325 1325 80.783 1223 2925 1 chr6B.!!$R1 1702
2 TraesCS6B01G317400 chr6B 63167574 63169006 1432 True 1086 1086 80.473 1496 2925 1 chr6B.!!$R2 1429
3 TraesCS6B01G317400 chr6D 379047703 379051564 3861 False 5217 5217 91.155 54 3941 1 chr6D.!!$F1 3887
4 TraesCS6B01G317400 chr6A 520439884 520443366 3482 False 4981 4981 92.596 1 3478 1 chr6A.!!$F1 3477

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
380 386 0.095245 CAAACGCAGCGATCGAACAT 59.905 50.0 24.65 0.0 0.00 2.71 F
758 774 0.096976 CAAAGATAGCCACAACCGCG 59.903 55.0 0.00 0.0 0.00 6.46 F
760 776 0.460284 AAGATAGCCACAACCGCGAG 60.460 55.0 8.23 0.0 0.00 5.03 F
770 786 0.725117 CAACCGCGAGTGGAAATACC 59.275 55.0 8.23 0.0 39.54 2.73 F
2460 2501 0.768622 TGTCTTCATCCGGTTTGGGT 59.231 50.0 0.00 0.0 38.76 4.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1923 1964 0.324275 GGAAGTTGCCAAGGCCCATA 60.324 55.000 8.89 0.0 41.09 2.74 R
2460 2501 0.324285 GCAACCCAAATCCCATTGCA 59.676 50.000 2.54 0.0 44.01 4.08 R
2538 2579 4.843728 TGTTCATGAGGAAACTACCATCC 58.156 43.478 0.00 0.0 44.43 3.51 R
2847 2888 3.002583 TGCTCCTGATGCGGGACA 61.003 61.111 0.00 0.0 33.41 4.02 R
3874 3957 0.109723 TTCCACCGGAAACCTGGAAG 59.890 55.000 17.18 0.0 38.93 3.46 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
367 373 0.442699 GGACTGAACCGATCAAACGC 59.557 55.000 0.00 0.00 37.67 4.84
376 382 2.288013 GATCAAACGCAGCGATCGA 58.712 52.632 24.65 14.26 0.00 3.59
380 386 0.095245 CAAACGCAGCGATCGAACAT 59.905 50.000 24.65 0.00 0.00 2.71
389 395 1.871408 GCGATCGAACATGGATGAGCT 60.871 52.381 21.57 0.00 0.00 4.09
404 410 1.134431 TGAGCTAAGGCATGCATCGAA 60.134 47.619 21.36 0.68 41.70 3.71
411 417 0.794229 GGCATGCATCGAACAACACG 60.794 55.000 21.36 0.00 0.00 4.49
453 459 0.808847 GTTCGCCCGTAGACCATTCC 60.809 60.000 0.00 0.00 0.00 3.01
485 491 1.467678 CCGGAGAGACATAGGGGCTG 61.468 65.000 0.00 0.00 0.00 4.85
487 493 1.478837 CGGAGAGACATAGGGGCTGTA 60.479 57.143 0.00 0.00 0.00 2.74
493 499 2.706190 AGACATAGGGGCTGTATGGTTC 59.294 50.000 10.18 2.24 32.94 3.62
542 548 6.374333 GTCACACCTCATCTTAGGCAAATTTA 59.626 38.462 0.00 0.00 40.62 1.40
548 554 8.689972 ACCTCATCTTAGGCAAATTTAATCAAG 58.310 33.333 0.00 0.00 40.62 3.02
567 573 7.833285 ATCAAGTTATGTAGGTGTTTGGTTT 57.167 32.000 0.00 0.00 0.00 3.27
596 602 8.862550 CCACATCTAAGGCAAGATTTATTTTC 57.137 34.615 0.07 0.00 33.87 2.29
619 627 2.308570 TGAGCAGTGAACCCCATATGTT 59.691 45.455 1.24 0.00 0.00 2.71
676 688 7.524717 AGTCAAACTGTGGCTAACAATTTAT 57.475 32.000 0.47 0.00 41.69 1.40
678 690 9.073475 AGTCAAACTGTGGCTAACAATTTATTA 57.927 29.630 0.47 0.00 41.69 0.98
680 692 9.906660 TCAAACTGTGGCTAACAATTTATTAAG 57.093 29.630 0.47 0.00 36.11 1.85
681 693 9.906660 CAAACTGTGGCTAACAATTTATTAAGA 57.093 29.630 0.47 0.00 36.11 2.10
714 726 9.727859 TTAAGTAAGATAGGTGCAACAAATGTA 57.272 29.630 3.64 0.00 39.98 2.29
754 770 9.099454 GGTATATATAGCAAAGATAGCCACAAC 57.901 37.037 15.49 0.00 0.00 3.32
756 772 1.453155 AGCAAAGATAGCCACAACCG 58.547 50.000 0.00 0.00 0.00 4.44
757 773 0.179163 GCAAAGATAGCCACAACCGC 60.179 55.000 0.00 0.00 0.00 5.68
758 774 0.096976 CAAAGATAGCCACAACCGCG 59.903 55.000 0.00 0.00 0.00 6.46
760 776 0.460284 AAGATAGCCACAACCGCGAG 60.460 55.000 8.23 0.00 0.00 5.03
761 777 1.153628 GATAGCCACAACCGCGAGT 60.154 57.895 8.23 0.00 0.00 4.18
766 782 3.725819 CACAACCGCGAGTGGAAA 58.274 55.556 8.23 0.00 32.24 3.13
767 783 2.244000 CACAACCGCGAGTGGAAAT 58.756 52.632 8.23 0.00 32.24 2.17
768 784 1.434555 CACAACCGCGAGTGGAAATA 58.565 50.000 8.23 0.00 32.24 1.40
769 785 1.127951 CACAACCGCGAGTGGAAATAC 59.872 52.381 8.23 0.00 32.24 1.89
770 786 0.725117 CAACCGCGAGTGGAAATACC 59.275 55.000 8.23 0.00 39.54 2.73
800 833 4.464947 AGATCTCTGGTCATATCACACGA 58.535 43.478 0.00 0.00 0.00 4.35
816 849 4.759693 TCACACGAGTCCAAATTAATTGCT 59.240 37.500 0.39 0.00 37.73 3.91
826 859 7.442062 AGTCCAAATTAATTGCTTTGTTTGAGG 59.558 33.333 0.39 0.00 37.73 3.86
827 860 7.226523 GTCCAAATTAATTGCTTTGTTTGAGGT 59.773 33.333 0.39 0.00 37.73 3.85
1284 1322 2.404995 CGACGTCTTCGCCTACCCT 61.405 63.158 14.70 0.00 41.87 4.34
1923 1964 5.546499 TGGGATTCCAGTTACAACTACTCTT 59.454 40.000 4.80 0.00 38.32 2.85
1947 1988 1.153756 CCTTGGCAACTTCCCCAGT 59.846 57.895 0.00 0.00 37.30 4.00
1974 2015 1.740664 ACTGTCTCTGCGCATGCTG 60.741 57.895 12.24 10.56 43.34 4.41
2064 2105 1.393539 CGGTTTGATGATCGTGTGACC 59.606 52.381 0.00 0.00 0.00 4.02
2448 2489 2.031012 CGGCAGTGGCTGTCTTCA 59.969 61.111 15.48 0.00 41.67 3.02
2451 2492 1.028868 GGCAGTGGCTGTCTTCATCC 61.029 60.000 9.90 0.00 40.87 3.51
2460 2501 0.768622 TGTCTTCATCCGGTTTGGGT 59.231 50.000 0.00 0.00 38.76 4.51
2538 2579 5.009510 TGTTACAGTTGTTGACATTGATGGG 59.990 40.000 0.00 0.00 0.00 4.00
2847 2888 5.079643 GGGCCATACTTGTTGGATATCATT 58.920 41.667 4.39 0.00 36.26 2.57
3013 3054 3.367932 CCTGCGTGTTGTATCAACTACTG 59.632 47.826 12.66 6.94 33.21 2.74
3091 3132 3.641648 TGTGTTACTTAGTTCCGAACCG 58.358 45.455 7.68 0.11 0.00 4.44
3108 3149 4.380974 CGAACCGTGTAGTTTTGTAGTCTC 59.619 45.833 0.00 0.00 0.00 3.36
3231 3272 6.912051 TGTTTTGAATTTCACATCTTCTCACG 59.088 34.615 0.00 0.00 0.00 4.35
3267 3308 6.016610 TGGTTCCTTTCTGTTACTTTACATGC 60.017 38.462 0.00 0.00 0.00 4.06
3300 3341 4.444388 CAGGTTATGACATAACGACCGATG 59.556 45.833 24.98 15.26 44.65 3.84
3301 3342 3.739300 GGTTATGACATAACGACCGATGG 59.261 47.826 24.98 0.00 44.65 3.51
3302 3343 4.500205 GGTTATGACATAACGACCGATGGA 60.500 45.833 24.98 0.00 44.65 3.41
3303 3344 2.863401 TGACATAACGACCGATGGAG 57.137 50.000 0.00 0.00 0.00 3.86
3304 3345 1.407618 TGACATAACGACCGATGGAGG 59.592 52.381 0.00 0.00 37.30 4.30
3305 3346 1.679680 GACATAACGACCGATGGAGGA 59.320 52.381 0.00 0.00 34.73 3.71
3306 3347 2.296471 GACATAACGACCGATGGAGGAT 59.704 50.000 0.00 0.00 34.73 3.24
3307 3348 2.698797 ACATAACGACCGATGGAGGATT 59.301 45.455 0.00 0.00 34.73 3.01
3322 3363 2.610859 ATTGGAGGGTGGTCGGCT 60.611 61.111 0.00 0.00 0.00 5.52
3346 3387 4.278919 GGTTTTAGACGGGGAATTGAAACA 59.721 41.667 0.00 0.00 0.00 2.83
3352 3393 5.538118 AGACGGGGAATTGAAACATTTTTC 58.462 37.500 0.00 0.00 41.49 2.29
3381 3428 4.510167 AATCTGAATACAGTTGGGAGGG 57.490 45.455 0.00 0.00 43.81 4.30
3382 3429 2.196595 TCTGAATACAGTTGGGAGGGG 58.803 52.381 0.00 0.00 43.81 4.79
3387 3434 3.669939 ATACAGTTGGGAGGGGAAATG 57.330 47.619 0.00 0.00 0.00 2.32
3419 3476 0.965866 TATCGAGCCCGCTATCCAGG 60.966 60.000 0.00 0.00 35.37 4.45
3474 3531 4.581309 TGGCATTCTTCTCTTCCTTGAT 57.419 40.909 0.00 0.00 0.00 2.57
3495 3552 0.260230 TCCGGCTTGAGAGGAGAGAT 59.740 55.000 0.00 0.00 0.00 2.75
3496 3553 1.118838 CCGGCTTGAGAGGAGAGATT 58.881 55.000 0.00 0.00 0.00 2.40
3555 3612 5.981315 GCATTTTGAGAGAGAGAGAGAGATG 59.019 44.000 0.00 0.00 0.00 2.90
3556 3613 6.406177 GCATTTTGAGAGAGAGAGAGAGATGT 60.406 42.308 0.00 0.00 0.00 3.06
3567 3624 3.070734 AGAGAGAGATGTTGCAACTGTGT 59.929 43.478 28.61 16.45 0.00 3.72
3577 3634 3.229276 TGCAACTGTGTTTTGTCTTGG 57.771 42.857 0.00 0.00 0.00 3.61
3578 3635 2.560542 TGCAACTGTGTTTTGTCTTGGT 59.439 40.909 0.00 0.00 0.00 3.67
3590 3647 3.552132 TGTCTTGGTTGCTTGTACAGA 57.448 42.857 0.00 0.00 0.00 3.41
3593 3650 4.127171 GTCTTGGTTGCTTGTACAGAGAA 58.873 43.478 0.00 0.00 0.00 2.87
3597 3654 4.380531 TGGTTGCTTGTACAGAGAAAGAG 58.619 43.478 0.00 0.00 0.00 2.85
3598 3655 4.100963 TGGTTGCTTGTACAGAGAAAGAGA 59.899 41.667 0.00 0.00 0.00 3.10
3599 3656 5.221722 TGGTTGCTTGTACAGAGAAAGAGAT 60.222 40.000 0.00 0.00 0.00 2.75
3606 3663 7.118971 GCTTGTACAGAGAAAGAGATGACATTT 59.881 37.037 0.00 0.00 0.00 2.32
3616 3673 9.709495 AGAAAGAGATGACATTTAGAGATATGC 57.291 33.333 0.00 0.00 0.00 3.14
3640 3697 0.384230 CGTTTACCAGTTGTGCTGCG 60.384 55.000 0.00 0.00 43.71 5.18
3641 3698 0.661020 GTTTACCAGTTGTGCTGCGT 59.339 50.000 0.00 0.00 43.71 5.24
3664 3727 7.901377 GCGTTTATTCGTACTGATTGTTGTTAT 59.099 33.333 0.00 0.00 0.00 1.89
3805 3888 2.884012 TGTTTCATAGGTGTGCAGTTGG 59.116 45.455 0.00 0.00 0.00 3.77
3818 3901 1.135402 GCAGTTGGTAATGAAAGGCGG 60.135 52.381 0.00 0.00 0.00 6.13
3893 3977 0.109723 CTTCCAGGTTTCCGGTGGAA 59.890 55.000 19.27 19.27 46.01 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
104 105 6.430925 ACACATGTCTACTTTTGCACATATGT 59.569 34.615 1.41 1.41 33.14 2.29
278 284 7.892778 TTTTTGCTAGTTTTCTTCGGTTTTT 57.107 28.000 0.00 0.00 0.00 1.94
334 340 4.939439 GGTTCAGTCCGGCTTTCTTTATTA 59.061 41.667 0.00 0.00 0.00 0.98
358 364 0.645355 TTCGATCGCTGCGTTTGATC 59.355 50.000 22.48 15.60 36.11 2.92
362 368 0.095245 CATGTTCGATCGCTGCGTTT 59.905 50.000 22.48 10.91 0.00 3.60
367 373 1.791204 CTCATCCATGTTCGATCGCTG 59.209 52.381 11.09 5.12 0.00 5.18
376 382 3.220110 CATGCCTTAGCTCATCCATGTT 58.780 45.455 0.00 0.00 40.80 2.71
380 386 0.547553 TGCATGCCTTAGCTCATCCA 59.452 50.000 16.68 0.00 40.80 3.41
389 395 2.161410 GTGTTGTTCGATGCATGCCTTA 59.839 45.455 16.68 0.00 0.00 2.69
404 410 2.263153 GGCCAATTAGCCGTGTTGT 58.737 52.632 0.00 0.00 44.57 3.32
453 459 1.530293 CTCTCCGGTACCGATTCGTAG 59.470 57.143 35.41 19.78 42.83 3.51
493 499 2.026262 AGTGTGGCAAGGTATGGTTAGG 60.026 50.000 0.00 0.00 0.00 2.69
508 514 2.036958 TGAGGTGTGACAAAGTGTGG 57.963 50.000 0.00 0.00 0.00 4.17
542 548 7.833285 AACCAAACACCTACATAACTTGATT 57.167 32.000 0.00 0.00 0.00 2.57
548 554 6.016108 TGGCTAAAACCAAACACCTACATAAC 60.016 38.462 0.00 0.00 36.55 1.89
552 558 3.633065 GTGGCTAAAACCAAACACCTACA 59.367 43.478 0.00 0.00 42.70 2.74
555 561 2.741145 TGTGGCTAAAACCAAACACCT 58.259 42.857 0.00 0.00 42.70 4.00
591 597 2.519013 GGGTTCACTGCTCAGGAAAAT 58.481 47.619 1.66 0.00 0.00 1.82
596 602 0.911769 TATGGGGTTCACTGCTCAGG 59.088 55.000 1.66 0.00 0.00 3.86
648 656 6.371809 TTGTTAGCCACAGTTTGACTAAAG 57.628 37.500 0.00 0.00 36.48 1.85
651 659 6.952773 AAATTGTTAGCCACAGTTTGACTA 57.047 33.333 6.38 0.00 42.20 2.59
682 694 9.953565 TGTTGCACCTATCTTACTTAAGTTAAT 57.046 29.630 14.49 7.73 34.93 1.40
683 695 9.781633 TTGTTGCACCTATCTTACTTAAGTTAA 57.218 29.630 14.49 5.52 34.93 2.01
684 696 9.781633 TTTGTTGCACCTATCTTACTTAAGTTA 57.218 29.630 14.49 3.46 34.93 2.24
685 697 8.685838 TTTGTTGCACCTATCTTACTTAAGTT 57.314 30.769 14.49 0.00 34.93 2.66
686 698 8.730680 CATTTGTTGCACCTATCTTACTTAAGT 58.269 33.333 13.68 13.68 34.93 2.24
689 701 9.378551 CTACATTTGTTGCACCTATCTTACTTA 57.621 33.333 0.00 0.00 0.00 2.24
705 717 8.900983 ACCACATTATTTTTGCTACATTTGTT 57.099 26.923 0.00 0.00 0.00 2.83
737 753 1.453155 CGGTTGTGGCTATCTTTGCT 58.547 50.000 0.00 0.00 0.00 3.91
738 754 0.179163 GCGGTTGTGGCTATCTTTGC 60.179 55.000 0.00 0.00 0.00 3.68
754 770 0.174845 TCTGGTATTTCCACTCGCGG 59.825 55.000 6.13 0.00 41.93 6.46
756 772 3.050619 CGTATCTGGTATTTCCACTCGC 58.949 50.000 0.00 0.00 41.93 5.03
757 773 4.275196 TCTCGTATCTGGTATTTCCACTCG 59.725 45.833 0.00 0.00 41.93 4.18
758 774 5.769484 TCTCGTATCTGGTATTTCCACTC 57.231 43.478 0.00 0.00 41.93 3.51
760 776 6.207810 AGAGATCTCGTATCTGGTATTTCCAC 59.792 42.308 16.97 0.00 36.57 4.02
761 777 6.207614 CAGAGATCTCGTATCTGGTATTTCCA 59.792 42.308 16.97 0.00 41.44 3.53
770 786 6.597280 TGATATGACCAGAGATCTCGTATCTG 59.403 42.308 16.97 9.26 44.07 2.90
789 822 7.376866 GCAATTAATTTGGACTCGTGTGATATG 59.623 37.037 0.00 0.00 35.75 1.78
800 833 7.442062 CCTCAAACAAAGCAATTAATTTGGACT 59.558 33.333 15.26 0.00 40.05 3.85
1329 1367 1.734655 AGAGGTGGTTGGTGATGACT 58.265 50.000 0.00 0.00 0.00 3.41
1923 1964 0.324275 GGAAGTTGCCAAGGCCCATA 60.324 55.000 8.89 0.00 41.09 2.74
1974 2015 2.043652 ACAGTGCCATGCATCCCC 60.044 61.111 0.00 0.00 41.91 4.81
2064 2105 1.732405 GCAAAAGCCTCGATTTTCCCG 60.732 52.381 0.00 0.00 28.31 5.14
2448 2489 1.257055 CCATTGCACCCAAACCGGAT 61.257 55.000 9.46 0.00 36.56 4.18
2451 2492 1.257055 ATCCCATTGCACCCAAACCG 61.257 55.000 0.00 0.00 34.05 4.44
2460 2501 0.324285 GCAACCCAAATCCCATTGCA 59.676 50.000 2.54 0.00 44.01 4.08
2538 2579 4.843728 TGTTCATGAGGAAACTACCATCC 58.156 43.478 0.00 0.00 44.43 3.51
2847 2888 3.002583 TGCTCCTGATGCGGGACA 61.003 61.111 0.00 0.00 33.41 4.02
2898 2939 3.392285 CACCCTCCATGATCATGTCCTTA 59.608 47.826 29.23 11.76 37.11 2.69
2990 3031 2.543777 AGTTGATACAACACGCAGGT 57.456 45.000 15.29 0.00 0.00 4.00
2993 3034 3.322369 CCAGTAGTTGATACAACACGCA 58.678 45.455 15.29 0.00 36.79 5.24
3091 3132 7.427214 AGAGAACAGAGACTACAAAACTACAC 58.573 38.462 0.00 0.00 0.00 2.90
3108 3149 4.154918 GCACATCCCTACAAAAGAGAACAG 59.845 45.833 0.00 0.00 0.00 3.16
3180 3221 7.555554 AGAACTGAGAATTATTCCATGGAAGTG 59.444 37.037 29.98 14.35 37.56 3.16
3231 3272 1.680338 AAGGAACCAGCACACTGTTC 58.320 50.000 0.00 0.00 42.81 3.18
3300 3341 1.915983 GACCACCCTCCAATCCTCC 59.084 63.158 0.00 0.00 0.00 4.30
3301 3342 1.522569 CGACCACCCTCCAATCCTC 59.477 63.158 0.00 0.00 0.00 3.71
3302 3343 1.995626 CCGACCACCCTCCAATCCT 60.996 63.158 0.00 0.00 0.00 3.24
3303 3344 2.590092 CCGACCACCCTCCAATCC 59.410 66.667 0.00 0.00 0.00 3.01
3304 3345 2.124695 GCCGACCACCCTCCAATC 60.125 66.667 0.00 0.00 0.00 2.67
3305 3346 2.610859 AGCCGACCACCCTCCAAT 60.611 61.111 0.00 0.00 0.00 3.16
3306 3347 3.636231 CAGCCGACCACCCTCCAA 61.636 66.667 0.00 0.00 0.00 3.53
3322 3363 3.791953 TCAATTCCCCGTCTAAAACCA 57.208 42.857 0.00 0.00 0.00 3.67
3352 3393 6.094603 CCCAACTGTATTCAGATTTCTTCCAG 59.905 42.308 6.32 0.00 43.76 3.86
3381 3428 8.125448 GCTCGATAAATATATGCTTCCATTTCC 58.875 37.037 0.00 0.00 32.85 3.13
3382 3429 8.125448 GGCTCGATAAATATATGCTTCCATTTC 58.875 37.037 0.00 0.00 32.85 2.17
3387 3434 4.508124 CGGGCTCGATAAATATATGCTTCC 59.492 45.833 0.00 0.00 39.00 3.46
3419 3476 7.625553 CACTGTCTAGTGCTTGATAAATTAGC 58.374 38.462 0.00 0.00 46.93 3.09
3474 3531 1.495148 TCTCTCCTCTCAAGCCGGATA 59.505 52.381 5.05 0.00 0.00 2.59
3495 3552 1.148273 AACACAGCCGAAGCCTCAA 59.852 52.632 0.00 0.00 41.25 3.02
3496 3553 1.597854 CAACACAGCCGAAGCCTCA 60.598 57.895 0.00 0.00 41.25 3.86
3533 3590 7.549839 CAACATCTCTCTCTCTCTCTCAAAAT 58.450 38.462 0.00 0.00 0.00 1.82
3542 3599 4.175516 CAGTTGCAACATCTCTCTCTCTC 58.824 47.826 30.11 0.00 0.00 3.20
3555 3612 3.367630 CCAAGACAAAACACAGTTGCAAC 59.632 43.478 22.17 22.17 0.00 4.17
3556 3613 3.006323 ACCAAGACAAAACACAGTTGCAA 59.994 39.130 0.00 0.00 0.00 4.08
3567 3624 4.702612 TCTGTACAAGCAACCAAGACAAAA 59.297 37.500 0.00 0.00 0.00 2.44
3577 3634 5.928839 TCATCTCTTTCTCTGTACAAGCAAC 59.071 40.000 0.00 0.00 0.00 4.17
3578 3635 5.928839 GTCATCTCTTTCTCTGTACAAGCAA 59.071 40.000 0.00 0.00 0.00 3.91
3590 3647 9.709495 GCATATCTCTAAATGTCATCTCTTTCT 57.291 33.333 0.00 0.00 0.00 2.52
3593 3650 8.868103 TCTGCATATCTCTAAATGTCATCTCTT 58.132 33.333 0.00 0.00 0.00 2.85
3597 3654 7.758980 ACGATCTGCATATCTCTAAATGTCATC 59.241 37.037 10.05 0.00 0.00 2.92
3598 3655 7.609960 ACGATCTGCATATCTCTAAATGTCAT 58.390 34.615 10.05 0.00 0.00 3.06
3599 3656 6.986250 ACGATCTGCATATCTCTAAATGTCA 58.014 36.000 10.05 0.00 0.00 3.58
3606 3663 6.490381 ACTGGTAAACGATCTGCATATCTCTA 59.510 38.462 10.05 0.00 0.00 2.43
3616 3673 3.067106 AGCACAACTGGTAAACGATCTG 58.933 45.455 0.00 0.00 0.00 2.90
3805 3888 1.654023 AAGCCGCCGCCTTTCATTAC 61.654 55.000 0.00 0.00 34.57 1.89
3818 3901 1.985684 CTTTCGGAAATTTCAAGCCGC 59.014 47.619 19.49 0.55 43.26 6.53
3874 3957 0.109723 TTCCACCGGAAACCTGGAAG 59.890 55.000 17.18 0.00 38.93 3.46
3875 3958 0.179012 GTTCCACCGGAAACCTGGAA 60.179 55.000 17.18 17.18 43.86 3.53
3893 3977 2.902705 TTGGCTCAACGTAGACTTGT 57.097 45.000 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.