Multiple sequence alignment - TraesCS6D01G230900

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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 TraesCS6D01G230900 chr6D 100.000 3623 0 0 1 3623 324516890 324513268 0.000000e+00 6691
1 TraesCS6D01G230900 chr6A 95.989 2817 83 13 391 3197 461834699 461831903 0.000000e+00 4549
2 TraesCS6D01G230900 chr6A 96.560 436 13 2 3189 3623 461826649 461826215 0.000000e+00 721
3 TraesCS6D01G230900 chr6A 92.412 369 19 2 1 361 461835066 461834699 5.360000e-143 518
4 TraesCS6D01G230900 chr6B 94.816 2855 115 9 609 3446 499020921 499023759 0.000000e+00 4421
5 TraesCS6D01G230900 chr6B 84.327 587 56 17 11 588 499020321 499020880 3.180000e-150 542
6 TraesCS6D01G230900 chr6B 92.896 183 11 1 3440 3620 499050679 499050861 7.710000e-67 265
7 TraesCS6D01G230900 chr3A 88.347 369 26 12 1 361 108914143 108913784 9.300000e-116 427
8 TraesCS6D01G230900 chr3A 89.641 251 11 8 405 651 108910360 108910121 4.540000e-79 305
9 TraesCS6D01G230900 chr3A 98.361 122 2 0 660 781 108909115 108908994 7.880000e-52 215
10 TraesCS6D01G230900 chr2D 87.500 104 13 0 2048 2151 524965455 524965352 1.770000e-23 121
11 TraesCS6D01G230900 chr2B 87.500 104 13 0 2048 2151 621063287 621063184 1.770000e-23 121


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 TraesCS6D01G230900 chr6D 324513268 324516890 3622 True 6691.000000 6691 100.000000 1 3623 1 chr6D.!!$R1 3622
1 TraesCS6D01G230900 chr6A 461831903 461835066 3163 True 2533.500000 4549 94.200500 1 3197 2 chr6A.!!$R2 3196
2 TraesCS6D01G230900 chr6B 499020321 499023759 3438 False 2481.500000 4421 89.571500 11 3446 2 chr6B.!!$F2 3435
3 TraesCS6D01G230900 chr3A 108908994 108914143 5149 True 315.666667 427 92.116333 1 781 3 chr3A.!!$R1 780

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
367 378 0.884514 TGATCGATCTGGATCCGCTC 59.115 55.000 25.02 2.65 41.71 5.03 F
1287 5765 1.528586 GACGATGATTTGGATGGCTCG 59.471 52.381 0.00 0.00 0.00 5.03 F
1926 6404 0.955919 CCACAGAAGGAAAGACGGGC 60.956 60.000 0.00 0.00 0.00 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1908 6386 0.250295 TGCCCGTCTTTCCTTCTGTG 60.250 55.0 0.00 0.0 0.0 3.66 R
2184 6671 0.541392 CCATGAGGTGATCGGGAACA 59.459 55.0 0.00 0.0 0.0 3.18 R
3575 8074 0.107831 TGCCACGTAGCTCCTGTTTT 59.892 50.0 7.64 0.0 0.0 2.43 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
52 53 2.029221 GGCGCTAGGGATTCGTCC 59.971 66.667 11.61 0.00 0.00 4.79
254 264 2.456443 GGGAGGGGAGGAGATTGGC 61.456 68.421 0.00 0.00 0.00 4.52
367 378 0.884514 TGATCGATCTGGATCCGCTC 59.115 55.000 25.02 2.65 41.71 5.03
374 385 2.738587 TCTGGATCCGCTCTAGTCTT 57.261 50.000 7.39 0.00 34.25 3.01
376 387 3.366396 TCTGGATCCGCTCTAGTCTTTT 58.634 45.455 7.39 0.00 34.25 2.27
377 388 3.769844 TCTGGATCCGCTCTAGTCTTTTT 59.230 43.478 7.39 0.00 34.25 1.94
602 4083 1.667724 GCAAGCGAGTACTACGGAGTA 59.332 52.381 2.48 2.48 45.11 2.59
816 5293 2.028930 CACCAATATCCGGTCCTAGCTC 60.029 54.545 0.00 0.00 33.25 4.09
849 5327 2.874751 CCATTGCCCGAACGAACC 59.125 61.111 0.00 0.00 0.00 3.62
1287 5765 1.528586 GACGATGATTTGGATGGCTCG 59.471 52.381 0.00 0.00 0.00 5.03
1330 5808 1.912001 TAATAACACCGACGAAGGCG 58.088 50.000 0.00 0.00 44.79 5.52
1420 5898 1.815003 CGCGCCAAGGTGATGATCA 60.815 57.895 0.00 0.00 0.00 2.92
1530 6008 2.101209 CTCGTGTCACGCAACCAACC 62.101 60.000 20.56 0.00 42.21 3.77
1839 6317 3.873801 GCAATGAGACTACCCACCAACAT 60.874 47.826 0.00 0.00 0.00 2.71
1905 6383 2.245028 TGAGGCTGTAGGAGATACCAGT 59.755 50.000 0.00 0.00 42.04 4.00
1908 6386 2.892215 GGCTGTAGGAGATACCAGTACC 59.108 54.545 0.00 0.00 42.04 3.34
1909 6387 3.563223 GCTGTAGGAGATACCAGTACCA 58.437 50.000 0.00 0.00 42.04 3.25
1926 6404 0.955919 CCACAGAAGGAAAGACGGGC 60.956 60.000 0.00 0.00 0.00 6.13
2375 6862 3.649986 GCCGGCGTCCATGTATGC 61.650 66.667 12.58 0.00 0.00 3.14
2382 6869 0.805711 CGTCCATGTATGCGCAGTCA 60.806 55.000 18.32 17.64 0.00 3.41
2592 7079 1.674817 GGCATTTCCTCGTCGGAGAAA 60.675 52.381 11.34 11.34 44.28 2.52
2760 7251 0.679505 ATGGCGTATATGCTCGGTGT 59.320 50.000 16.31 0.00 34.52 4.16
2761 7252 1.320507 TGGCGTATATGCTCGGTGTA 58.679 50.000 16.31 0.00 34.52 2.90
2884 7375 6.954944 TGTAATTATGCAAGTCGGCTTATTC 58.045 36.000 0.00 0.00 32.87 1.75
3000 7499 3.494398 TGCTCCGCAAGAGTTTCTAAACT 60.494 43.478 7.80 7.80 43.19 2.66
3095 7594 5.929697 ACATGTGTGCGATATTTATCTGG 57.070 39.130 0.00 0.00 0.00 3.86
3201 7700 6.657966 ACGGCAGAGTACATATATGTAGCTTA 59.342 38.462 23.03 3.67 43.32 3.09
3230 7729 6.551227 GGGGGCTTCTAAAGAATATGACATTT 59.449 38.462 0.00 0.00 33.01 2.32
3231 7730 7.428826 GGGGCTTCTAAAGAATATGACATTTG 58.571 38.462 0.00 0.00 33.01 2.32
3244 7743 8.846943 AATATGACATTTGTGACTTACAGTGA 57.153 30.769 0.00 0.00 41.10 3.41
3245 7744 9.453572 AATATGACATTTGTGACTTACAGTGAT 57.546 29.630 0.00 0.00 41.10 3.06
3250 7749 6.936335 ACATTTGTGACTTACAGTGATGATGA 59.064 34.615 0.00 0.00 41.10 2.92
3303 7802 6.460399 GGCCTACAATAACAAAGACAACAACA 60.460 38.462 0.00 0.00 0.00 3.33
3357 7856 5.828328 GCTAGTTGAAATTACCCCAAGCTAT 59.172 40.000 0.00 0.00 0.00 2.97
3369 7868 2.036992 CCCAAGCTATCTCTCGCTCAAT 59.963 50.000 0.00 0.00 34.96 2.57
3387 7886 5.504665 GCTCAATCAATGACCTACAAATCCG 60.505 44.000 0.00 0.00 33.47 4.18
3408 7907 3.240861 CGAAAGGCGTCTTAGAAGATTCG 59.759 47.826 0.94 2.65 36.69 3.34
3417 7916 8.267367 GGCGTCTTAGAAGATTCGTATTAAAAG 58.733 37.037 0.00 0.00 37.39 2.27
3431 7930 6.537301 TCGTATTAAAAGAGCGGTCAATTGAT 59.463 34.615 18.15 14.39 0.00 2.57
3446 7945 9.319143 CGGTCAATTGATAAAGAGAAGAGTAAT 57.681 33.333 12.12 0.00 0.00 1.89
3472 7971 9.874205 TTGAATCACTCAAAAGAAAATGAAGTT 57.126 25.926 0.00 0.00 41.21 2.66
3473 7972 9.874205 TGAATCACTCAAAAGAAAATGAAGTTT 57.126 25.926 0.00 0.00 0.00 2.66
3488 7987 8.607441 AAATGAAGTTTTCAGAAAATTAGGGC 57.393 30.769 11.54 0.00 43.98 5.19
3489 7988 6.723298 TGAAGTTTTCAGAAAATTAGGGCA 57.277 33.333 11.54 2.68 33.62 5.36
3490 7989 7.301868 TGAAGTTTTCAGAAAATTAGGGCAT 57.698 32.000 11.54 0.00 33.62 4.40
3491 7990 8.415950 TGAAGTTTTCAGAAAATTAGGGCATA 57.584 30.769 11.54 0.00 33.62 3.14
3492 7991 8.303876 TGAAGTTTTCAGAAAATTAGGGCATAC 58.696 33.333 11.54 0.00 33.62 2.39
3493 7992 7.775053 AGTTTTCAGAAAATTAGGGCATACA 57.225 32.000 11.54 0.00 32.22 2.29
3494 7993 8.189119 AGTTTTCAGAAAATTAGGGCATACAA 57.811 30.769 11.54 0.00 32.22 2.41
3495 7994 8.646900 AGTTTTCAGAAAATTAGGGCATACAAA 58.353 29.630 11.54 0.00 32.22 2.83
3496 7995 9.267084 GTTTTCAGAAAATTAGGGCATACAAAA 57.733 29.630 11.54 0.00 32.22 2.44
3510 8009 9.420118 AGGGCATACAAAATATAACTTTGATGA 57.580 29.630 14.41 3.82 37.25 2.92
3556 8055 3.552132 TGTACAACACATGTGACCACT 57.448 42.857 31.94 6.45 43.77 4.00
3557 8056 3.879998 TGTACAACACATGTGACCACTT 58.120 40.909 31.94 12.63 43.77 3.16
3558 8057 3.874543 TGTACAACACATGTGACCACTTC 59.125 43.478 31.94 14.82 43.77 3.01
3559 8058 1.939934 ACAACACATGTGACCACTTCG 59.060 47.619 31.94 11.91 41.93 3.79
3560 8059 2.209273 CAACACATGTGACCACTTCGA 58.791 47.619 31.94 0.00 0.00 3.71
3561 8060 2.154854 ACACATGTGACCACTTCGAG 57.845 50.000 31.94 1.10 0.00 4.04
3562 8061 1.686587 ACACATGTGACCACTTCGAGA 59.313 47.619 31.94 0.00 0.00 4.04
3563 8062 2.288457 ACACATGTGACCACTTCGAGAG 60.288 50.000 31.94 0.41 0.00 3.20
3564 8063 2.029918 CACATGTGACCACTTCGAGAGA 60.030 50.000 21.64 0.00 39.20 3.10
3580 8079 6.552859 TCGAGAGAATAATTGCACAAAACA 57.447 33.333 0.00 0.00 37.03 2.83
3581 8080 6.602179 TCGAGAGAATAATTGCACAAAACAG 58.398 36.000 0.00 0.00 37.03 3.16
3582 8081 5.796935 CGAGAGAATAATTGCACAAAACAGG 59.203 40.000 0.00 0.00 0.00 4.00
3583 8082 6.348458 CGAGAGAATAATTGCACAAAACAGGA 60.348 38.462 0.00 0.00 0.00 3.86
3584 8083 6.917533 AGAGAATAATTGCACAAAACAGGAG 58.082 36.000 0.00 0.00 0.00 3.69
3585 8084 5.473039 AGAATAATTGCACAAAACAGGAGC 58.527 37.500 0.00 0.00 0.00 4.70
3586 8085 5.244626 AGAATAATTGCACAAAACAGGAGCT 59.755 36.000 0.00 0.00 0.00 4.09
3587 8086 6.434028 AGAATAATTGCACAAAACAGGAGCTA 59.566 34.615 0.00 0.00 0.00 3.32
3588 8087 3.923017 ATTGCACAAAACAGGAGCTAC 57.077 42.857 0.00 0.00 0.00 3.58
3589 8088 1.225855 TGCACAAAACAGGAGCTACG 58.774 50.000 0.00 0.00 0.00 3.51
3590 8089 1.226746 GCACAAAACAGGAGCTACGT 58.773 50.000 0.00 0.00 0.00 3.57
3591 8090 1.069906 GCACAAAACAGGAGCTACGTG 60.070 52.381 0.00 0.00 39.84 4.49
3592 8091 1.531149 CACAAAACAGGAGCTACGTGG 59.469 52.381 0.00 0.00 38.51 4.94
3593 8092 0.517316 CAAAACAGGAGCTACGTGGC 59.483 55.000 17.10 17.10 38.51 5.01
3594 8093 0.107831 AAAACAGGAGCTACGTGGCA 59.892 50.000 26.36 0.00 38.51 4.92
3595 8094 0.320771 AAACAGGAGCTACGTGGCAG 60.321 55.000 26.36 14.34 38.51 4.85
3596 8095 1.185618 AACAGGAGCTACGTGGCAGA 61.186 55.000 26.36 0.00 38.51 4.26
3597 8096 0.972983 ACAGGAGCTACGTGGCAGAT 60.973 55.000 26.36 5.10 38.51 2.90
3598 8097 0.529337 CAGGAGCTACGTGGCAGATG 60.529 60.000 26.36 15.99 34.17 2.90
3599 8098 0.684479 AGGAGCTACGTGGCAGATGA 60.684 55.000 26.36 0.00 34.17 2.92
3600 8099 0.390860 GGAGCTACGTGGCAGATGAT 59.609 55.000 26.36 3.42 34.17 2.45
3601 8100 1.202580 GGAGCTACGTGGCAGATGATT 60.203 52.381 26.36 2.59 34.17 2.57
3602 8101 1.863454 GAGCTACGTGGCAGATGATTG 59.137 52.381 26.36 0.00 34.17 2.67
3603 8102 1.208052 AGCTACGTGGCAGATGATTGT 59.792 47.619 26.36 0.00 34.17 2.71
3604 8103 2.430694 AGCTACGTGGCAGATGATTGTA 59.569 45.455 26.36 0.00 34.17 2.41
3605 8104 3.070159 AGCTACGTGGCAGATGATTGTAT 59.930 43.478 26.36 0.00 34.17 2.29
3606 8105 4.280929 AGCTACGTGGCAGATGATTGTATA 59.719 41.667 26.36 0.00 34.17 1.47
3607 8106 5.047021 AGCTACGTGGCAGATGATTGTATAT 60.047 40.000 26.36 0.00 34.17 0.86
3608 8107 5.639506 GCTACGTGGCAGATGATTGTATATT 59.360 40.000 19.95 0.00 0.00 1.28
3609 8108 6.147821 GCTACGTGGCAGATGATTGTATATTT 59.852 38.462 19.95 0.00 0.00 1.40
3610 8109 6.304356 ACGTGGCAGATGATTGTATATTTG 57.696 37.500 0.00 0.00 0.00 2.32
3611 8110 5.822519 ACGTGGCAGATGATTGTATATTTGT 59.177 36.000 0.00 0.00 0.00 2.83
3612 8111 6.989759 ACGTGGCAGATGATTGTATATTTGTA 59.010 34.615 0.00 0.00 0.00 2.41
3613 8112 7.661437 ACGTGGCAGATGATTGTATATTTGTAT 59.339 33.333 0.00 0.00 0.00 2.29
3614 8113 8.171196 CGTGGCAGATGATTGTATATTTGTATC 58.829 37.037 0.00 0.00 0.00 2.24
3615 8114 8.454106 GTGGCAGATGATTGTATATTTGTATCC 58.546 37.037 0.00 0.00 0.00 2.59
3616 8115 8.162746 TGGCAGATGATTGTATATTTGTATCCA 58.837 33.333 0.00 0.00 0.00 3.41
3617 8116 9.182214 GGCAGATGATTGTATATTTGTATCCAT 57.818 33.333 0.00 0.00 0.00 3.41
3618 8117 9.999009 GCAGATGATTGTATATTTGTATCCATG 57.001 33.333 0.00 0.00 0.00 3.66
3622 8121 9.743581 ATGATTGTATATTTGTATCCATGAGCA 57.256 29.630 0.00 0.00 0.00 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
381 392 4.843728 AGCGGATCCAGATTGTCTAAAAA 58.156 39.130 13.41 0.00 0.00 1.94
382 393 4.162320 AGAGCGGATCCAGATTGTCTAAAA 59.838 41.667 13.41 0.00 0.00 1.52
383 394 3.706594 AGAGCGGATCCAGATTGTCTAAA 59.293 43.478 13.41 0.00 0.00 1.85
384 395 3.300388 AGAGCGGATCCAGATTGTCTAA 58.700 45.455 13.41 0.00 0.00 2.10
385 396 2.950781 AGAGCGGATCCAGATTGTCTA 58.049 47.619 13.41 0.00 0.00 2.59
386 397 1.786937 AGAGCGGATCCAGATTGTCT 58.213 50.000 13.41 0.82 0.00 3.41
387 398 2.625790 ACTAGAGCGGATCCAGATTGTC 59.374 50.000 13.41 0.00 0.00 3.18
388 399 2.625790 GACTAGAGCGGATCCAGATTGT 59.374 50.000 13.41 2.79 0.00 2.71
389 400 2.625314 TGACTAGAGCGGATCCAGATTG 59.375 50.000 13.41 0.00 0.00 2.67
390 401 2.625790 GTGACTAGAGCGGATCCAGATT 59.374 50.000 13.41 0.00 0.00 2.40
457 3905 2.452600 TTTTTGAGTGGAGTGGGCTT 57.547 45.000 0.00 0.00 0.00 4.35
479 3928 8.650143 TGGGCTAATCAACTAAGATTTTCTTT 57.350 30.769 0.00 0.00 37.89 2.52
480 3929 8.689972 CATGGGCTAATCAACTAAGATTTTCTT 58.310 33.333 0.00 0.00 40.35 2.52
481 3930 7.286316 CCATGGGCTAATCAACTAAGATTTTCT 59.714 37.037 2.85 0.00 38.97 2.52
482 3931 7.428826 CCATGGGCTAATCAACTAAGATTTTC 58.571 38.462 2.85 0.00 38.97 2.29
602 4083 4.313282 GCCAAGAAAAAGTACTACTCCGT 58.687 43.478 0.00 0.00 0.00 4.69
603 4084 3.367025 CGCCAAGAAAAAGTACTACTCCG 59.633 47.826 0.00 0.00 0.00 4.63
604 4085 3.124806 GCGCCAAGAAAAAGTACTACTCC 59.875 47.826 0.00 0.00 0.00 3.85
605 4086 3.181533 CGCGCCAAGAAAAAGTACTACTC 60.182 47.826 0.00 0.00 0.00 2.59
606 4087 2.735134 CGCGCCAAGAAAAAGTACTACT 59.265 45.455 0.00 0.00 0.00 2.57
607 4088 2.723923 GCGCGCCAAGAAAAAGTACTAC 60.724 50.000 23.24 0.00 0.00 2.73
608 4089 1.461897 GCGCGCCAAGAAAAAGTACTA 59.538 47.619 23.24 0.00 0.00 1.82
1071 5549 0.602106 CGCCATCATCATCGAAGGCT 60.602 55.000 5.73 0.00 45.50 4.58
1287 5765 3.824510 GGCGACGACGAACGAAGC 61.825 66.667 12.29 14.52 45.77 3.86
1330 5808 0.395862 TCCTCCTCGTCCTCATCCAC 60.396 60.000 0.00 0.00 0.00 4.02
1374 5852 1.701757 TTTCCCCTTGGACCACCCA 60.702 57.895 0.00 0.00 41.57 4.51
1599 6077 2.280797 GAGAGCGGTTGTGGCACA 60.281 61.111 17.96 17.96 0.00 4.57
1905 6383 1.621814 CCCGTCTTTCCTTCTGTGGTA 59.378 52.381 0.00 0.00 0.00 3.25
1908 6386 0.250295 TGCCCGTCTTTCCTTCTGTG 60.250 55.000 0.00 0.00 0.00 3.66
1909 6387 0.472471 TTGCCCGTCTTTCCTTCTGT 59.528 50.000 0.00 0.00 0.00 3.41
1926 6404 2.745884 TTGCCGGCATCGAGGTTG 60.746 61.111 33.25 0.00 39.00 3.77
2184 6671 0.541392 CCATGAGGTGATCGGGAACA 59.459 55.000 0.00 0.00 0.00 3.18
2382 6869 3.965258 TTGCTGTGCCCCGTCCAT 61.965 61.111 0.00 0.00 0.00 3.41
2592 7079 3.759618 CCTCCTGAGTACTCTTCTCGTTT 59.240 47.826 23.01 0.00 34.99 3.60
2737 7228 2.159099 ACCGAGCATATACGCCATATGG 60.159 50.000 18.07 18.07 44.64 2.74
2745 7236 6.578919 CAGCATATATACACCGAGCATATACG 59.421 42.308 0.00 0.00 0.00 3.06
3022 7521 2.970324 GAGTTCCGCCGCAACACA 60.970 61.111 0.00 0.00 0.00 3.72
3095 7594 6.314896 TGGTTTTCATTTTGAAATGTGTCACC 59.685 34.615 14.22 14.82 44.75 4.02
3136 7635 7.580910 AGTATGGTGAGATTGGAATTGAGAAT 58.419 34.615 0.00 0.00 0.00 2.40
3178 7677 9.522804 GAATAAGCTACATATATGTACTCTGCC 57.477 37.037 19.51 6.81 41.97 4.85
3201 7700 3.953542 ATTCTTTAGAAGCCCCCGAAT 57.046 42.857 0.00 0.00 37.48 3.34
3244 7743 6.096001 GCCTCCTTCAAAATAGTTGTCATCAT 59.904 38.462 0.00 0.00 0.00 2.45
3245 7744 5.415701 GCCTCCTTCAAAATAGTTGTCATCA 59.584 40.000 0.00 0.00 0.00 3.07
3250 7749 5.876357 TGTAGCCTCCTTCAAAATAGTTGT 58.124 37.500 0.00 0.00 0.00 3.32
3319 7818 9.836864 AATTTCAACTAGCTTTCCTTCATTTTT 57.163 25.926 0.00 0.00 0.00 1.94
3357 7856 3.170791 GGTCATTGATTGAGCGAGAGA 57.829 47.619 0.00 0.00 42.51 3.10
3369 7868 4.941263 CCTTTCGGATTTGTAGGTCATTGA 59.059 41.667 0.00 0.00 0.00 2.57
3387 7886 4.174762 ACGAATCTTCTAAGACGCCTTTC 58.825 43.478 0.00 0.00 37.98 2.62
3408 7907 9.997482 TTTATCAATTGACCGCTCTTTTAATAC 57.003 29.630 11.07 0.00 0.00 1.89
3417 7916 5.812642 TCTTCTCTTTATCAATTGACCGCTC 59.187 40.000 11.07 0.00 0.00 5.03
3419 7918 5.582665 ACTCTTCTCTTTATCAATTGACCGC 59.417 40.000 11.07 0.00 0.00 5.68
3446 7945 9.874205 AACTTCATTTTCTTTTGAGTGATTCAA 57.126 25.926 0.00 0.00 43.92 2.69
3447 7946 9.874205 AAACTTCATTTTCTTTTGAGTGATTCA 57.126 25.926 0.00 0.00 0.00 2.57
3462 7961 9.056005 GCCCTAATTTTCTGAAAACTTCATTTT 57.944 29.630 17.06 8.80 43.44 1.82
3463 7962 8.210265 TGCCCTAATTTTCTGAAAACTTCATTT 58.790 29.630 17.06 9.43 39.30 2.32
3464 7963 7.734942 TGCCCTAATTTTCTGAAAACTTCATT 58.265 30.769 17.06 10.05 39.30 2.57
3465 7964 7.301868 TGCCCTAATTTTCTGAAAACTTCAT 57.698 32.000 17.06 0.00 39.30 2.57
3466 7965 6.723298 TGCCCTAATTTTCTGAAAACTTCA 57.277 33.333 17.06 7.56 38.17 3.02
3467 7966 8.303876 TGTATGCCCTAATTTTCTGAAAACTTC 58.696 33.333 17.06 5.42 32.37 3.01
3468 7967 8.189119 TGTATGCCCTAATTTTCTGAAAACTT 57.811 30.769 17.06 14.00 32.37 2.66
3469 7968 7.775053 TGTATGCCCTAATTTTCTGAAAACT 57.225 32.000 17.06 9.73 32.37 2.66
3470 7969 8.825667 TTTGTATGCCCTAATTTTCTGAAAAC 57.174 30.769 17.06 5.08 32.37 2.43
3484 7983 9.420118 TCATCAAAGTTATATTTTGTATGCCCT 57.580 29.630 9.00 0.00 36.97 5.19
3536 8035 3.552132 AGTGGTCACATGTGTTGTACA 57.448 42.857 24.63 14.28 44.87 2.90
3537 8036 3.059868 CGAAGTGGTCACATGTGTTGTAC 60.060 47.826 24.63 15.25 36.57 2.90
3538 8037 3.127589 CGAAGTGGTCACATGTGTTGTA 58.872 45.455 24.63 3.12 36.57 2.41
3539 8038 1.939934 CGAAGTGGTCACATGTGTTGT 59.060 47.619 24.63 6.36 39.91 3.32
3540 8039 2.209273 TCGAAGTGGTCACATGTGTTG 58.791 47.619 24.63 9.01 0.00 3.33
3541 8040 2.102420 TCTCGAAGTGGTCACATGTGTT 59.898 45.455 24.63 11.77 0.00 3.32
3542 8041 1.686587 TCTCGAAGTGGTCACATGTGT 59.313 47.619 24.63 4.84 0.00 3.72
3543 8042 2.029918 TCTCTCGAAGTGGTCACATGTG 60.030 50.000 20.18 20.18 0.00 3.21
3544 8043 2.239400 TCTCTCGAAGTGGTCACATGT 58.761 47.619 0.00 0.00 0.00 3.21
3545 8044 3.303881 TTCTCTCGAAGTGGTCACATG 57.696 47.619 3.82 0.00 0.00 3.21
3546 8045 5.661056 TTATTCTCTCGAAGTGGTCACAT 57.339 39.130 3.82 0.00 31.60 3.21
3547 8046 5.661056 ATTATTCTCTCGAAGTGGTCACA 57.339 39.130 3.82 0.00 31.60 3.58
3548 8047 5.220491 GCAATTATTCTCTCGAAGTGGTCAC 60.220 44.000 0.00 0.00 31.60 3.67
3549 8048 4.870426 GCAATTATTCTCTCGAAGTGGTCA 59.130 41.667 0.00 0.00 31.60 4.02
3550 8049 4.870426 TGCAATTATTCTCTCGAAGTGGTC 59.130 41.667 0.00 0.00 31.60 4.02
3551 8050 4.631813 GTGCAATTATTCTCTCGAAGTGGT 59.368 41.667 0.00 0.00 31.60 4.16
3552 8051 4.631377 TGTGCAATTATTCTCTCGAAGTGG 59.369 41.667 0.00 0.00 31.60 4.00
3553 8052 5.784750 TGTGCAATTATTCTCTCGAAGTG 57.215 39.130 0.00 0.00 31.60 3.16
3554 8053 6.801539 TTTGTGCAATTATTCTCTCGAAGT 57.198 33.333 0.00 0.00 31.60 3.01
3555 8054 7.077605 TGTTTTGTGCAATTATTCTCTCGAAG 58.922 34.615 0.00 0.00 31.60 3.79
3556 8055 6.964908 TGTTTTGTGCAATTATTCTCTCGAA 58.035 32.000 0.00 0.00 0.00 3.71
3557 8056 6.348458 CCTGTTTTGTGCAATTATTCTCTCGA 60.348 38.462 0.00 0.00 0.00 4.04
3558 8057 5.796935 CCTGTTTTGTGCAATTATTCTCTCG 59.203 40.000 0.00 0.00 0.00 4.04
3559 8058 6.913170 TCCTGTTTTGTGCAATTATTCTCTC 58.087 36.000 0.00 0.00 0.00 3.20
3560 8059 6.571150 GCTCCTGTTTTGTGCAATTATTCTCT 60.571 38.462 0.00 0.00 0.00 3.10
3561 8060 5.574443 GCTCCTGTTTTGTGCAATTATTCTC 59.426 40.000 0.00 0.00 0.00 2.87
3562 8061 5.244626 AGCTCCTGTTTTGTGCAATTATTCT 59.755 36.000 0.00 0.00 0.00 2.40
3563 8062 5.473039 AGCTCCTGTTTTGTGCAATTATTC 58.527 37.500 0.00 0.00 0.00 1.75
3564 8063 5.473066 AGCTCCTGTTTTGTGCAATTATT 57.527 34.783 0.00 0.00 0.00 1.40
3565 8064 5.391950 CGTAGCTCCTGTTTTGTGCAATTAT 60.392 40.000 0.00 0.00 0.00 1.28
3566 8065 4.083537 CGTAGCTCCTGTTTTGTGCAATTA 60.084 41.667 0.00 0.00 0.00 1.40
3567 8066 3.304659 CGTAGCTCCTGTTTTGTGCAATT 60.305 43.478 0.00 0.00 0.00 2.32
3568 8067 2.226437 CGTAGCTCCTGTTTTGTGCAAT 59.774 45.455 0.00 0.00 0.00 3.56
3569 8068 1.601903 CGTAGCTCCTGTTTTGTGCAA 59.398 47.619 0.00 0.00 0.00 4.08
3570 8069 1.225855 CGTAGCTCCTGTTTTGTGCA 58.774 50.000 0.00 0.00 0.00 4.57
3571 8070 1.069906 CACGTAGCTCCTGTTTTGTGC 60.070 52.381 0.00 0.00 0.00 4.57
3572 8071 1.531149 CCACGTAGCTCCTGTTTTGTG 59.469 52.381 0.00 0.00 0.00 3.33
3573 8072 1.878953 CCACGTAGCTCCTGTTTTGT 58.121 50.000 0.00 0.00 0.00 2.83
3574 8073 0.517316 GCCACGTAGCTCCTGTTTTG 59.483 55.000 0.00 0.00 0.00 2.44
3575 8074 0.107831 TGCCACGTAGCTCCTGTTTT 59.892 50.000 7.64 0.00 0.00 2.43
3576 8075 0.320771 CTGCCACGTAGCTCCTGTTT 60.321 55.000 7.64 0.00 0.00 2.83
3577 8076 1.185618 TCTGCCACGTAGCTCCTGTT 61.186 55.000 7.64 0.00 0.00 3.16
3578 8077 0.972983 ATCTGCCACGTAGCTCCTGT 60.973 55.000 7.64 0.00 0.00 4.00
3579 8078 0.529337 CATCTGCCACGTAGCTCCTG 60.529 60.000 7.64 0.00 0.00 3.86
3580 8079 0.684479 TCATCTGCCACGTAGCTCCT 60.684 55.000 7.64 0.00 0.00 3.69
3581 8080 0.390860 ATCATCTGCCACGTAGCTCC 59.609 55.000 7.64 0.00 0.00 4.70
3582 8081 1.863454 CAATCATCTGCCACGTAGCTC 59.137 52.381 7.64 0.00 0.00 4.09
3583 8082 1.208052 ACAATCATCTGCCACGTAGCT 59.792 47.619 7.64 0.00 0.00 3.32
3584 8083 1.656652 ACAATCATCTGCCACGTAGC 58.343 50.000 0.00 0.00 0.00 3.58
3585 8084 7.171508 ACAAATATACAATCATCTGCCACGTAG 59.828 37.037 0.00 0.00 0.00 3.51
3586 8085 6.989759 ACAAATATACAATCATCTGCCACGTA 59.010 34.615 0.00 0.00 0.00 3.57
3587 8086 5.822519 ACAAATATACAATCATCTGCCACGT 59.177 36.000 0.00 0.00 0.00 4.49
3588 8087 6.304356 ACAAATATACAATCATCTGCCACG 57.696 37.500 0.00 0.00 0.00 4.94
3589 8088 8.454106 GGATACAAATATACAATCATCTGCCAC 58.546 37.037 0.00 0.00 0.00 5.01
3590 8089 8.565896 GGATACAAATATACAATCATCTGCCA 57.434 34.615 0.00 0.00 0.00 4.92


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

AutoCloner maintained by Alex Coulton.