Multiple sequence alignment - TraesCS1A01G276300

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 TraesCS1A01G276300 chr1A 100.000 2456 0 0 1 2456 471489660 471487205 0.000000 4536.0
1 TraesCS1A01G276300 chr1D 90.155 2509 156 43 1 2456 371751074 371748604 0.000000 3181.0
2 TraesCS1A01G276300 chr1B 89.579 1353 89 27 832 2168 496561459 496560143 0.000000 1670.0
3 TraesCS1A01G276300 chr1B 89.324 843 62 11 1 841 496562567 496561751 0.000000 1033.0
4 TraesCS1A01G276300 chr6B 100.000 31 0 0 2426 2456 720528040 720528010 0.000095 58.4


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 TraesCS1A01G276300 chr1A 471487205 471489660 2455 True 4536.0 4536 100.0000 1 2456 1 chr1A.!!$R1 2455
1 TraesCS1A01G276300 chr1D 371748604 371751074 2470 True 3181.0 3181 90.1550 1 2456 1 chr1D.!!$R1 2455
2 TraesCS1A01G276300 chr1B 496560143 496562567 2424 True 1351.5 1670 89.4515 1 2168 2 chr1B.!!$R1 2167

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
796 811 0.108585 CTGTACTGCCTGTGGGTGTT 59.891 55.0 0.0 0.0 34.45 3.32 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2382 2743 0.107643 TCACATCAAGGCCGAACACA 59.892 50.0 0.0 0.0 0.0 3.72 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
27 28 7.106239 TCTCGAAATAAGAAGCAGAGGAAAAT 58.894 34.615 0.00 0.00 0.00 1.82
35 36 1.897802 AGCAGAGGAAAATTTGGCCTG 59.102 47.619 15.45 10.36 30.70 4.85
73 74 2.958578 CTTTGGCACTCCACACCGGT 62.959 60.000 0.00 0.00 43.33 5.28
288 291 4.605967 CGCACACACCGCACCAAC 62.606 66.667 0.00 0.00 0.00 3.77
289 292 4.264638 GCACACACCGCACCAACC 62.265 66.667 0.00 0.00 0.00 3.77
310 313 1.644786 GCGATCCCAAAGTCCAACCG 61.645 60.000 0.00 0.00 0.00 4.44
314 317 3.361977 CCAAAGTCCAACCGGCCG 61.362 66.667 21.04 21.04 0.00 6.13
385 393 4.233635 CGTCGGAGGAGGTACGCG 62.234 72.222 3.53 3.53 0.00 6.01
425 433 0.543749 CCCTCTTCGCTTCCCTGATT 59.456 55.000 0.00 0.00 0.00 2.57
430 438 3.808728 TCTTCGCTTCCCTGATTATTGG 58.191 45.455 0.00 0.00 0.00 3.16
475 488 1.899534 GGCTGCCCCGTTGTTTGTA 60.900 57.895 7.66 0.00 0.00 2.41
478 491 1.862602 CTGCCCCGTTGTTTGTAGCC 61.863 60.000 0.00 0.00 0.00 3.93
523 538 2.187946 CCCGGCTCCAGTGTCATC 59.812 66.667 0.00 0.00 0.00 2.92
533 548 2.234661 TCCAGTGTCATCCTGTCATGTC 59.765 50.000 0.00 0.00 0.00 3.06
534 549 2.265683 CAGTGTCATCCTGTCATGTCG 58.734 52.381 0.00 0.00 0.00 4.35
535 550 1.002366 GTGTCATCCTGTCATGTCGC 58.998 55.000 0.00 0.00 0.00 5.19
536 551 0.458370 TGTCATCCTGTCATGTCGCG 60.458 55.000 0.00 0.00 0.00 5.87
537 552 1.141665 TCATCCTGTCATGTCGCGG 59.858 57.895 6.13 0.00 0.00 6.46
538 553 2.202932 ATCCTGTCATGTCGCGGC 60.203 61.111 2.29 2.29 0.00 6.53
539 554 4.794439 TCCTGTCATGTCGCGGCG 62.794 66.667 17.70 17.70 0.00 6.46
540 555 4.794439 CCTGTCATGTCGCGGCGA 62.794 66.667 22.69 22.69 0.00 5.54
582 597 4.899239 CTCGCCGGATCTGTGCCC 62.899 72.222 5.05 0.00 0.00 5.36
603 618 0.730840 GTCGATAGGTTTTTGGCCCG 59.269 55.000 0.00 0.00 0.00 6.13
605 620 0.450184 CGATAGGTTTTTGGCCCGTG 59.550 55.000 0.00 0.00 0.00 4.94
681 696 4.038642 TGGCTTTTGTACAAGAAATCCACC 59.961 41.667 8.56 4.38 29.01 4.61
691 706 4.520492 ACAAGAAATCCACCTGCTAAGTTG 59.480 41.667 0.00 0.00 0.00 3.16
768 783 3.083122 TGGTCTACCAGAGTACCAGAC 57.917 52.381 0.00 0.00 42.01 3.51
770 785 3.181426 TGGTCTACCAGAGTACCAGACAA 60.181 47.826 0.00 0.00 42.01 3.18
773 788 4.705507 GTCTACCAGAGTACCAGACAATCA 59.294 45.833 0.00 0.00 0.00 2.57
774 789 3.963428 ACCAGAGTACCAGACAATCAC 57.037 47.619 0.00 0.00 0.00 3.06
775 790 3.239449 ACCAGAGTACCAGACAATCACA 58.761 45.455 0.00 0.00 0.00 3.58
777 792 4.081420 ACCAGAGTACCAGACAATCACATC 60.081 45.833 0.00 0.00 0.00 3.06
779 794 5.107824 CAGAGTACCAGACAATCACATCTG 58.892 45.833 0.00 0.00 41.75 2.90
780 795 4.774726 AGAGTACCAGACAATCACATCTGT 59.225 41.667 0.00 0.00 40.70 3.41
781 796 5.952347 AGAGTACCAGACAATCACATCTGTA 59.048 40.000 0.00 0.00 40.70 2.74
782 797 5.967088 AGTACCAGACAATCACATCTGTAC 58.033 41.667 0.00 0.00 40.70 2.90
783 798 5.717178 AGTACCAGACAATCACATCTGTACT 59.283 40.000 0.00 0.00 40.70 2.73
784 799 4.825422 ACCAGACAATCACATCTGTACTG 58.175 43.478 0.00 0.00 40.70 2.74
791 806 1.276138 TCACATCTGTACTGCCTGTGG 59.724 52.381 22.75 12.35 38.16 4.17
792 807 0.615331 ACATCTGTACTGCCTGTGGG 59.385 55.000 0.00 0.00 0.00 4.61
796 811 0.108585 CTGTACTGCCTGTGGGTGTT 59.891 55.000 0.00 0.00 34.45 3.32
841 1157 7.070571 ACTCTTAAGCTTTGCAGATAGGACTAT 59.929 37.037 3.20 0.00 0.00 2.12
853 1169 8.090831 TGCAGATAGGACTATTGTTGATCATAC 58.909 37.037 0.00 0.00 0.00 2.39
874 1190 4.181578 ACGCATGATTACGAGCTAAAAGT 58.818 39.130 0.00 0.00 0.00 2.66
898 1214 2.819608 TGCAGCTAGGAATTTTGGTGAC 59.180 45.455 0.00 0.00 0.00 3.67
952 1274 9.848172 GTTGTGATACTTTTAATTTTGCTGTTG 57.152 29.630 0.00 0.00 0.00 3.33
967 1290 6.685527 TTGCTGTTGTACTGTATTTTGACA 57.314 33.333 0.00 0.00 0.00 3.58
968 1291 6.055231 TGCTGTTGTACTGTATTTTGACAC 57.945 37.500 0.00 0.00 0.00 3.67
969 1292 5.586643 TGCTGTTGTACTGTATTTTGACACA 59.413 36.000 0.00 0.00 0.00 3.72
990 1313 8.579682 ACACATAATTTTGTTCTTTCTTCAGC 57.420 30.769 0.00 0.00 0.00 4.26
1099 1422 1.504359 CGCTTCCTTCGTTGGTTACA 58.496 50.000 0.00 0.00 0.00 2.41
1122 1445 3.583806 CAAGCAAACACCAAACTTGTCA 58.416 40.909 0.00 0.00 34.43 3.58
1142 1465 2.749621 CAGGCCTAAGGATGTCAAACAC 59.250 50.000 3.98 0.00 0.00 3.32
1159 1482 2.425592 CGTTCAGGGTGTCTGCCA 59.574 61.111 0.00 0.00 43.06 4.92
1186 1509 2.417933 GTGCACAAGGTGAAGCTCATAG 59.582 50.000 13.17 0.00 35.23 2.23
1197 1520 2.520982 CTCATAGGCCCGGACGGA 60.521 66.667 13.13 0.00 37.50 4.69
1253 1576 1.396301 CATTCTCGAGGCAGCTGAAAC 59.604 52.381 20.43 6.65 0.00 2.78
1364 1687 0.673437 GGCTCCTTCCTCGATGAGAG 59.327 60.000 0.00 3.53 46.44 3.20
1480 1803 1.370778 CACATGTGCTTGTGTGGCG 60.371 57.895 13.94 0.00 41.65 5.69
1502 1826 4.619973 GCAATTGTTGAAGTTCATGGTGA 58.380 39.130 6.36 0.00 0.00 4.02
1556 1880 1.147153 GAGATGGCTAGGTGGGTGC 59.853 63.158 0.00 0.00 0.00 5.01
1567 1891 2.048603 GTGGGTGCATCTTCCTGGC 61.049 63.158 0.00 0.00 0.00 4.85
1598 1922 3.307242 CGGTCTTTTGATGAGATCGTTCC 59.693 47.826 0.00 0.00 41.55 3.62
1722 2046 3.726291 AAACATGTTGTACTTGTGGGC 57.274 42.857 12.82 0.00 36.72 5.36
1733 2057 0.961753 CTTGTGGGCCACTTCCTTTC 59.038 55.000 34.69 8.91 35.11 2.62
1753 2079 1.681264 CGGAATTATTTGGCCACTCCC 59.319 52.381 3.88 0.00 0.00 4.30
1765 2091 1.341080 CCACTCCCCTGTTTGCATTT 58.659 50.000 0.00 0.00 0.00 2.32
1922 2253 8.330466 TGAATTTTGATATTGTGTTACCTCGT 57.670 30.769 0.00 0.00 0.00 4.18
1937 2268 7.327518 GTGTTACCTCGTTAAAATGGAAAATGG 59.672 37.037 0.00 0.00 0.00 3.16
1960 2292 8.415192 TGGTACGAGTAGCATTGTTTTATTAG 57.585 34.615 10.64 0.00 38.48 1.73
1962 2294 6.359480 ACGAGTAGCATTGTTTTATTAGCC 57.641 37.500 0.00 0.00 0.00 3.93
1965 2297 7.120726 ACGAGTAGCATTGTTTTATTAGCCTTT 59.879 33.333 0.00 0.00 0.00 3.11
2016 2348 5.536161 TCTTTAGCTTGTCTTTGCCAATTCT 59.464 36.000 0.00 0.00 0.00 2.40
2017 2349 3.655276 AGCTTGTCTTTGCCAATTCTG 57.345 42.857 0.00 0.00 0.00 3.02
2063 2395 5.760253 AGTTCAGTTAACACAGTGATTCAGG 59.240 40.000 7.81 0.00 40.83 3.86
2078 2410 1.451028 CAGGCTAAGGTGGCTCTGC 60.451 63.158 0.00 0.00 41.04 4.26
2129 2466 7.972832 ACTATTAACTGAAACGGTTTGATGA 57.027 32.000 11.43 0.00 34.54 2.92
2151 2488 2.239907 AGGTTCCTTCCAGTAATCCAGC 59.760 50.000 0.00 0.00 0.00 4.85
2152 2489 2.239907 GGTTCCTTCCAGTAATCCAGCT 59.760 50.000 0.00 0.00 0.00 4.24
2199 2538 2.251371 GCTTTGTCACGCCGTTCC 59.749 61.111 0.00 0.00 0.00 3.62
2202 2541 0.878523 CTTTGTCACGCCGTTCCTCA 60.879 55.000 0.00 0.00 0.00 3.86
2247 2586 5.876357 TCTCTAGCAGGTTATTTTGTTGGT 58.124 37.500 0.00 0.00 0.00 3.67
2252 2591 6.472686 AGCAGGTTATTTTGTTGGTTGTTA 57.527 33.333 0.00 0.00 0.00 2.41
2254 2593 6.043411 GCAGGTTATTTTGTTGGTTGTTACA 58.957 36.000 0.00 0.00 0.00 2.41
2279 2618 6.942532 TTTGGTTTATCTATGCTAGCTTGG 57.057 37.500 17.23 11.99 0.00 3.61
2280 2619 4.973168 TGGTTTATCTATGCTAGCTTGGG 58.027 43.478 17.23 7.56 0.00 4.12
2286 2625 9.067986 GTTTATCTATGCTAGCTTGGGTTTTAT 57.932 33.333 17.23 3.64 0.00 1.40
2303 2643 8.024285 TGGGTTTTATTATGTTTTGACGATGTC 58.976 33.333 0.00 0.00 0.00 3.06
2304 2644 8.241367 GGGTTTTATTATGTTTTGACGATGTCT 58.759 33.333 0.00 0.00 33.15 3.41
2326 2666 8.604035 TGTCTTCTTTTCATTCGTATATCAAGC 58.396 33.333 0.00 0.00 0.00 4.01
2373 2734 2.897271 TTAGGTGCATGGTTGTGGAT 57.103 45.000 0.00 0.00 0.00 3.41
2378 2739 1.895131 GTGCATGGTTGTGGATTCCTT 59.105 47.619 3.95 0.00 0.00 3.36
2379 2740 3.088532 GTGCATGGTTGTGGATTCCTTA 58.911 45.455 3.95 0.00 0.00 2.69
2382 2743 3.701040 GCATGGTTGTGGATTCCTTACAT 59.299 43.478 3.95 0.00 0.00 2.29
2385 2746 4.078537 TGGTTGTGGATTCCTTACATGTG 58.921 43.478 9.11 0.00 0.00 3.21
2394 2755 1.349688 TCCTTACATGTGTTCGGCCTT 59.650 47.619 9.11 0.00 0.00 4.35
2400 2761 1.135603 CATGTGTTCGGCCTTGATGTG 60.136 52.381 0.00 0.00 0.00 3.21
2406 2767 1.079819 CGGCCTTGATGTGAGTCGT 60.080 57.895 0.00 0.00 0.00 4.34
2408 2769 1.403647 CGGCCTTGATGTGAGTCGTTA 60.404 52.381 0.00 0.00 0.00 3.18
2424 2785 5.670485 AGTCGTTATTGATTATGTGAGCCA 58.330 37.500 0.00 0.00 0.00 4.75
2425 2786 5.523916 AGTCGTTATTGATTATGTGAGCCAC 59.476 40.000 0.00 0.00 34.56 5.01
2437 2798 3.913107 AGCCACTTGGGAGCTCTT 58.087 55.556 14.64 0.00 40.01 2.85
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
273 276 3.591835 GGGTTGGTGCGGTGTGTG 61.592 66.667 0.00 0.00 0.00 3.82
282 285 3.910914 TTGGGATCGCGGGTTGGTG 62.911 63.158 6.13 0.00 0.00 4.17
283 286 3.198953 TTTGGGATCGCGGGTTGGT 62.199 57.895 6.13 0.00 0.00 3.67
284 287 2.360600 TTTGGGATCGCGGGTTGG 60.361 61.111 6.13 0.00 0.00 3.77
285 288 1.644786 GACTTTGGGATCGCGGGTTG 61.645 60.000 6.13 0.00 0.00 3.77
286 289 1.376812 GACTTTGGGATCGCGGGTT 60.377 57.895 6.13 0.00 0.00 4.11
287 290 2.267961 GACTTTGGGATCGCGGGT 59.732 61.111 6.13 3.78 0.00 5.28
288 291 2.513897 GGACTTTGGGATCGCGGG 60.514 66.667 6.13 0.00 0.00 6.13
289 292 1.376683 TTGGACTTTGGGATCGCGG 60.377 57.895 6.13 0.94 0.00 6.46
425 433 1.590525 GGCGTGCGATCGACCAATA 60.591 57.895 21.57 0.00 32.06 1.90
456 469 4.341502 CAAACAACGGGGCAGCCG 62.342 66.667 5.00 0.36 0.00 5.52
478 491 2.658593 CCAAGGCGGCGATCTACG 60.659 66.667 12.98 2.24 45.66 3.51
523 538 4.794439 TCGCCGCGACATGACAGG 62.794 66.667 12.39 0.57 0.00 4.00
582 597 0.730840 GGCCAAAAACCTATCGACCG 59.269 55.000 0.00 0.00 0.00 4.79
605 620 0.393077 ATGGACAGTGGTATAGCGCC 59.607 55.000 11.72 2.00 0.00 6.53
634 649 2.203938 TCCCCACTCCCCACAGTC 60.204 66.667 0.00 0.00 0.00 3.51
638 653 1.846124 TTCTGTCCCCACTCCCCAC 60.846 63.158 0.00 0.00 0.00 4.61
681 696 2.789409 AGCCCCTAACAACTTAGCAG 57.211 50.000 0.00 0.00 0.00 4.24
691 706 5.125578 CCAGTTCAAATTAGAAGCCCCTAAC 59.874 44.000 0.00 0.00 32.11 2.34
760 775 5.807520 CAGTACAGATGTGATTGTCTGGTAC 59.192 44.000 0.00 0.00 44.72 3.34
761 776 5.624509 GCAGTACAGATGTGATTGTCTGGTA 60.625 44.000 0.00 0.00 44.72 3.25
766 781 3.620374 CAGGCAGTACAGATGTGATTGTC 59.380 47.826 0.00 0.00 0.00 3.18
768 783 3.373130 CACAGGCAGTACAGATGTGATTG 59.627 47.826 14.82 0.00 43.02 2.67
770 785 2.093288 CCACAGGCAGTACAGATGTGAT 60.093 50.000 19.12 0.00 43.02 3.06
773 788 0.615331 CCCACAGGCAGTACAGATGT 59.385 55.000 0.00 0.00 0.00 3.06
774 789 0.615331 ACCCACAGGCAGTACAGATG 59.385 55.000 0.00 0.00 36.11 2.90
775 790 0.615331 CACCCACAGGCAGTACAGAT 59.385 55.000 0.00 0.00 36.11 2.90
777 792 0.108585 AACACCCACAGGCAGTACAG 59.891 55.000 0.00 0.00 36.11 2.74
779 794 0.605589 GGAACACCCACAGGCAGTAC 60.606 60.000 0.00 0.00 36.11 2.73
780 795 1.057275 TGGAACACCCACAGGCAGTA 61.057 55.000 0.00 0.00 40.82 2.74
781 796 2.382770 TGGAACACCCACAGGCAGT 61.383 57.895 0.00 0.00 40.82 4.40
782 797 2.515398 TGGAACACCCACAGGCAG 59.485 61.111 0.00 0.00 40.82 4.85
801 816 4.770795 CTTAAGAGTGATCCATTTCCCGT 58.229 43.478 0.00 0.00 0.00 5.28
813 828 5.187772 TCCTATCTGCAAAGCTTAAGAGTGA 59.812 40.000 6.67 0.00 0.00 3.41
853 1169 4.778842 ACTTTTAGCTCGTAATCATGCG 57.221 40.909 0.00 0.00 35.85 4.73
864 1180 4.455877 TCCTAGCTGCAAAACTTTTAGCTC 59.544 41.667 12.77 4.99 43.13 4.09
866 1182 4.766404 TCCTAGCTGCAAAACTTTTAGC 57.234 40.909 1.02 2.04 34.71 3.09
874 1190 4.343526 TCACCAAAATTCCTAGCTGCAAAA 59.656 37.500 1.02 0.00 0.00 2.44
944 1266 6.094186 TGTGTCAAAATACAGTACAACAGCAA 59.906 34.615 0.00 0.00 0.00 3.91
963 1286 9.734620 CTGAAGAAAGAACAAAATTATGTGTCA 57.265 29.630 0.00 0.00 32.81 3.58
967 1290 9.415544 GATGCTGAAGAAAGAACAAAATTATGT 57.584 29.630 0.00 0.00 34.24 2.29
968 1291 9.414295 TGATGCTGAAGAAAGAACAAAATTATG 57.586 29.630 0.00 0.00 0.00 1.90
969 1292 9.635520 CTGATGCTGAAGAAAGAACAAAATTAT 57.364 29.630 0.00 0.00 0.00 1.28
979 1302 5.010314 ACATTTTGCTGATGCTGAAGAAAGA 59.990 36.000 0.00 0.00 40.48 2.52
980 1303 5.227908 ACATTTTGCTGATGCTGAAGAAAG 58.772 37.500 0.00 0.00 40.48 2.62
990 1313 2.991190 GGCAGTTGACATTTTGCTGATG 59.009 45.455 0.00 0.00 36.79 3.07
1099 1422 2.301583 ACAAGTTTGGTGTTTGCTTGGT 59.698 40.909 0.00 0.00 40.35 3.67
1122 1445 2.615493 CGTGTTTGACATCCTTAGGCCT 60.615 50.000 11.78 11.78 0.00 5.19
1142 1465 1.961277 GTGGCAGACACCCTGAACG 60.961 63.158 0.00 0.00 45.78 3.95
1186 1509 3.839432 CTCTTCTCCGTCCGGGCC 61.839 72.222 0.00 0.00 34.94 5.80
1197 1520 1.606737 GCCTCAAACTCGTGCTCTTCT 60.607 52.381 0.00 0.00 0.00 2.85
1364 1687 0.398318 GTATCCCTCACCCATCTGGC 59.602 60.000 0.00 0.00 37.83 4.85
1480 1803 4.619973 TCACCATGAACTTCAACAATTGC 58.380 39.130 5.05 0.00 0.00 3.56
1502 1826 1.314730 AGGCAACCGAACAACGAATT 58.685 45.000 0.00 0.00 45.77 2.17
1567 1891 4.002982 TCATCAAAAGACCGGACTGATTG 58.997 43.478 9.46 16.56 0.00 2.67
1733 2057 1.681264 GGGAGTGGCCAAATAATTCCG 59.319 52.381 7.24 0.00 38.95 4.30
1753 2079 4.961435 ACCAAAACAAAATGCAAACAGG 57.039 36.364 0.00 0.00 0.00 4.00
1765 2091 7.118496 ACATCCATTCAAGTAACCAAAACAA 57.882 32.000 0.00 0.00 0.00 2.83
1855 2186 0.400213 TTGTCTCATGGTTTCCCGCT 59.600 50.000 0.00 0.00 0.00 5.52
1866 2197 6.100279 TGCCTTCTTATGGAGTATTGTCTCAT 59.900 38.462 0.00 0.00 36.30 2.90
1916 2247 6.348704 CGTACCATTTTCCATTTTAACGAGGT 60.349 38.462 0.00 0.00 0.00 3.85
1922 2253 7.390996 TGCTACTCGTACCATTTTCCATTTTAA 59.609 33.333 0.00 0.00 0.00 1.52
1937 2268 7.224167 AGGCTAATAAAACAATGCTACTCGTAC 59.776 37.037 0.00 0.00 0.00 3.67
1979 2311 3.690460 AGCTAAAGAACAATGAGGTGGG 58.310 45.455 0.00 0.00 0.00 4.61
1983 2315 6.566197 AAGACAAGCTAAAGAACAATGAGG 57.434 37.500 0.00 0.00 0.00 3.86
2031 2363 3.942748 TGTGTTAACTGAACTGACCAACC 59.057 43.478 7.22 0.00 38.98 3.77
2063 2395 0.179936 ATGAGCAGAGCCACCTTAGC 59.820 55.000 0.00 0.00 0.00 3.09
2078 2410 9.979578 AGTTTATACTGAAAGATAGAGCATGAG 57.020 33.333 0.00 0.00 37.43 2.90
2109 2446 5.591067 ACCTTCATCAAACCGTTTCAGTTAA 59.409 36.000 0.00 0.00 0.00 2.01
2124 2461 5.339200 GGATTACTGGAAGGAACCTTCATCA 60.339 44.000 27.59 18.72 41.57 3.07
2129 2466 3.308473 GCTGGATTACTGGAAGGAACCTT 60.308 47.826 5.74 5.74 41.57 3.50
2168 2505 1.344763 ACAAAGCACGAGTTAGCCTCT 59.655 47.619 0.00 0.00 38.11 3.69
2182 2521 2.171489 GAGGAACGGCGTGACAAAGC 62.171 60.000 15.70 0.00 0.00 3.51
2199 2538 6.770746 AAAAGAGTTGATCCCATGAATGAG 57.229 37.500 0.00 0.00 0.00 2.90
2252 2591 8.408601 CAAGCTAGCATAGATAAACCAAAATGT 58.591 33.333 18.83 0.00 42.77 2.71
2254 2593 7.014615 CCCAAGCTAGCATAGATAAACCAAAAT 59.985 37.037 18.83 0.00 42.77 1.82
2269 2608 7.475137 AAACATAATAAAACCCAAGCTAGCA 57.525 32.000 18.83 0.00 0.00 3.49
2273 2612 6.866248 CGTCAAAACATAATAAAACCCAAGCT 59.134 34.615 0.00 0.00 0.00 3.74
2279 2618 9.620660 AAGACATCGTCAAAACATAATAAAACC 57.379 29.630 0.00 0.00 34.60 3.27
2286 2625 8.616942 TGAAAAGAAGACATCGTCAAAACATAA 58.383 29.630 0.00 0.00 34.60 1.90
2303 2643 8.066595 CCAGCTTGATATACGAATGAAAAGAAG 58.933 37.037 0.00 0.00 0.00 2.85
2304 2644 7.012327 CCCAGCTTGATATACGAATGAAAAGAA 59.988 37.037 0.00 0.00 0.00 2.52
2352 2713 3.168035 TCCACAACCATGCACCTAATT 57.832 42.857 0.00 0.00 0.00 1.40
2373 2734 1.349688 AGGCCGAACACATGTAAGGAA 59.650 47.619 0.00 0.00 0.00 3.36
2378 2739 2.290008 ACATCAAGGCCGAACACATGTA 60.290 45.455 0.00 0.00 0.00 2.29
2379 2740 1.167851 CATCAAGGCCGAACACATGT 58.832 50.000 0.00 0.00 0.00 3.21
2382 2743 0.107643 TCACATCAAGGCCGAACACA 59.892 50.000 0.00 0.00 0.00 3.72
2385 2746 1.079503 GACTCACATCAAGGCCGAAC 58.920 55.000 0.00 0.00 0.00 3.95
2394 2755 7.978975 TCACATAATCAATAACGACTCACATCA 59.021 33.333 0.00 0.00 0.00 3.07
2400 2761 5.753438 TGGCTCACATAATCAATAACGACTC 59.247 40.000 0.00 0.00 0.00 3.36
2406 2767 5.593909 CCCAAGTGGCTCACATAATCAATAA 59.406 40.000 7.86 0.00 36.74 1.40
2408 2769 3.956199 CCCAAGTGGCTCACATAATCAAT 59.044 43.478 7.86 0.00 36.74 2.57
2424 2785 3.008049 ACGTGAAATAAGAGCTCCCAAGT 59.992 43.478 10.93 5.06 0.00 3.16
2425 2786 3.600388 ACGTGAAATAAGAGCTCCCAAG 58.400 45.455 10.93 4.47 0.00 3.61


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

AutoCloner maintained by Alex Coulton.