Multiple sequence alignment - TraesCS4B01G229200

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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 TraesCS4B01G229200 chr4B 100.000 2975 0 0 1 2975 480058480 480061454 0.000000e+00 5494
1 TraesCS4B01G229200 chr4B 85.912 433 40 11 1244 1676 339262766 339262355 2.720000e-120 442
2 TraesCS4B01G229200 chr4B 91.018 167 11 2 994 1159 339262977 339262814 3.860000e-54 222
3 TraesCS4B01G229200 chr4A 91.044 3037 118 45 8 2975 72025506 72028457 0.000000e+00 3960
4 TraesCS4B01G229200 chr4D 91.599 2333 77 29 1 2298 390272618 390274866 0.000000e+00 3112
5 TraesCS4B01G229200 chr4D 92.459 2135 66 34 879 2975 390273450 390275527 0.000000e+00 2963
6 TraesCS4B01G229200 chr4D 82.018 456 32 23 1244 1695 93448543 93448134 2.840000e-90 342
7 TraesCS4B01G229200 chr4D 91.447 152 10 1 1013 1164 93448734 93448586 3.890000e-49 206
8 TraesCS4B01G229200 chr2D 84.088 685 47 23 993 1676 118534390 118535013 3.280000e-169 604
9 TraesCS4B01G229200 chr2D 87.204 211 13 6 1505 1715 11560028 11559832 8.300000e-56 228
10 TraesCS4B01G229200 chr5D 86.426 582 39 18 903 1475 472426993 472427543 4.240000e-168 601
11 TraesCS4B01G229200 chr7B 84.696 575 74 8 880 1450 366668265 366668829 2.000000e-156 562
12 TraesCS4B01G229200 chr7B 82.107 693 53 27 993 1676 375392470 375393100 7.300000e-146 527
13 TraesCS4B01G229200 chr7B 86.400 125 8 4 752 871 366668162 366668282 8.660000e-26 128
14 TraesCS4B01G229200 chr3A 82.029 690 58 31 988 1676 431136219 431136843 7.300000e-146 527
15 TraesCS4B01G229200 chr1D 80.723 664 45 33 1013 1676 212526495 212527075 9.790000e-120 440
16 TraesCS4B01G229200 chr1D 85.383 431 29 11 1246 1676 239620972 239620576 1.650000e-112 416
17 TraesCS4B01G229200 chrUn 86.391 169 17 3 1547 1715 369330976 369330814 2.360000e-41 180


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 TraesCS4B01G229200 chr4B 480058480 480061454 2974 False 5494.0 5494 100.0000 1 2975 1 chr4B.!!$F1 2974
1 TraesCS4B01G229200 chr4B 339262355 339262977 622 True 332.0 442 88.4650 994 1676 2 chr4B.!!$R1 682
2 TraesCS4B01G229200 chr4A 72025506 72028457 2951 False 3960.0 3960 91.0440 8 2975 1 chr4A.!!$F1 2967
3 TraesCS4B01G229200 chr4D 390272618 390275527 2909 False 3037.5 3112 92.0290 1 2975 2 chr4D.!!$F1 2974
4 TraesCS4B01G229200 chr4D 93448134 93448734 600 True 274.0 342 86.7325 1013 1695 2 chr4D.!!$R1 682
5 TraesCS4B01G229200 chr2D 118534390 118535013 623 False 604.0 604 84.0880 993 1676 1 chr2D.!!$F1 683
6 TraesCS4B01G229200 chr5D 472426993 472427543 550 False 601.0 601 86.4260 903 1475 1 chr5D.!!$F1 572
7 TraesCS4B01G229200 chr7B 375392470 375393100 630 False 527.0 527 82.1070 993 1676 1 chr7B.!!$F1 683
8 TraesCS4B01G229200 chr7B 366668162 366668829 667 False 345.0 562 85.5480 752 1450 2 chr7B.!!$F2 698
9 TraesCS4B01G229200 chr3A 431136219 431136843 624 False 527.0 527 82.0290 988 1676 1 chr3A.!!$F1 688
10 TraesCS4B01G229200 chr1D 212526495 212527075 580 False 440.0 440 80.7230 1013 1676 1 chr1D.!!$F1 663

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
223 229 0.179100 ATTCGTGCTCCCATCTGACG 60.179 55.0 0.0 0.0 0.00 4.35 F
251 258 0.250901 CTCCAGAAACACCACAGGGG 60.251 60.0 0.0 0.0 44.81 4.79 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1741 1853 1.365633 GGATGGCGGCTAGAGTCTG 59.634 63.158 11.43 0.0 0.0 3.51 R
2232 2368 0.321653 GTTGTTCGCCCTGATCCTGT 60.322 55.000 0.00 0.0 0.0 4.00 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
84 90 3.927142 GGTCTTCAGAAACACTGGTATCG 59.073 47.826 0.00 0.00 45.76 2.92
95 101 3.190079 CACTGGTATCGGATCACTTGTG 58.810 50.000 0.00 0.00 0.00 3.33
134 140 1.956477 CCACCAGGGAAGTCTTGTTTG 59.044 52.381 0.00 0.00 40.01 2.93
214 220 4.065088 TCCAGCATTTATATTCGTGCTCC 58.935 43.478 5.69 0.00 45.42 4.70
217 223 4.456911 CAGCATTTATATTCGTGCTCCCAT 59.543 41.667 5.69 0.00 45.42 4.00
218 224 4.697352 AGCATTTATATTCGTGCTCCCATC 59.303 41.667 0.00 0.00 43.97 3.51
219 225 4.697352 GCATTTATATTCGTGCTCCCATCT 59.303 41.667 0.00 0.00 34.85 2.90
220 226 5.391310 GCATTTATATTCGTGCTCCCATCTG 60.391 44.000 0.00 0.00 34.85 2.90
221 227 5.545063 TTTATATTCGTGCTCCCATCTGA 57.455 39.130 0.00 0.00 0.00 3.27
222 228 2.890808 TATTCGTGCTCCCATCTGAC 57.109 50.000 0.00 0.00 0.00 3.51
223 229 0.179100 ATTCGTGCTCCCATCTGACG 60.179 55.000 0.00 0.00 0.00 4.35
224 230 1.248101 TTCGTGCTCCCATCTGACGA 61.248 55.000 0.00 0.00 37.28 4.20
225 231 1.037579 TCGTGCTCCCATCTGACGAT 61.038 55.000 0.00 0.00 34.32 3.73
251 258 0.250901 CTCCAGAAACACCACAGGGG 60.251 60.000 0.00 0.00 44.81 4.79
291 298 3.129988 GGGCTTCCATCTTTTCATGACAG 59.870 47.826 0.00 0.00 0.00 3.51
354 365 3.585732 AGGTTCCGTTTTAGAGATTCCCA 59.414 43.478 0.00 0.00 0.00 4.37
407 418 3.438216 TGTCCTCTGATTTGGCATCAA 57.562 42.857 0.00 0.00 0.00 2.57
447 458 2.498167 AGCAATGGATCGGATACTTGC 58.502 47.619 20.46 20.46 39.32 4.01
457 468 2.766263 TCGGATACTTGCCTTGATCTGT 59.234 45.455 0.00 0.00 0.00 3.41
533 544 1.930251 TCTGCTTGTGCTCCTCTAGT 58.070 50.000 0.00 0.00 40.48 2.57
570 584 6.748333 TCTGGATAAATCTGAACTTGCTTG 57.252 37.500 0.00 0.00 0.00 4.01
647 661 5.507315 GGAAGCAATTTCGGAGAACAAAAGA 60.507 40.000 0.00 0.00 45.90 2.52
665 679 6.769822 ACAAAAGATGTGTCAATTCAGACTCT 59.230 34.615 0.00 0.00 41.93 3.24
666 680 6.798315 AAAGATGTGTCAATTCAGACTCTG 57.202 37.500 0.00 0.00 39.27 3.35
668 682 5.862845 AGATGTGTCAATTCAGACTCTGTT 58.137 37.500 5.94 0.00 39.27 3.16
723 748 9.730705 TTTCTAAGATTCAGTTTGTCATGATCT 57.269 29.630 0.00 0.00 0.00 2.75
730 755 3.438087 CAGTTTGTCATGATCTCCACACC 59.562 47.826 0.00 0.00 0.00 4.16
736 761 2.501316 TCATGATCTCCACACCGACAAT 59.499 45.455 0.00 0.00 0.00 2.71
766 791 8.574251 ACACATGCTATTTTATCCTTGTACAA 57.426 30.769 8.28 8.28 0.00 2.41
767 792 8.458843 ACACATGCTATTTTATCCTTGTACAAC 58.541 33.333 3.59 0.00 0.00 3.32
768 793 8.458052 CACATGCTATTTTATCCTTGTACAACA 58.542 33.333 3.59 0.00 0.00 3.33
769 794 9.019656 ACATGCTATTTTATCCTTGTACAACAA 57.980 29.630 3.59 0.00 36.54 2.83
770 795 9.289303 CATGCTATTTTATCCTTGTACAACAAC 57.711 33.333 3.59 0.00 33.96 3.32
771 796 8.630054 TGCTATTTTATCCTTGTACAACAACT 57.370 30.769 3.59 0.00 33.96 3.16
772 797 8.726988 TGCTATTTTATCCTTGTACAACAACTC 58.273 33.333 3.59 0.00 33.96 3.01
773 798 8.726988 GCTATTTTATCCTTGTACAACAACTCA 58.273 33.333 3.59 0.00 33.96 3.41
775 800 7.504924 TTTTATCCTTGTACAACAACTCAGG 57.495 36.000 3.59 2.48 33.96 3.86
776 801 4.974645 ATCCTTGTACAACAACTCAGGA 57.025 40.909 11.61 11.61 33.96 3.86
777 802 4.067972 TCCTTGTACAACAACTCAGGAC 57.932 45.455 3.59 0.00 33.96 3.85
778 803 3.709653 TCCTTGTACAACAACTCAGGACT 59.290 43.478 3.59 0.00 33.96 3.85
779 804 4.058817 CCTTGTACAACAACTCAGGACTC 58.941 47.826 3.59 0.00 33.96 3.36
780 805 4.442893 CCTTGTACAACAACTCAGGACTCA 60.443 45.833 3.59 0.00 33.96 3.41
781 806 4.955811 TGTACAACAACTCAGGACTCAT 57.044 40.909 0.00 0.00 0.00 2.90
782 807 4.883083 TGTACAACAACTCAGGACTCATC 58.117 43.478 0.00 0.00 0.00 2.92
783 808 4.588951 TGTACAACAACTCAGGACTCATCT 59.411 41.667 0.00 0.00 0.00 2.90
784 809 4.000331 ACAACAACTCAGGACTCATCTG 58.000 45.455 0.00 0.00 0.00 2.90
785 810 2.740981 CAACAACTCAGGACTCATCTGC 59.259 50.000 0.00 0.00 32.63 4.26
852 899 7.231317 ACAAGAGATCCTTTTCAGTTTTATGCA 59.769 33.333 0.00 0.00 31.42 3.96
853 900 7.951347 AGAGATCCTTTTCAGTTTTATGCAT 57.049 32.000 3.79 3.79 0.00 3.96
854 901 7.994194 AGAGATCCTTTTCAGTTTTATGCATC 58.006 34.615 0.19 0.00 0.00 3.91
855 902 7.613022 AGAGATCCTTTTCAGTTTTATGCATCA 59.387 33.333 0.19 0.00 0.00 3.07
856 903 8.125978 AGATCCTTTTCAGTTTTATGCATCAA 57.874 30.769 0.19 0.00 0.00 2.57
857 904 8.587608 AGATCCTTTTCAGTTTTATGCATCAAA 58.412 29.630 0.19 1.20 0.00 2.69
858 905 9.374838 GATCCTTTTCAGTTTTATGCATCAAAT 57.625 29.630 0.19 0.00 0.00 2.32
859 906 8.761575 TCCTTTTCAGTTTTATGCATCAAATC 57.238 30.769 0.19 0.38 0.00 2.17
860 907 8.366401 TCCTTTTCAGTTTTATGCATCAAATCA 58.634 29.630 0.19 0.00 0.00 2.57
861 908 9.158233 CCTTTTCAGTTTTATGCATCAAATCAT 57.842 29.630 0.19 0.00 0.00 2.45
863 910 9.932207 TTTTCAGTTTTATGCATCAAATCATCT 57.068 25.926 0.19 0.00 0.00 2.90
864 911 9.577110 TTTCAGTTTTATGCATCAAATCATCTC 57.423 29.630 0.19 0.00 0.00 2.75
865 912 8.283699 TCAGTTTTATGCATCAAATCATCTCA 57.716 30.769 0.19 0.00 0.00 3.27
866 913 8.186163 TCAGTTTTATGCATCAAATCATCTCAC 58.814 33.333 0.19 0.00 0.00 3.51
867 914 7.434307 CAGTTTTATGCATCAAATCATCTCACC 59.566 37.037 0.19 0.00 0.00 4.02
868 915 7.123098 AGTTTTATGCATCAAATCATCTCACCA 59.877 33.333 0.19 0.00 0.00 4.17
869 916 7.407393 TTTATGCATCAAATCATCTCACCAA 57.593 32.000 0.19 0.00 0.00 3.67
870 917 4.976224 TGCATCAAATCATCTCACCAAG 57.024 40.909 0.00 0.00 0.00 3.61
871 918 4.338012 TGCATCAAATCATCTCACCAAGT 58.662 39.130 0.00 0.00 0.00 3.16
872 919 5.499313 TGCATCAAATCATCTCACCAAGTA 58.501 37.500 0.00 0.00 0.00 2.24
873 920 5.355071 TGCATCAAATCATCTCACCAAGTAC 59.645 40.000 0.00 0.00 0.00 2.73
874 921 5.355071 GCATCAAATCATCTCACCAAGTACA 59.645 40.000 0.00 0.00 0.00 2.90
875 922 6.457934 GCATCAAATCATCTCACCAAGTACAG 60.458 42.308 0.00 0.00 0.00 2.74
876 923 6.358974 TCAAATCATCTCACCAAGTACAGA 57.641 37.500 0.00 0.00 0.00 3.41
877 924 6.768483 TCAAATCATCTCACCAAGTACAGAA 58.232 36.000 0.00 0.00 0.00 3.02
1120 1197 2.203182 TCCAACACCTCCTCCCGT 59.797 61.111 0.00 0.00 0.00 5.28
1741 1853 4.500116 GAGCCCGACCTGACGCTC 62.500 72.222 0.00 0.00 40.82 5.03
1884 1996 2.979401 ATTTGTTTCATGCGTGCGTA 57.021 40.000 0.00 0.00 0.00 4.42
1885 1997 2.025544 TTTGTTTCATGCGTGCGTAC 57.974 45.000 0.00 0.00 0.00 3.67
1951 2075 4.096833 TGTGGTATTGGTAGTAGCGTGTAG 59.903 45.833 0.00 0.00 0.00 2.74
2007 2140 3.840468 TCAATCAATCATGTTGCTGTGC 58.160 40.909 0.00 0.00 0.00 4.57
2011 2144 1.206132 CAATCATGTTGCTGTGCCCAT 59.794 47.619 0.00 0.00 0.00 4.00
2012 2145 0.821517 ATCATGTTGCTGTGCCCATG 59.178 50.000 10.85 10.85 37.85 3.66
2013 2146 0.251253 TCATGTTGCTGTGCCCATGA 60.251 50.000 13.94 13.94 40.74 3.07
2014 2147 0.604073 CATGTTGCTGTGCCCATGAA 59.396 50.000 11.37 0.00 38.37 2.57
2015 2148 1.206132 CATGTTGCTGTGCCCATGAAT 59.794 47.619 11.37 0.00 38.37 2.57
2016 2149 1.340088 TGTTGCTGTGCCCATGAATT 58.660 45.000 0.00 0.00 0.00 2.17
2017 2150 1.273048 TGTTGCTGTGCCCATGAATTC 59.727 47.619 0.00 0.00 0.00 2.17
2079 2215 2.258591 CGTGTGAGACTCCCCGTG 59.741 66.667 0.00 0.00 0.00 4.94
2245 2386 0.742281 CTGTGAACAGGATCAGGGCG 60.742 60.000 2.35 0.00 40.20 6.13
2288 2429 3.124921 GGGATCCCAACGCACACG 61.125 66.667 26.95 0.00 39.85 4.49
2390 2531 6.503524 TGAAATATTCTCATGACGACGATGA 58.496 36.000 0.00 0.00 0.00 2.92
2394 2535 2.863739 TCTCATGACGACGATGACAAC 58.136 47.619 0.00 0.00 0.00 3.32
2494 2648 4.384846 GCAATGAACTGAAAATGCTGTCAG 59.615 41.667 0.00 0.00 45.59 3.51
2534 2688 0.828677 GTTAGGCCTCCTCCGCTTTA 59.171 55.000 9.68 0.00 34.61 1.85
2535 2689 1.416772 GTTAGGCCTCCTCCGCTTTAT 59.583 52.381 9.68 0.00 34.61 1.40
2536 2690 2.631545 GTTAGGCCTCCTCCGCTTTATA 59.368 50.000 9.68 0.00 34.61 0.98
2634 2788 6.534059 CATTACACTCTAATGGACAACAACG 58.466 40.000 0.00 0.00 32.77 4.10
2637 2791 1.393539 CTCTAATGGACAACAACGGCG 59.606 52.381 4.80 4.80 0.00 6.46
2642 2800 0.948623 TGGACAACAACGGCGATCTG 60.949 55.000 16.62 10.44 0.00 2.90
2669 2827 3.644606 AGGAGCAGCAGGTGGTGG 61.645 66.667 9.50 0.00 43.24 4.61
2877 3035 1.448540 CAGCTTCGCCACCTTCGAT 60.449 57.895 0.00 0.00 35.75 3.59
2879 3037 1.741770 GCTTCGCCACCTTCGATGT 60.742 57.895 0.00 0.00 35.75 3.06
2913 3071 0.321346 TGCTCTGGATTCTGTTGCGA 59.679 50.000 0.00 0.00 0.00 5.10
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 7.958053 TGCAAATATCATCAGATCACTACTG 57.042 36.000 0.00 0.00 35.67 2.74
84 90 1.303561 TGCCTGCCACAAGTGATCC 60.304 57.895 0.94 0.00 0.00 3.36
134 140 2.167487 TGTTTTGTCAAAGAGGCCCAAC 59.833 45.455 0.00 0.00 0.00 3.77
219 225 4.220602 TGTTTCTGGAGATCTGAATCGTCA 59.779 41.667 0.00 0.00 36.97 4.35
220 226 4.564769 GTGTTTCTGGAGATCTGAATCGTC 59.435 45.833 0.00 0.00 36.97 4.20
221 227 4.499183 GTGTTTCTGGAGATCTGAATCGT 58.501 43.478 0.00 0.00 36.97 3.73
222 228 3.868077 GGTGTTTCTGGAGATCTGAATCG 59.132 47.826 0.00 0.00 36.97 3.34
223 229 4.633565 GTGGTGTTTCTGGAGATCTGAATC 59.366 45.833 0.00 0.00 34.14 2.52
224 230 4.042062 TGTGGTGTTTCTGGAGATCTGAAT 59.958 41.667 0.00 0.00 34.14 2.57
225 231 3.390967 TGTGGTGTTTCTGGAGATCTGAA 59.609 43.478 0.00 0.00 0.00 3.02
251 258 1.256812 CCTGGTGTTCCCATCCAAAC 58.743 55.000 0.00 0.00 44.15 2.93
291 298 3.181493 CCAGGAATAGCACATTCAGTTGC 60.181 47.826 11.73 0.00 0.00 4.17
354 365 0.035458 CGTGGCCTCTTTTCTGGTCT 59.965 55.000 3.32 0.00 0.00 3.85
407 418 3.008485 GCTAAGCCTGGATATGCTACCTT 59.992 47.826 0.00 0.00 36.66 3.50
447 458 1.277273 TGGAGTGCAGACAGATCAAGG 59.723 52.381 0.00 0.00 0.00 3.61
457 468 1.693606 TGTCTGAATGTGGAGTGCAGA 59.306 47.619 0.00 0.00 33.58 4.26
533 544 7.514127 AGATTTATCCAGATGACTAAAGGGCTA 59.486 37.037 0.00 0.00 0.00 3.93
570 584 6.650807 TCATTATGCTGTCGATTTAGGAATCC 59.349 38.462 0.00 0.00 38.76 3.01
647 661 5.237996 CACAACAGAGTCTGAATTGACACAT 59.762 40.000 26.86 2.89 39.27 3.21
665 679 1.886222 GCCCTGTGGATAAGCACAACA 60.886 52.381 0.00 0.00 0.00 3.33
666 680 0.811281 GCCCTGTGGATAAGCACAAC 59.189 55.000 0.00 0.00 0.00 3.32
668 682 0.403655 TTGCCCTGTGGATAAGCACA 59.596 50.000 0.00 0.00 32.18 4.57
723 748 1.070914 TGTTGCTATTGTCGGTGTGGA 59.929 47.619 0.00 0.00 0.00 4.02
766 791 1.973515 TGCAGATGAGTCCTGAGTTGT 59.026 47.619 0.99 0.00 33.65 3.32
767 792 2.028294 AGTGCAGATGAGTCCTGAGTTG 60.028 50.000 0.00 0.00 33.65 3.16
768 793 2.028294 CAGTGCAGATGAGTCCTGAGTT 60.028 50.000 0.00 0.00 33.65 3.01
769 794 1.549620 CAGTGCAGATGAGTCCTGAGT 59.450 52.381 0.00 0.00 33.65 3.41
770 795 1.549620 ACAGTGCAGATGAGTCCTGAG 59.450 52.381 5.87 0.00 33.65 3.35
771 796 1.274447 CACAGTGCAGATGAGTCCTGA 59.726 52.381 5.87 0.00 33.65 3.86
772 797 1.675116 CCACAGTGCAGATGAGTCCTG 60.675 57.143 5.87 0.76 34.88 3.86
773 798 0.612229 CCACAGTGCAGATGAGTCCT 59.388 55.000 5.87 0.00 0.00 3.85
774 799 0.322975 ACCACAGTGCAGATGAGTCC 59.677 55.000 5.87 0.00 0.00 3.85
775 800 1.001293 TCACCACAGTGCAGATGAGTC 59.999 52.381 5.87 0.00 44.16 3.36
776 801 1.001746 CTCACCACAGTGCAGATGAGT 59.998 52.381 5.87 0.70 44.16 3.41
777 802 1.001746 ACTCACCACAGTGCAGATGAG 59.998 52.381 15.53 15.53 44.16 2.90
778 803 1.001293 GACTCACCACAGTGCAGATGA 59.999 52.381 5.87 0.00 44.16 2.92
779 804 1.270465 TGACTCACCACAGTGCAGATG 60.270 52.381 0.00 0.00 44.16 2.90
780 805 1.001746 CTGACTCACCACAGTGCAGAT 59.998 52.381 0.00 0.00 44.16 2.90
781 806 0.390492 CTGACTCACCACAGTGCAGA 59.610 55.000 0.00 0.00 44.16 4.26
782 807 0.105593 ACTGACTCACCACAGTGCAG 59.894 55.000 0.00 0.00 44.18 4.41
783 808 0.104855 GACTGACTCACCACAGTGCA 59.895 55.000 0.00 0.00 45.54 4.57
784 809 0.104855 TGACTGACTCACCACAGTGC 59.895 55.000 0.00 0.00 45.54 4.40
785 810 2.602257 TTGACTGACTCACCACAGTG 57.398 50.000 0.00 0.00 45.54 3.66
852 899 6.950842 TCTGTACTTGGTGAGATGATTTGAT 58.049 36.000 0.00 0.00 0.00 2.57
853 900 6.358974 TCTGTACTTGGTGAGATGATTTGA 57.641 37.500 0.00 0.00 0.00 2.69
854 901 7.439157 TTTCTGTACTTGGTGAGATGATTTG 57.561 36.000 0.00 0.00 0.00 2.32
855 902 7.884877 TGATTTCTGTACTTGGTGAGATGATTT 59.115 33.333 0.00 0.00 0.00 2.17
856 903 7.397221 TGATTTCTGTACTTGGTGAGATGATT 58.603 34.615 0.00 0.00 0.00 2.57
857 904 6.950842 TGATTTCTGTACTTGGTGAGATGAT 58.049 36.000 0.00 0.00 0.00 2.45
858 905 6.358974 TGATTTCTGTACTTGGTGAGATGA 57.641 37.500 0.00 0.00 0.00 2.92
859 906 7.439157 TTTGATTTCTGTACTTGGTGAGATG 57.561 36.000 0.00 0.00 0.00 2.90
860 907 7.884877 TGATTTGATTTCTGTACTTGGTGAGAT 59.115 33.333 0.00 0.00 0.00 2.75
861 908 7.223584 TGATTTGATTTCTGTACTTGGTGAGA 58.776 34.615 0.00 0.00 0.00 3.27
862 909 7.439157 TGATTTGATTTCTGTACTTGGTGAG 57.561 36.000 0.00 0.00 0.00 3.51
863 910 7.884877 AGATGATTTGATTTCTGTACTTGGTGA 59.115 33.333 0.00 0.00 0.00 4.02
864 911 8.048534 AGATGATTTGATTTCTGTACTTGGTG 57.951 34.615 0.00 0.00 0.00 4.17
865 912 7.884877 TGAGATGATTTGATTTCTGTACTTGGT 59.115 33.333 0.00 0.00 0.00 3.67
866 913 8.180267 GTGAGATGATTTGATTTCTGTACTTGG 58.820 37.037 0.00 0.00 0.00 3.61
867 914 8.180267 GGTGAGATGATTTGATTTCTGTACTTG 58.820 37.037 0.00 0.00 0.00 3.16
868 915 7.884877 TGGTGAGATGATTTGATTTCTGTACTT 59.115 33.333 0.00 0.00 0.00 2.24
869 916 7.397221 TGGTGAGATGATTTGATTTCTGTACT 58.603 34.615 0.00 0.00 0.00 2.73
870 917 7.615582 TGGTGAGATGATTTGATTTCTGTAC 57.384 36.000 0.00 0.00 0.00 2.90
871 918 7.884877 ACTTGGTGAGATGATTTGATTTCTGTA 59.115 33.333 0.00 0.00 0.00 2.74
872 919 6.718454 ACTTGGTGAGATGATTTGATTTCTGT 59.282 34.615 0.00 0.00 0.00 3.41
873 920 7.154435 ACTTGGTGAGATGATTTGATTTCTG 57.846 36.000 0.00 0.00 0.00 3.02
874 921 7.884877 TGTACTTGGTGAGATGATTTGATTTCT 59.115 33.333 0.00 0.00 0.00 2.52
875 922 8.044060 TGTACTTGGTGAGATGATTTGATTTC 57.956 34.615 0.00 0.00 0.00 2.17
876 923 7.884877 TCTGTACTTGGTGAGATGATTTGATTT 59.115 33.333 0.00 0.00 0.00 2.17
877 924 7.397221 TCTGTACTTGGTGAGATGATTTGATT 58.603 34.615 0.00 0.00 0.00 2.57
1703 1815 2.742372 GTCGGCTTGCACCACGAT 60.742 61.111 8.72 0.00 37.69 3.73
1741 1853 1.365633 GGATGGCGGCTAGAGTCTG 59.634 63.158 11.43 0.00 0.00 3.51
1766 1878 4.586472 CGTAGCGATCGACGGCGT 62.586 66.667 21.57 14.65 42.83 5.68
1885 1997 4.493350 CAGAAATACTTCCACGTACGTACG 59.507 45.833 38.49 38.49 42.69 3.67
1951 2075 2.229690 TACCGCGGGAAGTTGTAGGC 62.230 60.000 31.76 0.00 0.00 3.93
2017 2150 3.507622 GGGGAAAACATTCTGGAGTTCAG 59.492 47.826 0.00 0.00 44.68 3.02
2036 2169 6.070824 ACAACATTATTAGCAAGGAAAAGGGG 60.071 38.462 0.00 0.00 0.00 4.79
2190 2326 3.708631 CTCCTGTTAGGACATCATGGTCT 59.291 47.826 0.00 0.00 40.06 3.85
2232 2368 0.321653 GTTGTTCGCCCTGATCCTGT 60.322 55.000 0.00 0.00 0.00 4.00
2245 2386 4.738252 GTGGATTTTCTTGTTCGGTTGTTC 59.262 41.667 0.00 0.00 0.00 3.18
2277 2418 3.805385 CTGTTGGCGTGTGCGTTGG 62.805 63.158 0.00 0.00 44.10 3.77
2337 2478 2.003301 GCGTGTCATTTTCTCCTCTCC 58.997 52.381 0.00 0.00 0.00 3.71
2390 2531 3.560025 GCCCCATGCTATGCTATAGTTGT 60.560 47.826 0.84 0.00 36.87 3.32
2494 2648 3.116531 GCGCCGGCGGATATAACC 61.117 66.667 45.81 25.49 40.19 2.85
2534 2688 7.748691 ACCCGTTGTTAACTGTTGTTATTAT 57.251 32.000 7.22 0.00 38.31 1.28
2535 2689 7.930865 ACTACCCGTTGTTAACTGTTGTTATTA 59.069 33.333 7.22 0.00 38.31 0.98
2536 2690 6.767423 ACTACCCGTTGTTAACTGTTGTTATT 59.233 34.615 7.22 0.00 38.31 1.40
2614 2768 3.399330 CCGTTGTTGTCCATTAGAGTGT 58.601 45.455 0.00 0.00 0.00 3.55
2634 2788 1.783031 CTGAATGCCTGCAGATCGCC 61.783 60.000 17.39 1.76 41.33 5.54
2637 2791 1.595466 CTCCTGAATGCCTGCAGATC 58.405 55.000 17.39 7.16 34.06 2.75
2642 2800 2.772691 GCTGCTCCTGAATGCCTGC 61.773 63.158 0.00 0.00 0.00 4.85
2692 2850 4.000928 AGATGTGGGTGTAGAGAGGAAT 57.999 45.455 0.00 0.00 0.00 3.01
2877 3035 1.195115 GCATGGAGGAGGAGTACACA 58.805 55.000 0.00 0.00 0.00 3.72
2879 3037 1.289231 AGAGCATGGAGGAGGAGTACA 59.711 52.381 0.00 0.00 0.00 2.90
2913 3071 1.207329 GAGAACTACCGGCAGATGGTT 59.793 52.381 9.21 0.00 40.96 3.67


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

AutoCloner maintained by Alex Coulton.