Multiple sequence alignment - TraesCS2D01G215100

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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 TraesCS2D01G215100 chr2D 100.000 2555 0 0 1 2555 177444883 177442329 0.000000e+00 4719.0
1 TraesCS2D01G215100 chr2D 95.307 277 10 3 555 830 528445933 528446207 1.090000e-118 436.0
2 TraesCS2D01G215100 chr6A 93.648 1291 58 4 567 1857 480459510 480460776 0.000000e+00 1908.0
3 TraesCS2D01G215100 chr6A 96.848 698 22 0 1858 2555 480460933 480461630 0.000000e+00 1168.0
4 TraesCS2D01G215100 chr6A 93.077 130 7 2 1785 1913 480460784 480460912 3.360000e-44 189.0
5 TraesCS2D01G215100 chr4A 92.216 1349 61 12 567 1913 500090442 500091748 0.000000e+00 1869.0
6 TraesCS2D01G215100 chr4A 97.764 492 11 0 1858 2349 500091769 500092260 0.000000e+00 848.0
7 TraesCS2D01G215100 chr4A 88.215 577 58 7 1 568 41493693 41493118 0.000000e+00 680.0
8 TraesCS2D01G215100 chr4A 90.566 106 10 0 1021 1126 500090947 500091052 9.530000e-30 141.0
9 TraesCS2D01G215100 chr7D 95.652 920 39 1 847 1765 318857936 318858855 0.000000e+00 1476.0
10 TraesCS2D01G215100 chr7D 95.402 696 31 1 1858 2553 318859097 318859791 0.000000e+00 1107.0
11 TraesCS2D01G215100 chr7D 95.489 266 10 2 565 830 318857700 318857963 8.450000e-115 424.0
12 TraesCS2D01G215100 chr7D 94.521 73 4 0 1785 1857 318858905 318858977 2.080000e-21 113.0
13 TraesCS2D01G215100 chr7B 97.564 698 17 0 1858 2555 622461887 622462584 0.000000e+00 1195.0
14 TraesCS2D01G215100 chr7B 96.418 698 25 0 1858 2555 461210589 461209892 0.000000e+00 1151.0
15 TraesCS2D01G215100 chr7B 94.905 687 35 0 1057 1743 622460977 622461663 0.000000e+00 1075.0
16 TraesCS2D01G215100 chr7B 89.782 597 38 2 566 1162 622460545 622461118 0.000000e+00 743.0
17 TraesCS2D01G215100 chr7B 88.408 578 54 9 1 568 390716473 390715899 0.000000e+00 684.0
18 TraesCS2D01G215100 chr7B 83.708 712 75 26 1075 1776 461211303 461210623 3.590000e-178 634.0
19 TraesCS2D01G215100 chr7B 93.671 237 13 2 565 801 655058622 655058388 1.120000e-93 353.0
20 TraesCS2D01G215100 chr7B 95.161 124 6 0 1790 1913 622461743 622461866 2.010000e-46 196.0
21 TraesCS2D01G215100 chr6D 96.418 698 25 0 1858 2555 87581392 87580695 0.000000e+00 1151.0
22 TraesCS2D01G215100 chr6D 89.502 562 50 8 15 568 371445868 371446428 0.000000e+00 702.0
23 TraesCS2D01G215100 chr6D 88.428 579 56 8 1 568 5272770 5272192 0.000000e+00 688.0
24 TraesCS2D01G215100 chr6D 83.044 749 85 28 1038 1776 87582143 87581427 2.140000e-180 641.0
25 TraesCS2D01G215100 chr4D 96.104 693 27 0 1863 2555 498000079 498000771 0.000000e+00 1131.0
26 TraesCS2D01G215100 chr4D 93.684 665 38 1 1891 2555 352496892 352497552 0.000000e+00 992.0
27 TraesCS2D01G215100 chr4D 83.989 712 73 26 1075 1776 497999369 498000049 0.000000e+00 645.0
28 TraesCS2D01G215100 chr4D 87.796 549 57 8 1019 1558 352487386 352487933 3.590000e-178 634.0
29 TraesCS2D01G215100 chr4D 94.915 59 3 0 1668 1726 352487965 352488023 2.710000e-15 93.5
30 TraesCS2D01G215100 chr1A 91.172 657 46 10 1908 2555 369353036 369352383 0.000000e+00 881.0
31 TraesCS2D01G215100 chr1A 94.052 269 14 2 562 830 216480715 216480981 8.510000e-110 407.0
32 TraesCS2D01G215100 chr1A 95.370 108 4 1 847 953 216480954 216481061 1.220000e-38 171.0
33 TraesCS2D01G215100 chr1A 95.652 69 3 0 1789 1857 216481153 216481221 7.470000e-21 111.0
34 TraesCS2D01G215100 chr5D 91.159 656 44 12 1908 2553 268493302 268492651 0.000000e+00 878.0
35 TraesCS2D01G215100 chr1D 90.744 659 46 10 1908 2555 194178169 194178823 0.000000e+00 865.0
36 TraesCS2D01G215100 chr5B 89.775 577 49 7 1 568 134143324 134143899 0.000000e+00 730.0
37 TraesCS2D01G215100 chr5B 94.737 266 11 3 563 827 673670811 673671074 6.580000e-111 411.0
38 TraesCS2D01G215100 chr2B 89.310 580 50 10 1 568 385871701 385871122 0.000000e+00 717.0
39 TraesCS2D01G215100 chr3D 88.754 578 52 9 1 568 342435236 342435810 0.000000e+00 695.0
40 TraesCS2D01G215100 chr4B 88.522 575 58 5 1 568 447243202 447243775 0.000000e+00 689.0
41 TraesCS2D01G215100 chr6B 88.235 578 56 9 1 568 485774658 485775233 0.000000e+00 680.0
42 TraesCS2D01G215100 chr5A 91.870 246 16 4 563 807 546706912 546706670 8.750000e-90 340.0


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 TraesCS2D01G215100 chr2D 177442329 177444883 2554 True 4719.000000 4719 100.000000 1 2555 1 chr2D.!!$R1 2554
1 TraesCS2D01G215100 chr6A 480459510 480461630 2120 False 1088.333333 1908 94.524333 567 2555 3 chr6A.!!$F1 1988
2 TraesCS2D01G215100 chr4A 500090442 500092260 1818 False 952.666667 1869 93.515333 567 2349 3 chr4A.!!$F1 1782
3 TraesCS2D01G215100 chr4A 41493118 41493693 575 True 680.000000 680 88.215000 1 568 1 chr4A.!!$R1 567
4 TraesCS2D01G215100 chr7D 318857700 318859791 2091 False 780.000000 1476 95.266000 565 2553 4 chr7D.!!$F1 1988
5 TraesCS2D01G215100 chr7B 461209892 461211303 1411 True 892.500000 1151 90.063000 1075 2555 2 chr7B.!!$R3 1480
6 TraesCS2D01G215100 chr7B 622460545 622462584 2039 False 802.250000 1195 94.353000 566 2555 4 chr7B.!!$F1 1989
7 TraesCS2D01G215100 chr7B 390715899 390716473 574 True 684.000000 684 88.408000 1 568 1 chr7B.!!$R1 567
8 TraesCS2D01G215100 chr6D 87580695 87582143 1448 True 896.000000 1151 89.731000 1038 2555 2 chr6D.!!$R2 1517
9 TraesCS2D01G215100 chr6D 371445868 371446428 560 False 702.000000 702 89.502000 15 568 1 chr6D.!!$F1 553
10 TraesCS2D01G215100 chr6D 5272192 5272770 578 True 688.000000 688 88.428000 1 568 1 chr6D.!!$R1 567
11 TraesCS2D01G215100 chr4D 352496892 352497552 660 False 992.000000 992 93.684000 1891 2555 1 chr4D.!!$F1 664
12 TraesCS2D01G215100 chr4D 497999369 498000771 1402 False 888.000000 1131 90.046500 1075 2555 2 chr4D.!!$F3 1480
13 TraesCS2D01G215100 chr4D 352487386 352488023 637 False 363.750000 634 91.355500 1019 1726 2 chr4D.!!$F2 707
14 TraesCS2D01G215100 chr1A 369352383 369353036 653 True 881.000000 881 91.172000 1908 2555 1 chr1A.!!$R1 647
15 TraesCS2D01G215100 chr1A 216480715 216481221 506 False 229.666667 407 95.024667 562 1857 3 chr1A.!!$F1 1295
16 TraesCS2D01G215100 chr5D 268492651 268493302 651 True 878.000000 878 91.159000 1908 2553 1 chr5D.!!$R1 645
17 TraesCS2D01G215100 chr1D 194178169 194178823 654 False 865.000000 865 90.744000 1908 2555 1 chr1D.!!$F1 647
18 TraesCS2D01G215100 chr5B 134143324 134143899 575 False 730.000000 730 89.775000 1 568 1 chr5B.!!$F1 567
19 TraesCS2D01G215100 chr2B 385871122 385871701 579 True 717.000000 717 89.310000 1 568 1 chr2B.!!$R1 567
20 TraesCS2D01G215100 chr3D 342435236 342435810 574 False 695.000000 695 88.754000 1 568 1 chr3D.!!$F1 567
21 TraesCS2D01G215100 chr4B 447243202 447243775 573 False 689.000000 689 88.522000 1 568 1 chr4B.!!$F1 567
22 TraesCS2D01G215100 chr6B 485774658 485775233 575 False 680.000000 680 88.235000 1 568 1 chr6B.!!$F1 567

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
896 937 0.261696 GCCTCCTCTCCCTCTCTCTT 59.738 60.0 0.0 0.0 0.0 2.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1826 2071 1.134965 TGTTTGGTTTTTGAGGGTGCG 60.135 47.619 0.0 0.0 0.0 5.34 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
55 57 8.137437 GCTATGCATCTCCTAGATTAGATCTTC 58.863 40.741 0.19 0.00 40.76 2.87
187 200 5.352569 CGTTGATGCTCAGATTTCTTACCTT 59.647 40.000 0.00 0.00 0.00 3.50
192 205 5.491982 TGCTCAGATTTCTTACCTTCCTTC 58.508 41.667 0.00 0.00 0.00 3.46
215 228 5.694910 TCTCTTATTTTGATTCGGCGGTATC 59.305 40.000 7.21 11.31 0.00 2.24
334 347 0.892063 GGTGTCTGTCTCTCCCACTC 59.108 60.000 0.00 0.00 0.00 3.51
345 358 3.948473 TCTCTCCCACTCTAGTTGAATCG 59.052 47.826 0.00 0.00 0.00 3.34
352 365 4.572389 CCACTCTAGTTGAATCGGATTTGG 59.428 45.833 4.47 1.66 0.00 3.28
363 376 1.064758 TCGGATTTGGCATAGGCAGTT 60.065 47.619 0.15 0.00 43.71 3.16
474 489 7.629085 CACGTAAAAATTGCAACAACAAAGTAC 59.371 33.333 0.00 0.00 32.27 2.73
476 491 8.324567 CGTAAAAATTGCAACAACAAAGTACAT 58.675 29.630 0.00 0.00 32.27 2.29
494 509 7.173863 AGTACATGACGTCTAACTTGTTTTG 57.826 36.000 17.92 1.96 0.00 2.44
501 519 3.365969 CGTCTAACTTGTTTTGGGGCATC 60.366 47.826 0.00 0.00 0.00 3.91
537 555 5.518848 TGGCCAAAATGTGATGTGATATC 57.481 39.130 0.61 0.00 0.00 1.63
556 574 9.138062 GTGATATCTGTTGATGTATGAGATGAC 57.862 37.037 3.98 0.00 34.32 3.06
606 624 1.035923 TTGGGCGCATCTTGAAAACA 58.964 45.000 10.83 0.00 0.00 2.83
737 755 1.687660 ACATGAATGGTTTGTGCAGCA 59.312 42.857 0.00 0.00 0.00 4.41
779 797 1.886542 GCAAGTGGGAATCGGTTTCTT 59.113 47.619 0.00 0.00 34.56 2.52
820 861 1.333115 CGCATGCAAGTGTGAACATG 58.667 50.000 19.57 0.00 42.20 3.21
821 862 1.069091 CGCATGCAAGTGTGAACATGA 60.069 47.619 19.57 0.00 41.93 3.07
822 863 2.592194 GCATGCAAGTGTGAACATGAG 58.408 47.619 14.21 0.00 41.93 2.90
823 864 2.030540 GCATGCAAGTGTGAACATGAGT 60.031 45.455 14.21 0.00 41.93 3.41
824 865 3.561503 CATGCAAGTGTGAACATGAGTG 58.438 45.455 0.00 0.00 41.93 3.51
825 866 1.334556 TGCAAGTGTGAACATGAGTGC 59.665 47.619 0.00 0.00 0.00 4.40
826 867 1.334556 GCAAGTGTGAACATGAGTGCA 59.665 47.619 0.00 0.00 0.00 4.57
827 868 2.030540 GCAAGTGTGAACATGAGTGCAT 60.031 45.455 0.00 0.00 35.24 3.96
836 877 1.977188 CATGAGTGCATGCAAGTGTG 58.023 50.000 24.58 15.20 44.76 3.82
837 878 1.538075 CATGAGTGCATGCAAGTGTGA 59.462 47.619 24.58 1.78 44.76 3.58
838 879 1.677942 TGAGTGCATGCAAGTGTGAA 58.322 45.000 24.58 0.96 0.00 3.18
839 880 1.334556 TGAGTGCATGCAAGTGTGAAC 59.665 47.619 24.58 7.30 0.00 3.18
840 881 1.334556 GAGTGCATGCAAGTGTGAACA 59.665 47.619 24.58 0.00 0.00 3.18
841 882 1.958579 AGTGCATGCAAGTGTGAACAT 59.041 42.857 24.58 0.00 0.00 2.71
842 883 2.055838 GTGCATGCAAGTGTGAACATG 58.944 47.619 24.58 0.00 42.20 3.21
843 884 1.955080 TGCATGCAAGTGTGAACATGA 59.045 42.857 20.30 0.00 41.93 3.07
844 885 2.030628 TGCATGCAAGTGTGAACATGAG 60.031 45.455 20.30 0.00 41.93 2.90
845 886 2.030540 GCATGCAAGTGTGAACATGAGT 60.031 45.455 14.21 0.00 41.93 3.41
846 887 3.561503 CATGCAAGTGTGAACATGAGTG 58.438 45.455 0.00 0.00 41.93 3.51
847 888 1.334556 TGCAAGTGTGAACATGAGTGC 59.665 47.619 0.00 0.00 0.00 4.40
848 889 1.334556 GCAAGTGTGAACATGAGTGCA 59.665 47.619 0.00 0.00 0.00 4.57
849 890 2.030540 GCAAGTGTGAACATGAGTGCAT 60.031 45.455 0.00 0.00 35.24 3.96
858 899 1.977188 CATGAGTGCATGCAAGTGTG 58.023 50.000 24.58 15.20 44.76 3.82
859 900 1.538075 CATGAGTGCATGCAAGTGTGA 59.462 47.619 24.58 1.78 44.76 3.58
860 901 1.677942 TGAGTGCATGCAAGTGTGAA 58.322 45.000 24.58 0.96 0.00 3.18
861 902 1.334556 TGAGTGCATGCAAGTGTGAAC 59.665 47.619 24.58 7.30 0.00 3.18
862 903 1.334556 GAGTGCATGCAAGTGTGAACA 59.665 47.619 24.58 0.00 0.00 3.18
863 904 1.958579 AGTGCATGCAAGTGTGAACAT 59.041 42.857 24.58 0.00 0.00 2.71
896 937 0.261696 GCCTCCTCTCCCTCTCTCTT 59.738 60.000 0.00 0.00 0.00 2.85
987 1031 0.405198 TTGGAGTCCATGTGGCACAT 59.595 50.000 26.78 26.78 39.91 3.21
993 1037 2.041620 AGTCCATGTGGCACATAAACCT 59.958 45.455 30.96 20.40 44.52 3.50
997 1041 3.257873 CCATGTGGCACATAAACCTGAAA 59.742 43.478 30.96 0.11 44.52 2.69
1003 1047 4.586421 TGGCACATAAACCTGAAACAATGA 59.414 37.500 0.00 0.00 0.00 2.57
1099 1179 2.449322 AGGAGGGGCTAGGCATGG 60.449 66.667 19.14 0.00 0.00 3.66
1105 1185 2.279517 GGCTAGGCATGGTCGACG 60.280 66.667 12.16 0.00 0.00 5.12
1114 1194 3.642778 ATGGTCGACGTTCCTGCCG 62.643 63.158 9.92 0.00 0.00 5.69
1131 1211 1.682684 CGTGGAGGAGGTGCTAGGT 60.683 63.158 0.00 0.00 0.00 3.08
1206 1286 0.843309 TGAAGGAGGTGGTGCAAGAA 59.157 50.000 0.00 0.00 0.00 2.52
1346 1470 3.885901 GGTGAGGCTTCCATATTCCTTTC 59.114 47.826 0.00 0.00 0.00 2.62
1395 1519 1.194547 GATTTGCGTTCTTGCGAGTCA 59.805 47.619 0.00 0.00 35.63 3.41
1515 1639 5.725551 ACCCATCTATCTATCTCGAGGAT 57.274 43.478 13.56 10.06 38.38 3.24
1826 2071 2.870411 GTCCACTACACACCACTCAAAC 59.130 50.000 0.00 0.00 0.00 2.93
1871 2192 7.013846 CACACAAGGGAGTAAGGTTAATGAAAA 59.986 37.037 0.00 0.00 0.00 2.29
1904 2225 2.093288 CAGTAGCACCATCACATGAGGT 60.093 50.000 0.00 0.00 35.65 3.85
2307 2641 3.198635 TGAATTGAGGCAAACCAACCAAA 59.801 39.130 0.00 0.00 39.06 3.28
2349 2683 6.099269 TCAGGAGAATTAGGTGGTTGGTATAC 59.901 42.308 0.00 0.00 0.00 1.47
2385 2719 0.691078 CCACCCCTAGCAGCTTCCTA 60.691 60.000 0.00 0.00 0.00 2.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
187 200 4.570772 CGCCGAATCAAAATAAGAGAAGGA 59.429 41.667 0.00 0.00 0.00 3.36
192 205 5.388475 CGATACCGCCGAATCAAAATAAGAG 60.388 44.000 0.00 0.00 0.00 2.85
215 228 2.892425 GAGCCGCTTCATCCCACG 60.892 66.667 0.00 0.00 0.00 4.94
334 347 5.180117 CCTATGCCAAATCCGATTCAACTAG 59.820 44.000 0.00 0.00 0.00 2.57
345 358 2.659428 AGAACTGCCTATGCCAAATCC 58.341 47.619 0.00 0.00 36.33 3.01
352 365 3.873952 CCTTCTACAAGAACTGCCTATGC 59.126 47.826 0.00 0.00 31.95 3.14
363 376 6.362248 AGTTGCCTTTTAACCTTCTACAAGA 58.638 36.000 0.00 0.00 0.00 3.02
474 489 4.320202 CCCCAAAACAAGTTAGACGTCATG 60.320 45.833 19.50 10.55 0.00 3.07
476 491 3.207778 CCCCAAAACAAGTTAGACGTCA 58.792 45.455 19.50 0.48 0.00 4.35
501 519 2.127271 TGGCCATACCACATCACAAG 57.873 50.000 0.00 0.00 46.36 3.16
537 555 6.053650 ACATGGTCATCTCATACATCAACAG 58.946 40.000 0.00 0.00 0.00 3.16
556 574 3.433306 TGGAGGGAGTACAAAACATGG 57.567 47.619 0.00 0.00 0.00 3.66
737 755 3.004002 CACTCATGTTCACACTTGCATGT 59.996 43.478 0.00 0.00 39.54 3.21
820 861 1.334556 TGTTCACACTTGCATGCACTC 59.665 47.619 22.58 5.40 0.00 3.51
821 862 1.391577 TGTTCACACTTGCATGCACT 58.608 45.000 22.58 5.42 0.00 4.40
822 863 2.055838 CATGTTCACACTTGCATGCAC 58.944 47.619 22.58 6.81 33.45 4.57
823 864 1.955080 TCATGTTCACACTTGCATGCA 59.045 42.857 18.46 18.46 38.72 3.96
824 865 2.030540 ACTCATGTTCACACTTGCATGC 60.031 45.455 11.82 11.82 38.72 4.06
825 866 3.561503 CACTCATGTTCACACTTGCATG 58.438 45.455 0.00 0.00 39.81 4.06
826 867 2.030540 GCACTCATGTTCACACTTGCAT 60.031 45.455 0.00 0.00 0.00 3.96
827 868 1.334556 GCACTCATGTTCACACTTGCA 59.665 47.619 0.00 0.00 0.00 4.08
828 869 1.334556 TGCACTCATGTTCACACTTGC 59.665 47.619 0.00 0.00 0.00 4.01
829 870 3.561503 CATGCACTCATGTTCACACTTG 58.438 45.455 0.00 0.00 43.85 3.16
830 871 3.909776 CATGCACTCATGTTCACACTT 57.090 42.857 0.00 0.00 43.85 3.16
840 881 1.900245 TCACACTTGCATGCACTCAT 58.100 45.000 22.58 3.63 0.00 2.90
841 882 1.334556 GTTCACACTTGCATGCACTCA 59.665 47.619 22.58 4.90 0.00 3.41
842 883 1.334556 TGTTCACACTTGCATGCACTC 59.665 47.619 22.58 5.40 0.00 3.51
843 884 1.391577 TGTTCACACTTGCATGCACT 58.608 45.000 22.58 5.42 0.00 4.40
844 885 2.055838 CATGTTCACACTTGCATGCAC 58.944 47.619 22.58 6.81 33.45 4.57
845 886 1.955080 TCATGTTCACACTTGCATGCA 59.045 42.857 18.46 18.46 38.72 3.96
846 887 2.030540 ACTCATGTTCACACTTGCATGC 60.031 45.455 11.82 11.82 38.72 4.06
847 888 3.561503 CACTCATGTTCACACTTGCATG 58.438 45.455 0.00 0.00 39.81 4.06
848 889 2.030540 GCACTCATGTTCACACTTGCAT 60.031 45.455 0.00 0.00 0.00 3.96
849 890 1.334556 GCACTCATGTTCACACTTGCA 59.665 47.619 0.00 0.00 0.00 4.08
850 891 1.334556 TGCACTCATGTTCACACTTGC 59.665 47.619 0.00 0.00 0.00 4.01
851 892 3.561503 CATGCACTCATGTTCACACTTG 58.438 45.455 0.00 0.00 43.85 3.16
852 893 3.909776 CATGCACTCATGTTCACACTT 57.090 42.857 0.00 0.00 43.85 3.16
862 903 2.515523 GGCCTCGCATGCACTCAT 60.516 61.111 19.57 0.00 0.00 2.90
863 904 3.670637 GAGGCCTCGCATGCACTCA 62.671 63.158 19.06 0.00 0.00 3.41
896 937 4.340950 ACAAAATGAAAAAGGAGCCGAAGA 59.659 37.500 0.00 0.00 0.00 2.87
987 1031 6.040391 CCTTGGAGTTCATTGTTTCAGGTTTA 59.960 38.462 0.00 0.00 0.00 2.01
993 1037 4.523943 CCATCCTTGGAGTTCATTGTTTCA 59.476 41.667 0.00 0.00 46.92 2.69
997 1041 2.450476 GCCATCCTTGGAGTTCATTGT 58.550 47.619 0.00 0.00 46.92 2.71
1099 1179 3.103911 CACGGCAGGAACGTCGAC 61.104 66.667 5.18 5.18 43.58 4.20
1105 1185 2.266055 CTCCTCCACGGCAGGAAC 59.734 66.667 1.44 0.00 39.69 3.62
1114 1194 1.901085 CACCTAGCACCTCCTCCAC 59.099 63.158 0.00 0.00 0.00 4.02
1131 1211 2.130426 GGCAGGATCCTCGAGAGCA 61.130 63.158 12.69 0.00 30.22 4.26
1206 1286 3.003763 GGCCCTCCGACCTCTTGT 61.004 66.667 0.00 0.00 0.00 3.16
1245 1369 0.879090 GGTTGGAGTAGGTTTTGCGG 59.121 55.000 0.00 0.00 0.00 5.69
1321 1445 0.546122 AATATGGAAGCCTCACCGCA 59.454 50.000 0.00 0.00 0.00 5.69
1346 1470 0.969894 CGGGAGCCTACATCCTAAGG 59.030 60.000 0.00 0.00 37.01 2.69
1395 1519 2.042162 ACAGAGGCAAGGATTTCCACAT 59.958 45.455 0.00 0.00 38.89 3.21
1515 1639 3.919804 GCACATTATGCGCTTTCTTTTCA 59.080 39.130 9.73 0.00 46.55 2.69
1826 2071 1.134965 TGTTTGGTTTTTGAGGGTGCG 60.135 47.619 0.00 0.00 0.00 5.34
1871 2192 5.950544 TGGTGCTACTGTTGGAGTATTAT 57.049 39.130 0.00 0.00 36.53 1.28
1904 2225 9.554395 TTCTTGAACTCAACATGATTTGTACTA 57.446 29.630 0.00 0.00 37.68 1.82
1981 2302 9.574516 AAAAAGCATTAGAGAGAAAAGGACTTA 57.425 29.630 0.00 0.00 0.00 2.24
2307 2641 9.911788 ATTCTCCTGACACAAACATATTAGATT 57.088 29.630 0.00 0.00 0.00 2.40
2349 2683 3.245264 GGGTGGTTGGGATATTAGGATGG 60.245 52.174 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.