Multiple sequence alignment - TraesCS5B01G200000

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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 TraesCS5B01G200000 chr5B 100.000 2543 0 0 1 2543 360936248 360933706 0.000000e+00 4697.0
1 TraesCS5B01G200000 chr5B 82.199 382 47 8 2183 2543 489277003 489277384 2.460000e-80 309.0
2 TraesCS5B01G200000 chr5D 93.613 1002 44 16 754 1746 313347529 313346539 0.000000e+00 1478.0
3 TraesCS5B01G200000 chr5D 88.226 637 43 15 3 615 313349299 313348671 0.000000e+00 732.0
4 TraesCS5B01G200000 chr5D 80.051 391 49 23 2146 2515 57570970 57571352 1.940000e-66 263.0
5 TraesCS5B01G200000 chr5D 93.878 98 5 1 621 717 313347628 313347531 2.040000e-31 147.0
6 TraesCS5B01G200000 chr5D 87.500 72 6 2 272 343 462278277 462278345 2.100000e-11 80.5
7 TraesCS5B01G200000 chr5A 87.850 1144 63 25 564 1670 407290741 407289637 0.000000e+00 1273.0
8 TraesCS5B01G200000 chr5A 81.973 821 117 22 1748 2543 637049414 637050228 0.000000e+00 667.0
9 TraesCS5B01G200000 chr5A 86.420 486 43 13 3 481 407292244 407291775 6.280000e-141 510.0
10 TraesCS5B01G200000 chr5A 77.239 681 89 31 1905 2543 479653889 479654545 3.130000e-89 339.0
11 TraesCS5B01G200000 chr5A 76.936 581 84 31 1968 2515 205015247 205014684 4.140000e-73 285.0
12 TraesCS5B01G200000 chr5A 93.421 76 3 1 1671 1746 407255835 407255762 7.440000e-21 111.0
13 TraesCS5B01G200000 chr3B 83.024 807 91 28 1748 2515 530606921 530607720 0.000000e+00 689.0
14 TraesCS5B01G200000 chr3B 75.536 233 42 13 1871 2101 543035821 543036040 1.610000e-17 100.0
15 TraesCS5B01G200000 chr3D 82.488 828 102 22 1748 2543 294606632 294605816 0.000000e+00 686.0
16 TraesCS5B01G200000 chr3D 79.493 473 62 15 2092 2543 83892882 83892424 1.140000e-78 303.0
17 TraesCS5B01G200000 chr3D 82.143 140 23 2 1913 2050 83893306 83893167 4.440000e-23 119.0
18 TraesCS5B01G200000 chr6B 81.100 836 113 29 1748 2543 320729179 320728349 5.970000e-176 627.0
19 TraesCS5B01G200000 chr2D 78.996 857 107 32 1745 2543 62018890 62019731 3.750000e-143 518.0
20 TraesCS5B01G200000 chr2D 78.614 678 105 27 1861 2515 643210411 643211071 1.820000e-111 412.0
21 TraesCS5B01G200000 chr7A 80.636 723 85 29 1748 2434 183645460 183646163 2.260000e-140 508.0
22 TraesCS5B01G200000 chr1D 80.873 664 79 21 1869 2504 32548510 32549153 1.770000e-131 479.0
23 TraesCS5B01G200000 chr1D 79.026 739 88 30 1745 2434 342163757 342164477 6.460000e-121 444.0
24 TraesCS5B01G200000 chr7D 79.970 664 99 17 1748 2395 633129472 633128827 2.310000e-125 459.0
25 TraesCS5B01G200000 chr4D 79.360 625 85 29 1838 2440 439742495 439741893 1.420000e-107 399.0
26 TraesCS5B01G200000 chr4D 87.000 100 10 2 271 370 255151303 255151399 2.670000e-20 110.0
27 TraesCS5B01G200000 chr1B 77.591 714 113 26 1861 2543 612924755 612924058 3.070000e-104 388.0
28 TraesCS5B01G200000 chr1B 87.912 91 8 2 280 370 33978731 33978818 1.240000e-18 104.0
29 TraesCS5B01G200000 chr2A 85.484 372 43 5 1212 1573 683005252 683005622 6.640000e-101 377.0
30 TraesCS5B01G200000 chr2B 82.768 383 55 7 1748 2128 742376957 742376584 5.240000e-87 331.0
31 TraesCS5B01G200000 chr2B 76.727 275 37 14 1871 2128 415387525 415387789 7.380000e-26 128.0
32 TraesCS5B01G200000 chr2B 85.714 91 12 1 1747 1836 210706497 210706407 7.490000e-16 95.3
33 TraesCS5B01G200000 chr6A 75.753 697 109 35 1878 2543 466660886 466660219 1.910000e-76 296.0
34 TraesCS5B01G200000 chr1A 80.000 260 36 10 1748 1992 248875176 248874918 7.230000e-41 178.0
35 TraesCS5B01G200000 chr1A 74.000 450 85 22 1970 2401 586751019 586750584 1.220000e-33 154.0
36 TraesCS5B01G200000 chr4A 87.218 133 14 3 1861 1991 529646382 529646513 5.670000e-32 148.0
37 TraesCS5B01G200000 chr4A 88.333 60 5 2 311 370 625834020 625834077 1.260000e-08 71.3
38 TraesCS5B01G200000 chr7B 92.647 68 3 2 300 367 618854041 618854106 2.080000e-16 97.1
39 TraesCS5B01G200000 chr7B 97.222 36 1 0 1745 1780 721710589 721710624 7.600000e-06 62.1
40 TraesCS5B01G200000 chr4B 84.694 98 12 2 270 367 652965667 652965573 7.490000e-16 95.3


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 TraesCS5B01G200000 chr5B 360933706 360936248 2542 True 4697.000000 4697 100.000000 1 2543 1 chr5B.!!$R1 2542
1 TraesCS5B01G200000 chr5D 313346539 313349299 2760 True 785.666667 1478 91.905667 3 1746 3 chr5D.!!$R1 1743
2 TraesCS5B01G200000 chr5A 407289637 407292244 2607 True 891.500000 1273 87.135000 3 1670 2 chr5A.!!$R3 1667
3 TraesCS5B01G200000 chr5A 637049414 637050228 814 False 667.000000 667 81.973000 1748 2543 1 chr5A.!!$F2 795
4 TraesCS5B01G200000 chr5A 479653889 479654545 656 False 339.000000 339 77.239000 1905 2543 1 chr5A.!!$F1 638
5 TraesCS5B01G200000 chr5A 205014684 205015247 563 True 285.000000 285 76.936000 1968 2515 1 chr5A.!!$R1 547
6 TraesCS5B01G200000 chr3B 530606921 530607720 799 False 689.000000 689 83.024000 1748 2515 1 chr3B.!!$F1 767
7 TraesCS5B01G200000 chr3D 294605816 294606632 816 True 686.000000 686 82.488000 1748 2543 1 chr3D.!!$R1 795
8 TraesCS5B01G200000 chr3D 83892424 83893306 882 True 211.000000 303 80.818000 1913 2543 2 chr3D.!!$R2 630
9 TraesCS5B01G200000 chr6B 320728349 320729179 830 True 627.000000 627 81.100000 1748 2543 1 chr6B.!!$R1 795
10 TraesCS5B01G200000 chr2D 62018890 62019731 841 False 518.000000 518 78.996000 1745 2543 1 chr2D.!!$F1 798
11 TraesCS5B01G200000 chr2D 643210411 643211071 660 False 412.000000 412 78.614000 1861 2515 1 chr2D.!!$F2 654
12 TraesCS5B01G200000 chr7A 183645460 183646163 703 False 508.000000 508 80.636000 1748 2434 1 chr7A.!!$F1 686
13 TraesCS5B01G200000 chr1D 32548510 32549153 643 False 479.000000 479 80.873000 1869 2504 1 chr1D.!!$F1 635
14 TraesCS5B01G200000 chr1D 342163757 342164477 720 False 444.000000 444 79.026000 1745 2434 1 chr1D.!!$F2 689
15 TraesCS5B01G200000 chr7D 633128827 633129472 645 True 459.000000 459 79.970000 1748 2395 1 chr7D.!!$R1 647
16 TraesCS5B01G200000 chr4D 439741893 439742495 602 True 399.000000 399 79.360000 1838 2440 1 chr4D.!!$R1 602
17 TraesCS5B01G200000 chr1B 612924058 612924755 697 True 388.000000 388 77.591000 1861 2543 1 chr1B.!!$R1 682
18 TraesCS5B01G200000 chr6A 466660219 466660886 667 True 296.000000 296 75.753000 1878 2543 1 chr6A.!!$R1 665

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
945 2969 0.098728 GAGAGAGAGAGAGCACACGC 59.901 60.0 0.0 0.0 38.99 5.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1817 3859 1.512156 ATTTGGGTCGACACGTTGGC 61.512 55.0 18.91 0.0 0.0 4.52 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
48 49 2.647299 TGGAAATGACCACATACCCACT 59.353 45.455 0.00 0.00 35.10 4.00
58 59 5.525484 ACCACATACCCACTATTGTAGAGA 58.475 41.667 0.00 0.00 0.00 3.10
127 129 0.833287 CACCCATGAATCCTCCTCGT 59.167 55.000 0.00 0.00 0.00 4.18
134 136 3.095912 TGAATCCTCCTCGTCCAACTA 57.904 47.619 0.00 0.00 0.00 2.24
179 181 2.981805 CAATGACAACATCTTTGTGCCG 59.018 45.455 0.00 0.00 37.58 5.69
244 246 8.642020 GCAATCTTGTTTAAACAATAAGCTCAG 58.358 33.333 28.88 17.17 46.71 3.35
339 342 9.635404 ATTAAATCCATGATCAAAATTTGGCAT 57.365 25.926 17.12 7.39 0.00 4.40
410 417 2.352503 ACCGTGCTCAAAATTCATGC 57.647 45.000 0.00 0.00 0.00 4.06
418 425 3.368539 GCTCAAAATTCATGCATCGCAAA 59.631 39.130 0.00 0.00 43.62 3.68
476 742 5.182380 AGAGAGAAGACGTACTCCAGAAAAG 59.818 44.000 11.48 0.00 34.13 2.27
505 772 1.377987 GGCATAACTGGGCCGTGAA 60.378 57.895 0.00 0.00 40.93 3.18
509 776 2.094234 GCATAACTGGGCCGTGAAAATT 60.094 45.455 0.00 0.00 0.00 1.82
545 812 4.451629 ACTGGACCGTGTATTAACTCTG 57.548 45.455 0.00 0.00 0.00 3.35
549 816 3.187700 GACCGTGTATTAACTCTGGCAG 58.812 50.000 8.58 8.58 0.00 4.85
553 820 3.119101 CGTGTATTAACTCTGGCAGGACT 60.119 47.826 15.73 1.48 0.00 3.85
554 821 4.184629 GTGTATTAACTCTGGCAGGACTG 58.815 47.826 15.73 5.50 0.00 3.51
556 823 4.530553 TGTATTAACTCTGGCAGGACTGAA 59.469 41.667 15.73 3.60 0.00 3.02
557 824 3.402628 TTAACTCTGGCAGGACTGAAC 57.597 47.619 15.73 0.00 0.00 3.18
558 825 0.398318 AACTCTGGCAGGACTGAACC 59.602 55.000 15.73 0.00 0.00 3.62
559 826 0.472734 ACTCTGGCAGGACTGAACCT 60.473 55.000 15.73 0.00 41.43 3.50
562 1530 1.202806 TCTGGCAGGACTGAACCTTTG 60.203 52.381 15.73 0.00 38.32 2.77
564 1532 1.064017 TGGCAGGACTGAACCTTTGTT 60.064 47.619 3.00 0.00 38.32 2.83
618 1586 0.245539 TCCGAGCCGACCAAAACTAG 59.754 55.000 0.00 0.00 0.00 2.57
694 2700 2.171725 CGGAATCGAAACCGCCTCC 61.172 63.158 17.79 2.87 42.55 4.30
751 2757 0.318955 CCAGAAGCCCAAACAAAGCG 60.319 55.000 0.00 0.00 0.00 4.68
752 2758 0.385390 CAGAAGCCCAAACAAAGCGT 59.615 50.000 0.00 0.00 0.00 5.07
753 2759 0.385390 AGAAGCCCAAACAAAGCGTG 59.615 50.000 0.00 0.00 0.00 5.34
754 2760 0.597377 GAAGCCCAAACAAAGCGTGG 60.597 55.000 0.00 0.00 0.00 4.94
755 2761 2.642996 AAGCCCAAACAAAGCGTGGC 62.643 55.000 0.00 0.00 35.01 5.01
756 2762 2.028925 CCCAAACAAAGCGTGGCC 59.971 61.111 0.00 0.00 0.00 5.36
757 2763 2.790791 CCCAAACAAAGCGTGGCCA 61.791 57.895 0.00 0.00 0.00 5.36
758 2764 1.300080 CCAAACAAAGCGTGGCCAG 60.300 57.895 5.11 0.84 0.00 4.85
759 2765 1.950630 CAAACAAAGCGTGGCCAGC 60.951 57.895 5.11 12.81 0.00 4.85
760 2766 3.150647 AAACAAAGCGTGGCCAGCC 62.151 57.895 19.56 0.38 34.64 4.85
931 2955 4.943705 GCAAGAAAGAGAGAGAGAGAGAGA 59.056 45.833 0.00 0.00 0.00 3.10
933 2957 6.409704 CAAGAAAGAGAGAGAGAGAGAGAGA 58.590 44.000 0.00 0.00 0.00 3.10
935 2959 5.960811 AGAAAGAGAGAGAGAGAGAGAGAGA 59.039 44.000 0.00 0.00 0.00 3.10
937 2961 5.136068 AGAGAGAGAGAGAGAGAGAGAGA 57.864 47.826 0.00 0.00 0.00 3.10
939 2963 3.640967 AGAGAGAGAGAGAGAGAGAGAGC 59.359 52.174 0.00 0.00 0.00 4.09
940 2964 3.378512 AGAGAGAGAGAGAGAGAGAGCA 58.621 50.000 0.00 0.00 0.00 4.26
941 2965 3.133721 AGAGAGAGAGAGAGAGAGAGCAC 59.866 52.174 0.00 0.00 0.00 4.40
942 2966 2.840038 AGAGAGAGAGAGAGAGAGCACA 59.160 50.000 0.00 0.00 0.00 4.57
943 2967 2.939103 GAGAGAGAGAGAGAGAGCACAC 59.061 54.545 0.00 0.00 0.00 3.82
944 2968 1.665679 GAGAGAGAGAGAGAGCACACG 59.334 57.143 0.00 0.00 0.00 4.49
945 2969 0.098728 GAGAGAGAGAGAGCACACGC 59.901 60.000 0.00 0.00 38.99 5.34
946 2970 1.226267 GAGAGAGAGAGCACACGCG 60.226 63.158 3.53 3.53 45.49 6.01
947 2971 2.202544 GAGAGAGAGCACACGCGG 60.203 66.667 12.47 1.27 45.49 6.46
948 2972 4.427661 AGAGAGAGCACACGCGGC 62.428 66.667 12.47 3.95 45.49 6.53
989 3013 1.115930 CGAGGGATCGGGAGGAACAT 61.116 60.000 0.00 0.00 0.00 2.71
1093 3117 2.454832 CTTCCTGCCCTTCGACTGCA 62.455 60.000 3.07 3.07 0.00 4.41
1140 3164 4.112256 CACCGCGCGTACGTTGAC 62.112 66.667 29.95 3.14 42.83 3.18
1253 3277 0.031314 GATGCGCAGATCCTCGAGAA 59.969 55.000 18.32 0.00 0.00 2.87
1305 3329 3.695606 AGGAAGCTCAAGCCGCGA 61.696 61.111 8.23 0.00 43.38 5.87
1412 3436 4.078516 GTTCCCCGAGGACCACGG 62.079 72.222 22.15 22.15 43.90 4.94
1546 3576 7.165812 CGTTGATCCGGAATTTCAATTGATTAC 59.834 37.037 19.19 1.29 32.48 1.89
1583 3613 1.748493 TGGCTGGGATTTACGCAATTC 59.252 47.619 0.00 0.00 40.77 2.17
1584 3614 1.748493 GGCTGGGATTTACGCAATTCA 59.252 47.619 0.00 0.00 40.77 2.57
1611 3641 2.289547 CGTTTGTTTTCTCCGGTGTCAT 59.710 45.455 0.00 0.00 0.00 3.06
1683 3724 2.861462 TATTTTATGCTGCGGTTGGC 57.139 45.000 0.00 0.00 43.96 4.52
1727 3768 4.594123 TCTACAACGTGTCAAATCCTCA 57.406 40.909 0.00 0.00 0.00 3.86
1730 3771 4.488126 ACAACGTGTCAAATCCTCAATG 57.512 40.909 0.00 0.00 0.00 2.82
1746 3787 6.748132 TCCTCAATGCTAAAAGGTTCTTTTG 58.252 36.000 13.86 6.92 0.00 2.44
1781 3822 1.732683 GCAACCCATTTTGTCCGCG 60.733 57.895 0.00 0.00 0.00 6.46
1836 3878 1.512156 GCCAACGTGTCGACCCAAAT 61.512 55.000 14.12 0.00 0.00 2.32
1845 3898 2.081462 GTCGACCCAAATCCAAATCGT 58.919 47.619 3.51 0.00 0.00 3.73
1940 4028 3.299977 CGTCGTGTCCCCACCTGA 61.300 66.667 0.00 0.00 38.41 3.86
2128 4497 1.375523 GGTGACAACCCTAGCCACG 60.376 63.158 0.00 0.00 41.04 4.94
2129 4499 1.370064 GTGACAACCCTAGCCACGT 59.630 57.895 0.00 0.00 0.00 4.49
2139 4509 1.204941 CCTAGCCACGTTAGTCAAGCT 59.795 52.381 0.00 0.00 34.10 3.74
2157 4528 2.036929 GCTAGATGGGGCTCTTCTCCA 61.037 57.143 5.98 0.00 32.85 3.86
2347 4746 4.123009 TGCCGCACGACTCGCATA 62.123 61.111 0.00 0.00 0.00 3.14
2396 4795 2.836360 GCCACGGTCGGATAGGGA 60.836 66.667 0.00 0.00 0.00 4.20
2526 4946 2.665185 GCGTCCACAAAGTCGGCT 60.665 61.111 0.00 0.00 0.00 5.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 9.985730 TCAAATTTTTGATGAAAGTTAGATGCT 57.014 25.926 1.66 0.00 41.88 3.79
17 18 9.218440 GTATGTGGTCATTTCCATCAAATTTTT 57.782 29.630 0.00 0.00 39.81 1.94
69 70 2.234143 TGTTTGCGATGGGTCATCAAA 58.766 42.857 8.38 1.05 40.54 2.69
351 354 0.631212 CTCCTGGTTTATTGGCCCCT 59.369 55.000 0.00 0.00 0.00 4.79
355 358 3.646736 ACTACCTCCTGGTTTATTGGC 57.353 47.619 0.00 0.00 46.05 4.52
372 375 4.255301 CGGTTGCACCCAAACTATTACTA 58.745 43.478 0.00 0.00 36.49 1.82
373 376 3.078837 CGGTTGCACCCAAACTATTACT 58.921 45.455 0.00 0.00 36.49 2.24
377 380 1.243902 CACGGTTGCACCCAAACTAT 58.756 50.000 0.00 0.00 36.49 2.12
446 453 5.048643 TGGAGTACGTCTTCTCTCTTTGAAG 60.049 44.000 0.00 0.00 41.46 3.02
455 462 5.048573 ACTCTTTTCTGGAGTACGTCTTCTC 60.049 44.000 0.00 0.00 41.56 2.87
457 464 5.123805 ACTCTTTTCTGGAGTACGTCTTC 57.876 43.478 0.00 0.00 41.56 2.87
476 742 4.642429 CCCAGTTATGCCCAGTTATACTC 58.358 47.826 0.00 0.00 0.00 2.59
529 796 2.093658 CCTGCCAGAGTTAATACACGGT 60.094 50.000 0.00 0.00 0.00 4.83
545 812 1.692411 AACAAAGGTTCAGTCCTGCC 58.308 50.000 0.00 0.00 37.93 4.85
549 816 3.120304 GCGATGTAACAAAGGTTCAGTCC 60.120 47.826 0.00 0.00 38.45 3.85
553 820 2.811431 CTGGCGATGTAACAAAGGTTCA 59.189 45.455 0.00 0.00 38.45 3.18
554 821 2.161609 CCTGGCGATGTAACAAAGGTTC 59.838 50.000 0.00 0.00 38.45 3.62
556 823 1.613255 CCCTGGCGATGTAACAAAGGT 60.613 52.381 0.00 0.00 0.00 3.50
557 824 1.094785 CCCTGGCGATGTAACAAAGG 58.905 55.000 0.00 0.00 0.00 3.11
558 825 0.451783 GCCCTGGCGATGTAACAAAG 59.548 55.000 0.00 0.00 0.00 2.77
559 826 2.562125 GCCCTGGCGATGTAACAAA 58.438 52.632 0.00 0.00 0.00 2.83
585 1553 1.599606 CTCGGAGTGGACCAGGTCTG 61.600 65.000 19.57 0.00 32.47 3.51
618 1586 0.587985 GTGACGTGGTGTTCGTTTGC 60.588 55.000 0.00 0.00 41.64 3.68
694 2700 2.044946 AGGCGCCTTTGCTTAGGG 60.045 61.111 27.08 0.00 35.74 3.53
714 2720 1.287503 GATCGATCCGGTCAGCTCC 59.712 63.158 14.76 0.00 36.93 4.70
751 2757 4.101448 ATGGAGACGGCTGGCCAC 62.101 66.667 0.00 0.00 35.37 5.01
752 2758 3.785859 GATGGAGACGGCTGGCCA 61.786 66.667 4.71 4.71 35.37 5.36
753 2759 3.785859 TGATGGAGACGGCTGGCC 61.786 66.667 0.00 0.00 0.00 5.36
754 2760 2.512515 GTGATGGAGACGGCTGGC 60.513 66.667 0.00 0.00 0.00 4.85
755 2761 2.202797 CGTGATGGAGACGGCTGG 60.203 66.667 0.00 0.00 33.08 4.85
756 2762 1.078759 GAACGTGATGGAGACGGCTG 61.079 60.000 0.00 0.00 41.21 4.85
757 2763 1.215647 GAACGTGATGGAGACGGCT 59.784 57.895 0.00 0.00 41.21 5.52
758 2764 0.389948 AAGAACGTGATGGAGACGGC 60.390 55.000 0.00 0.00 41.21 5.68
759 2765 1.202582 AGAAGAACGTGATGGAGACGG 59.797 52.381 0.00 0.00 41.21 4.79
760 2766 2.638556 AGAAGAACGTGATGGAGACG 57.361 50.000 0.00 0.00 42.62 4.18
761 2767 2.413453 GCAAGAAGAACGTGATGGAGAC 59.587 50.000 0.00 0.00 0.00 3.36
762 2768 2.037121 TGCAAGAAGAACGTGATGGAGA 59.963 45.455 0.00 0.00 0.00 3.71
763 2769 2.158449 GTGCAAGAAGAACGTGATGGAG 59.842 50.000 0.00 0.00 0.00 3.86
764 2770 2.143122 GTGCAAGAAGAACGTGATGGA 58.857 47.619 0.00 0.00 0.00 3.41
830 2836 2.574824 ACTTTTATAGCTTCGGGTGGGT 59.425 45.455 0.00 0.00 0.00 4.51
931 2955 4.427661 GCCGCGTGTGCTCTCTCT 62.428 66.667 4.92 0.00 39.65 3.10
946 2970 4.360405 TCCTGCTTTTCCCCCGCC 62.360 66.667 0.00 0.00 0.00 6.13
947 2971 2.751837 CTCCTGCTTTTCCCCCGC 60.752 66.667 0.00 0.00 0.00 6.13
948 2972 2.751837 GCTCCTGCTTTTCCCCCG 60.752 66.667 0.00 0.00 36.03 5.73
949 2973 2.751837 CGCTCCTGCTTTTCCCCC 60.752 66.667 0.00 0.00 36.97 5.40
1222 3246 3.872728 CGCATCCGTCTCGTCCGA 61.873 66.667 0.00 0.00 0.00 4.55
1228 3252 1.663074 GGATCTGCGCATCCGTCTC 60.663 63.158 12.24 1.42 33.13 3.36
1240 3264 0.869454 GCGTGCTTCTCGAGGATCTG 60.869 60.000 13.56 0.00 0.00 2.90
1332 3356 1.341531 CTCGTGTTGGAGAAGGTGAGT 59.658 52.381 0.00 0.00 36.08 3.41
1491 3515 4.636435 CACCCACCGCCGTCCTTT 62.636 66.667 0.00 0.00 0.00 3.11
1525 3549 6.040842 CAGGGTAATCAATTGAAATTCCGGAT 59.959 38.462 13.09 0.00 0.00 4.18
1535 3559 5.178096 TCAGCTTCAGGGTAATCAATTGA 57.822 39.130 11.26 11.26 0.00 2.57
1539 3563 5.774690 ACAATTTCAGCTTCAGGGTAATCAA 59.225 36.000 0.00 0.00 0.00 2.57
1546 3576 1.067354 GCCACAATTTCAGCTTCAGGG 60.067 52.381 0.00 0.00 0.00 4.45
1583 3613 3.296628 CGGAGAAAACAAACGTTCCATG 58.703 45.455 0.00 0.00 0.00 3.66
1584 3614 2.292292 CCGGAGAAAACAAACGTTCCAT 59.708 45.455 0.00 0.00 0.00 3.41
1611 3641 8.671921 ACAACAAAATGTGCACAATTGAAAATA 58.328 25.926 35.89 11.21 33.61 1.40
1661 3702 3.305897 GCCAACCGCAGCATAAAATAAAC 59.694 43.478 0.00 0.00 37.47 2.01
1727 3768 5.070313 TGCTCCAAAAGAACCTTTTAGCATT 59.930 36.000 18.26 0.00 33.19 3.56
1730 3771 4.584327 TGCTCCAAAAGAACCTTTTAGC 57.416 40.909 14.96 14.96 0.00 3.09
1781 3822 2.686816 CCGATCCAAACGGGTGCAC 61.687 63.158 8.80 8.80 45.65 4.57
1817 3859 1.512156 ATTTGGGTCGACACGTTGGC 61.512 55.000 18.91 0.00 0.00 4.52
1836 3878 3.115892 GCGCGGACACGATTTGGA 61.116 61.111 8.83 0.00 44.60 3.53
1888 3976 3.554692 CGTGATGTCCGCTTCGCC 61.555 66.667 0.00 0.00 0.00 5.54
1940 4028 3.155861 TGGGTGTTGGACGACCGT 61.156 61.111 0.00 0.00 39.42 4.83
2013 4108 2.005971 AAATAGGACCGTCGTTGCTC 57.994 50.000 0.00 0.00 0.00 4.26
2128 4497 2.436173 AGCCCCATCTAGCTTGACTAAC 59.564 50.000 0.00 0.00 35.22 2.34
2129 4499 2.700897 GAGCCCCATCTAGCTTGACTAA 59.299 50.000 0.00 0.00 40.11 2.24
2139 4509 2.036929 GCTGGAGAAGAGCCCCATCTA 61.037 57.143 0.00 0.00 0.00 1.98
2342 4741 2.174360 TCCTCTCTGGATCCATATGCG 58.826 52.381 16.63 2.86 40.56 4.73
2390 4789 3.227276 CCTCCGCGTGCTCCCTAT 61.227 66.667 4.92 0.00 0.00 2.57
2442 4860 2.504244 GGACGAGTCGAAGGCGTG 60.504 66.667 21.50 0.00 38.51 5.34
2505 4925 2.665185 GACTTTGTGGACGCCGCT 60.665 61.111 10.13 0.00 34.70 5.52


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

AutoCloner maintained by Alex Coulton.