Multiple sequence alignment - TraesCS3A01G174100

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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 TraesCS3A01G174100 chr3A 100.000 3866 0 0 1 3866 192819320 192815455 0.000000e+00 7140
1 TraesCS3A01G174100 chr3B 93.604 3049 142 16 852 3866 239249083 239246054 0.000000e+00 4501
2 TraesCS3A01G174100 chr3B 75.900 722 137 26 3167 3866 394959423 394958717 6.190000e-88 335
3 TraesCS3A01G174100 chr3B 85.854 205 21 2 1324 1521 605028664 605028867 1.090000e-50 211
4 TraesCS3A01G174100 chr3D 94.400 2250 87 11 852 3079 162178529 162176297 0.000000e+00 3421
5 TraesCS3A01G174100 chr3D 95.131 801 37 2 1 800 448493279 448494078 0.000000e+00 1262
6 TraesCS3A01G174100 chr3D 90.809 816 58 8 3063 3866 162176203 162175393 0.000000e+00 1075
7 TraesCS3A01G174100 chr5A 95.506 801 20 2 1 800 623226106 623226891 0.000000e+00 1266
8 TraesCS3A01G174100 chr5A 76.643 715 136 23 3167 3860 465544696 465545400 2.190000e-97 366
9 TraesCS3A01G174100 chr5A 76.422 721 142 23 3167 3866 4661132 4660419 7.890000e-97 364
10 TraesCS3A01G174100 chr2D 95.094 795 35 4 1 793 625584315 625585107 0.000000e+00 1249
11 TraesCS3A01G174100 chr2D 78.846 312 62 4 2205 2514 60945685 60945994 1.410000e-49 207
12 TraesCS3A01G174100 chr7D 94.205 811 43 4 1 809 603247544 603246736 0.000000e+00 1234
13 TraesCS3A01G174100 chr7D 90.286 803 56 9 1 802 95838582 95837801 0.000000e+00 1031
14 TraesCS3A01G174100 chr4D 95.021 703 31 4 1 701 3411255 3410555 0.000000e+00 1101
15 TraesCS3A01G174100 chr4D 95.147 680 30 3 24 701 3406338 3405660 0.000000e+00 1070
16 TraesCS3A01G174100 chr4D 87.372 293 28 2 1263 1555 450197933 450198216 1.040000e-85 327
17 TraesCS3A01G174100 chr7B 90.629 811 70 5 1 807 616312174 616311366 0.000000e+00 1072
18 TraesCS3A01G174100 chr7B 88.519 810 69 12 1 809 685115145 685114359 0.000000e+00 959
19 TraesCS3A01G174100 chr2A 88.294 803 72 10 1 802 7319527 7318746 0.000000e+00 942
20 TraesCS3A01G174100 chr2A 78.999 719 126 19 3167 3866 515952497 515951785 5.850000e-128 468
21 TraesCS3A01G174100 chr2A 76.528 720 142 22 3167 3866 140503202 140502490 6.100000e-98 368
22 TraesCS3A01G174100 chr2A 80.128 312 58 4 2205 2514 61467959 61468268 3.000000e-56 230
23 TraesCS3A01G174100 chr2B 88.140 801 73 10 1 800 250685664 250686443 0.000000e+00 933
24 TraesCS3A01G174100 chr2B 92.544 228 15 1 1592 1817 380510789 380510562 3.720000e-85 326
25 TraesCS3A01G174100 chr2B 85.859 297 30 4 1253 1548 380511072 380510787 4.850000e-79 305
26 TraesCS3A01G174100 chr2B 79.808 312 59 4 2205 2514 95760732 95761041 1.400000e-54 224
27 TraesCS3A01G174100 chr4B 76.562 704 133 25 3167 3848 568342083 568341390 1.320000e-94 357
28 TraesCS3A01G174100 chr6B 77.000 600 115 18 3167 3749 583727312 583727905 4.820000e-84 322
29 TraesCS3A01G174100 chr5D 84.279 229 34 1 1322 1550 561620190 561620416 5.030000e-54 222


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 TraesCS3A01G174100 chr3A 192815455 192819320 3865 True 7140.0 7140 100.0000 1 3866 1 chr3A.!!$R1 3865
1 TraesCS3A01G174100 chr3B 239246054 239249083 3029 True 4501.0 4501 93.6040 852 3866 1 chr3B.!!$R1 3014
2 TraesCS3A01G174100 chr3B 394958717 394959423 706 True 335.0 335 75.9000 3167 3866 1 chr3B.!!$R2 699
3 TraesCS3A01G174100 chr3D 162175393 162178529 3136 True 2248.0 3421 92.6045 852 3866 2 chr3D.!!$R1 3014
4 TraesCS3A01G174100 chr3D 448493279 448494078 799 False 1262.0 1262 95.1310 1 800 1 chr3D.!!$F1 799
5 TraesCS3A01G174100 chr5A 623226106 623226891 785 False 1266.0 1266 95.5060 1 800 1 chr5A.!!$F2 799
6 TraesCS3A01G174100 chr5A 465544696 465545400 704 False 366.0 366 76.6430 3167 3860 1 chr5A.!!$F1 693
7 TraesCS3A01G174100 chr5A 4660419 4661132 713 True 364.0 364 76.4220 3167 3866 1 chr5A.!!$R1 699
8 TraesCS3A01G174100 chr2D 625584315 625585107 792 False 1249.0 1249 95.0940 1 793 1 chr2D.!!$F2 792
9 TraesCS3A01G174100 chr7D 603246736 603247544 808 True 1234.0 1234 94.2050 1 809 1 chr7D.!!$R2 808
10 TraesCS3A01G174100 chr7D 95837801 95838582 781 True 1031.0 1031 90.2860 1 802 1 chr7D.!!$R1 801
11 TraesCS3A01G174100 chr4D 3410555 3411255 700 True 1101.0 1101 95.0210 1 701 1 chr4D.!!$R2 700
12 TraesCS3A01G174100 chr4D 3405660 3406338 678 True 1070.0 1070 95.1470 24 701 1 chr4D.!!$R1 677
13 TraesCS3A01G174100 chr7B 616311366 616312174 808 True 1072.0 1072 90.6290 1 807 1 chr7B.!!$R1 806
14 TraesCS3A01G174100 chr7B 685114359 685115145 786 True 959.0 959 88.5190 1 809 1 chr7B.!!$R2 808
15 TraesCS3A01G174100 chr2A 7318746 7319527 781 True 942.0 942 88.2940 1 802 1 chr2A.!!$R1 801
16 TraesCS3A01G174100 chr2A 515951785 515952497 712 True 468.0 468 78.9990 3167 3866 1 chr2A.!!$R3 699
17 TraesCS3A01G174100 chr2A 140502490 140503202 712 True 368.0 368 76.5280 3167 3866 1 chr2A.!!$R2 699
18 TraesCS3A01G174100 chr2B 250685664 250686443 779 False 933.0 933 88.1400 1 800 1 chr2B.!!$F2 799
19 TraesCS3A01G174100 chr2B 380510562 380511072 510 True 315.5 326 89.2015 1253 1817 2 chr2B.!!$R1 564
20 TraesCS3A01G174100 chr4B 568341390 568342083 693 True 357.0 357 76.5620 3167 3848 1 chr4B.!!$R1 681
21 TraesCS3A01G174100 chr6B 583727312 583727905 593 False 322.0 322 77.0000 3167 3749 1 chr6B.!!$F1 582

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
966 976 0.723459 TATATACGCACGCACGCTCG 60.723 55.0 0.0 3.55 36.19 5.03 F
1018 1028 0.177836 AATGGCGTCGACATGGATGA 59.822 50.0 15.8 0.00 28.30 2.92 F
2154 2179 0.104487 TTACGTTTCCTGACCGTGCA 59.896 50.0 0.0 0.00 36.12 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2144 2169 1.225855 TAGCTTTTGTGCACGGTCAG 58.774 50.000 13.13 6.57 34.99 3.51 R
2688 2713 1.664151 GGCCCGAAATTTCTGTACTCG 59.336 52.381 15.92 1.70 0.00 4.18 R
3043 3088 1.081242 CATGCGCCCTGTTGTTGTC 60.081 57.895 4.18 0.00 0.00 3.18 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
121 126 1.266178 TTCTCCGAGAGCAATCCACA 58.734 50.000 0.00 0.00 0.00 4.17
254 260 4.092279 CCATACATCCCAGCAGATCTAGA 58.908 47.826 0.00 0.00 0.00 2.43
412 419 1.606889 GGGACGACAGAGTGAGGGT 60.607 63.158 0.00 0.00 0.00 4.34
685 695 3.754530 TCGCTGCCCGATCGTTCA 61.755 61.111 15.09 10.11 41.89 3.18
794 804 0.889994 ACGTGTGGCAGTTATCGGTA 59.110 50.000 0.00 0.00 0.00 4.02
812 822 7.828508 ATCGGTATCCTAAAAATAAAACCCC 57.171 36.000 0.00 0.00 0.00 4.95
813 823 6.729428 TCGGTATCCTAAAAATAAAACCCCA 58.271 36.000 0.00 0.00 0.00 4.96
814 824 7.355890 TCGGTATCCTAAAAATAAAACCCCAT 58.644 34.615 0.00 0.00 0.00 4.00
815 825 8.501070 TCGGTATCCTAAAAATAAAACCCCATA 58.499 33.333 0.00 0.00 0.00 2.74
816 826 9.304335 CGGTATCCTAAAAATAAAACCCCATAT 57.696 33.333 0.00 0.00 0.00 1.78
830 840 8.751215 AAAACCCCATATAGGATACATACTCA 57.249 34.615 0.00 0.00 41.22 3.41
831 841 7.979786 AACCCCATATAGGATACATACTCAG 57.020 40.000 0.00 0.00 41.22 3.35
832 842 6.444704 ACCCCATATAGGATACATACTCAGG 58.555 44.000 0.00 0.00 41.22 3.86
833 843 6.221872 ACCCCATATAGGATACATACTCAGGA 59.778 42.308 0.00 0.00 41.22 3.86
834 844 7.132805 CCCCATATAGGATACATACTCAGGAA 58.867 42.308 0.00 0.00 41.22 3.36
835 845 7.070074 CCCCATATAGGATACATACTCAGGAAC 59.930 44.444 0.00 0.00 41.22 3.62
836 846 7.070074 CCCATATAGGATACATACTCAGGAACC 59.930 44.444 0.00 0.00 41.22 3.62
837 847 7.619698 CCATATAGGATACATACTCAGGAACCA 59.380 40.741 0.00 0.00 41.22 3.67
838 848 9.206690 CATATAGGATACATACTCAGGAACCAT 57.793 37.037 0.00 0.00 41.41 3.55
839 849 9.790297 ATATAGGATACATACTCAGGAACCATT 57.210 33.333 0.00 0.00 41.41 3.16
840 850 6.179906 AGGATACATACTCAGGAACCATTG 57.820 41.667 0.00 0.00 41.41 2.82
841 851 5.072329 AGGATACATACTCAGGAACCATTGG 59.928 44.000 0.00 0.00 41.41 3.16
842 852 3.652057 ACATACTCAGGAACCATTGGG 57.348 47.619 7.78 0.00 41.29 4.12
963 973 1.454276 ACAATATATACGCACGCACGC 59.546 47.619 0.00 0.00 36.19 5.34
964 974 1.719246 CAATATATACGCACGCACGCT 59.281 47.619 0.00 0.00 36.19 5.07
965 975 1.614385 ATATATACGCACGCACGCTC 58.386 50.000 0.00 0.00 36.19 5.03
966 976 0.723459 TATATACGCACGCACGCTCG 60.723 55.000 0.00 3.55 36.19 5.03
967 977 2.657484 ATATACGCACGCACGCTCGT 62.657 55.000 13.15 13.15 44.35 4.18
994 1004 0.752658 TCATGCCCATACACTCCTCG 59.247 55.000 0.00 0.00 0.00 4.63
997 1007 2.279517 CCCATACACTCCTCGCGC 60.280 66.667 0.00 0.00 0.00 6.86
1018 1028 0.177836 AATGGCGTCGACATGGATGA 59.822 50.000 15.80 0.00 28.30 2.92
1024 1034 1.710013 GTCGACATGGATGACACGTT 58.290 50.000 11.55 0.00 32.91 3.99
1118 1140 1.673337 GGTACACGTTCAAGGGGCC 60.673 63.158 0.00 0.00 0.00 5.80
1191 1213 1.000496 TCTCCTCTTCTTCCTCCGGA 59.000 55.000 2.93 2.93 0.00 5.14
1383 1405 4.933064 CGCGAGGAGATGGCCGTC 62.933 72.222 17.85 17.85 0.00 4.79
1416 1438 2.955881 GCTGCTGGGGTACTCCGTT 61.956 63.158 7.43 0.00 36.01 4.44
1513 1535 4.056125 CTGCGTCTGGGAGCGTCA 62.056 66.667 0.00 0.00 35.87 4.35
2144 2169 4.148871 GTCTCGTTAACCAGTTACGTTTCC 59.851 45.833 0.00 0.00 0.00 3.13
2154 2179 0.104487 TTACGTTTCCTGACCGTGCA 59.896 50.000 0.00 0.00 36.12 4.57
2688 2713 2.187163 GCCACCCTCTTCTACGGC 59.813 66.667 0.00 0.00 0.00 5.68
2700 2725 3.693085 TCTTCTACGGCGAGTACAGAAAT 59.307 43.478 16.62 0.00 29.80 2.17
2703 2728 4.418392 TCTACGGCGAGTACAGAAATTTC 58.582 43.478 16.62 10.33 0.00 2.17
2768 2793 1.987855 ACGTGATCATGGACCCGGT 60.988 57.895 18.97 0.00 0.00 5.28
2896 2921 2.179377 ATGGTCAATTTGGGGATGGG 57.821 50.000 0.00 0.00 0.00 4.00
2915 2940 2.328099 GGATGGCCGGAATCGATGC 61.328 63.158 5.05 0.00 39.00 3.91
2998 3034 6.691388 GGTATGCAATTAGAATGGACGTTTTC 59.309 38.462 0.00 0.00 0.00 2.29
3000 3036 6.325919 TGCAATTAGAATGGACGTTTTCTT 57.674 33.333 12.61 0.00 34.22 2.52
3043 3088 8.311822 CGTAACACGTAGATTGTTTAGATCTTG 58.688 37.037 0.00 0.00 38.21 3.02
3072 3230 1.065491 AGGGCGCATGAATTGTACTCA 60.065 47.619 10.83 0.00 0.00 3.41
3134 3294 5.656859 GGTCACCTTTGAGCCCTTATATTTT 59.343 40.000 0.00 0.00 43.34 1.82
3135 3295 6.154534 GGTCACCTTTGAGCCCTTATATTTTT 59.845 38.462 0.00 0.00 43.34 1.94
3136 3296 7.258441 GTCACCTTTGAGCCCTTATATTTTTC 58.742 38.462 0.00 0.00 30.10 2.29
3160 3328 6.097696 TCGGATGAGGTCACAAGAAATATACA 59.902 38.462 0.00 0.00 0.00 2.29
3246 3415 3.686916 AAAGTTAGAGCTGTGGAGGTC 57.313 47.619 0.00 0.00 45.57 3.85
3328 3500 3.495193 GTTTCAGTACGACTATGCACGA 58.505 45.455 1.06 0.00 0.00 4.35
3329 3501 3.835378 TTCAGTACGACTATGCACGAA 57.165 42.857 1.06 0.00 0.00 3.85
3330 3502 3.400505 TCAGTACGACTATGCACGAAG 57.599 47.619 1.06 0.00 0.00 3.79
3419 3592 3.432749 GCTGCAGAAGGAAGGTGATATCA 60.433 47.826 20.43 0.00 0.00 2.15
3575 3754 4.406456 TGGCTGAATGTTGGTCAACTAAT 58.594 39.130 13.96 0.00 41.67 1.73
3581 3760 7.467811 GCTGAATGTTGGTCAACTAATAGATGG 60.468 40.741 13.96 0.00 41.67 3.51
3585 3764 6.894682 TGTTGGTCAACTAATAGATGGCATA 58.105 36.000 13.96 0.00 41.67 3.14
3603 3783 5.190925 TGGCATATCCAAAGTTAGGTGTAGT 59.809 40.000 0.00 0.00 43.21 2.73
3716 3903 2.480419 GAGAAGGTTGTCCAACATCGTG 59.520 50.000 11.89 0.00 42.85 4.35
3721 3908 0.536233 TTGTCCAACATCGTGTGGGG 60.536 55.000 10.48 7.06 41.91 4.96
3723 3910 1.072332 TCCAACATCGTGTGGGGTG 59.928 57.895 10.48 0.00 41.91 4.61
3742 3930 4.887071 GGGTGGATTTGAGCATATACAACA 59.113 41.667 4.05 0.00 0.00 3.33
3750 3938 0.307760 GCATATACAACACAGGCCGC 59.692 55.000 0.00 0.00 0.00 6.53
3800 3990 6.639279 ACCGTTTAAGCATGTTGTTAATGTTC 59.361 34.615 0.00 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
121 126 6.942576 AGTAGTTGCCAACTAGTGAAATTCAT 59.057 34.615 21.22 0.00 44.01 2.57
254 260 3.203040 ACCCGGATTCATCCAGAATTCTT 59.797 43.478 4.86 0.00 46.76 2.52
809 819 6.683537 TCCTGAGTATGTATCCTATATGGGG 58.316 44.000 5.12 0.00 36.20 4.96
810 820 7.070074 GGTTCCTGAGTATGTATCCTATATGGG 59.930 44.444 0.00 0.00 36.20 4.00
811 821 7.619698 TGGTTCCTGAGTATGTATCCTATATGG 59.380 40.741 0.00 0.00 37.10 2.74
812 822 8.595362 TGGTTCCTGAGTATGTATCCTATATG 57.405 38.462 0.00 0.00 0.00 1.78
813 823 9.790297 AATGGTTCCTGAGTATGTATCCTATAT 57.210 33.333 0.00 0.00 0.00 0.86
814 824 9.035890 CAATGGTTCCTGAGTATGTATCCTATA 57.964 37.037 0.00 0.00 0.00 1.31
815 825 7.038017 CCAATGGTTCCTGAGTATGTATCCTAT 60.038 40.741 0.00 0.00 0.00 2.57
816 826 6.270000 CCAATGGTTCCTGAGTATGTATCCTA 59.730 42.308 0.00 0.00 0.00 2.94
817 827 5.072329 CCAATGGTTCCTGAGTATGTATCCT 59.928 44.000 0.00 0.00 0.00 3.24
818 828 5.308825 CCAATGGTTCCTGAGTATGTATCC 58.691 45.833 0.00 0.00 0.00 2.59
819 829 5.163195 ACCCAATGGTTCCTGAGTATGTATC 60.163 44.000 0.00 0.00 44.75 2.24
820 830 4.726825 ACCCAATGGTTCCTGAGTATGTAT 59.273 41.667 0.00 0.00 44.75 2.29
821 831 4.108570 ACCCAATGGTTCCTGAGTATGTA 58.891 43.478 0.00 0.00 44.75 2.29
822 832 2.919602 ACCCAATGGTTCCTGAGTATGT 59.080 45.455 0.00 0.00 44.75 2.29
823 833 3.652057 ACCCAATGGTTCCTGAGTATG 57.348 47.619 0.00 0.00 44.75 2.39
824 834 5.994416 AATACCCAATGGTTCCTGAGTAT 57.006 39.130 0.00 0.00 44.75 2.12
825 835 5.339695 GGAAATACCCAATGGTTCCTGAGTA 60.340 44.000 10.99 0.00 44.75 2.59
826 836 4.569865 GGAAATACCCAATGGTTCCTGAGT 60.570 45.833 10.99 0.00 44.75 3.41
827 837 3.954258 GGAAATACCCAATGGTTCCTGAG 59.046 47.826 10.99 0.00 44.75 3.35
828 838 3.976015 GGAAATACCCAATGGTTCCTGA 58.024 45.455 10.99 0.00 44.75 3.86
841 851 5.140454 AGGTGAGCAAATATGGGAAATACC 58.860 41.667 0.00 0.00 38.08 2.73
842 852 6.715347 AAGGTGAGCAAATATGGGAAATAC 57.285 37.500 0.00 0.00 0.00 1.89
843 853 7.125391 AGAAAGGTGAGCAAATATGGGAAATA 58.875 34.615 0.00 0.00 0.00 1.40
844 854 5.960202 AGAAAGGTGAGCAAATATGGGAAAT 59.040 36.000 0.00 0.00 0.00 2.17
845 855 5.332743 AGAAAGGTGAGCAAATATGGGAAA 58.667 37.500 0.00 0.00 0.00 3.13
846 856 4.934356 AGAAAGGTGAGCAAATATGGGAA 58.066 39.130 0.00 0.00 0.00 3.97
847 857 4.591321 AGAAAGGTGAGCAAATATGGGA 57.409 40.909 0.00 0.00 0.00 4.37
848 858 4.098501 GGAAGAAAGGTGAGCAAATATGGG 59.901 45.833 0.00 0.00 0.00 4.00
849 859 4.706476 TGGAAGAAAGGTGAGCAAATATGG 59.294 41.667 0.00 0.00 0.00 2.74
850 860 5.416952 AGTGGAAGAAAGGTGAGCAAATATG 59.583 40.000 0.00 0.00 0.00 1.78
963 973 1.524621 GGCATGACCATGGGACGAG 60.525 63.158 18.09 7.40 39.16 4.18
964 974 2.589540 GGCATGACCATGGGACGA 59.410 61.111 18.09 0.00 39.16 4.20
965 975 2.516930 GGGCATGACCATGGGACG 60.517 66.667 14.59 2.36 42.05 4.79
966 976 2.682846 TGGGCATGACCATGGGAC 59.317 61.111 19.12 10.43 42.05 4.46
997 1007 0.815213 ATCCATGTCGACGCCATTGG 60.815 55.000 11.62 12.11 0.00 3.16
1416 1438 3.371063 GACCACCCGAGCTCGTCA 61.371 66.667 32.41 0.00 37.74 4.35
1503 1525 4.007644 CCACTGCTGACGCTCCCA 62.008 66.667 0.00 0.00 36.97 4.37
1827 1851 1.379642 GCATTGCCTTCTTCCCTCCG 61.380 60.000 0.00 0.00 0.00 4.63
1831 1855 2.491621 GCGCATTGCCTTCTTCCC 59.508 61.111 0.30 0.00 37.76 3.97
1842 1866 4.980805 ACCACGTCCACGCGCATT 62.981 61.111 5.73 0.00 44.43 3.56
1881 1905 2.882876 CCGACAGACCGGTACCTG 59.117 66.667 19.04 19.04 44.23 4.00
2093 2117 3.891324 TGCACTTTGTATTTACCAACGC 58.109 40.909 0.00 0.00 0.00 4.84
2144 2169 1.225855 TAGCTTTTGTGCACGGTCAG 58.774 50.000 13.13 6.57 34.99 3.51
2154 2179 3.613432 GCAGCAGCATCTTTAGCTTTTGT 60.613 43.478 0.00 0.00 41.14 2.83
2583 2608 3.524648 GACCACCACCCGCGAGAAA 62.525 63.158 8.23 0.00 0.00 2.52
2688 2713 1.664151 GGCCCGAAATTTCTGTACTCG 59.336 52.381 15.92 1.70 0.00 4.18
2896 2921 1.672356 CATCGATTCCGGCCATCCC 60.672 63.158 2.24 0.00 36.24 3.85
2945 2981 7.081976 GCAAACATTTGTAAACACCCTACTAG 58.918 38.462 6.24 0.00 40.24 2.57
2998 3034 3.951663 ACGTTTCCATTCTTCCCCTAAG 58.048 45.455 0.00 0.00 36.45 2.18
3000 3036 4.286549 TGTTACGTTTCCATTCTTCCCCTA 59.713 41.667 0.00 0.00 0.00 3.53
3043 3088 1.081242 CATGCGCCCTGTTGTTGTC 60.081 57.895 4.18 0.00 0.00 3.18
3109 3267 4.339335 AGGGCTCAAAGGTGACCT 57.661 55.556 0.00 0.00 41.26 3.85
3134 3294 3.762407 TTTCTTGTGACCTCATCCGAA 57.238 42.857 0.00 0.00 0.00 4.30
3135 3295 3.981071 ATTTCTTGTGACCTCATCCGA 57.019 42.857 0.00 0.00 0.00 4.55
3136 3296 6.280643 TGTATATTTCTTGTGACCTCATCCG 58.719 40.000 0.00 0.00 0.00 4.18
3160 3328 3.190535 CCGCAAAAAGCATACACTACCTT 59.809 43.478 0.00 0.00 46.13 3.50
3281 3450 7.375834 CACACCTCATGTACTCAGTTTAGTTA 58.624 38.462 0.00 0.00 40.64 2.24
3328 3500 3.709587 TCAACGGTAATCTCCTCCTCTT 58.290 45.455 0.00 0.00 0.00 2.85
3329 3501 3.383698 TCAACGGTAATCTCCTCCTCT 57.616 47.619 0.00 0.00 0.00 3.69
3330 3502 3.243907 CCATCAACGGTAATCTCCTCCTC 60.244 52.174 0.00 0.00 0.00 3.71
3448 3621 4.499865 GCTTGACGCTACTTCATCCATCTA 60.500 45.833 0.00 0.00 35.14 1.98
3449 3622 3.739519 GCTTGACGCTACTTCATCCATCT 60.740 47.826 0.00 0.00 35.14 2.90
3581 3760 7.723324 TCTACTACACCTAACTTTGGATATGC 58.277 38.462 0.00 0.00 0.00 3.14
3585 3764 7.620094 ACATCTCTACTACACCTAACTTTGGAT 59.380 37.037 0.00 0.00 0.00 3.41
3716 3903 2.435372 TATGCTCAAATCCACCCCAC 57.565 50.000 0.00 0.00 0.00 4.61
3721 3908 6.435430 TGTGTTGTATATGCTCAAATCCAC 57.565 37.500 0.00 0.00 0.00 4.02
3723 3910 5.506317 GCCTGTGTTGTATATGCTCAAATCC 60.506 44.000 0.00 0.00 0.00 3.01
3781 3971 9.624697 GATCTTTGAACATTAACAACATGCTTA 57.375 29.630 0.00 0.00 0.00 3.09
3800 3990 3.855689 AATTTGGTCTGCCGATCTTTG 57.144 42.857 0.00 0.00 37.67 2.77


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

AutoCloner maintained by Alex Coulton.