Multiple sequence alignment - TraesCS7B01G448800

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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 TraesCS7B01G448800 chr7B 100.000 2765 0 0 421 3185 711443178 711440414 0.000000e+00 5107.0
1 TraesCS7B01G448800 chr7B 100.000 146 0 0 1 146 711443598 711443453 1.460000e-68 270.0
2 TraesCS7B01G448800 chr7A 92.775 1924 93 10 451 2351 14920214 14918314 0.000000e+00 2741.0
3 TraesCS7B01G448800 chr7A 85.217 345 19 11 2644 2974 14917848 14917522 3.060000e-85 326.0
4 TraesCS7B01G448800 chr7A 92.823 209 13 2 2975 3183 14917164 14916958 5.160000e-78 302.0
5 TraesCS7B01G448800 chr7A 93.284 134 5 1 1 134 14920444 14920315 9.010000e-46 195.0
6 TraesCS7B01G448800 chr7D 91.658 1954 94 20 451 2351 16120868 16118931 0.000000e+00 2641.0
7 TraesCS7B01G448800 chr7D 91.388 418 25 7 2361 2770 16118888 16118474 2.150000e-156 562.0
8 TraesCS7B01G448800 chr7D 94.313 211 9 3 2975 3185 16118423 16118216 1.430000e-83 320.0
9 TraesCS7B01G448800 chr7D 87.379 206 19 5 2979 3183 16116890 16116691 2.470000e-56 230.0
10 TraesCS7B01G448800 chr7D 90.286 175 15 2 1581 1753 582031182 582031008 8.890000e-56 228.0
11 TraesCS7B01G448800 chr7D 92.537 134 6 2 1 134 16121099 16120970 4.190000e-44 189.0
12 TraesCS7B01G448800 chr7D 90.217 92 5 4 1581 1671 59952311 59952399 2.010000e-22 117.0
13 TraesCS7B01G448800 chr3D 91.347 1953 104 18 448 2351 584758452 584760388 0.000000e+00 2610.0
14 TraesCS7B01G448800 chr3D 91.388 418 27 6 2361 2770 584760431 584760847 5.960000e-157 564.0
15 TraesCS7B01G448800 chr3D 92.925 212 9 5 2975 3185 584760898 584761104 1.440000e-78 303.0
16 TraesCS7B01G448800 chr3D 86.893 206 19 6 2979 3183 584766008 584766206 1.150000e-54 224.0
17 TraesCS7B01G448800 chr3D 94.805 77 0 3 1 77 584732771 584732843 2.010000e-22 117.0
18 TraesCS7B01G448800 chr3D 92.647 68 5 0 67 134 584758286 584758353 7.270000e-17 99.0
19 TraesCS7B01G448800 chr4A 89.969 1944 109 33 454 2351 718753632 718751729 0.000000e+00 2431.0
20 TraesCS7B01G448800 chr4A 82.581 310 23 15 2360 2658 718751685 718751396 8.830000e-61 244.0
21 TraesCS7B01G448800 chr4A 86.111 72 2 2 71 134 718753814 718753743 1.590000e-08 71.3
22 TraesCS7B01G448800 chr4A 100.000 34 0 0 1 34 718753848 718753815 2.650000e-06 63.9
23 TraesCS7B01G448800 chr4D 92.135 178 13 1 1581 1757 318927920 318928097 1.900000e-62 250.0
24 TraesCS7B01G448800 chr6D 93.590 78 4 1 1581 1657 55766599 55766676 7.220000e-22 115.0
25 TraesCS7B01G448800 chr5A 93.590 78 4 1 1581 1657 633749650 633749573 7.220000e-22 115.0
26 TraesCS7B01G448800 chr3A 83.077 130 18 4 1064 1191 624863751 624863624 7.220000e-22 115.0
27 TraesCS7B01G448800 chr3A 82.353 102 10 5 3062 3156 12342527 12342427 7.320000e-12 82.4
28 TraesCS7B01G448800 chr4B 87.000 100 9 4 3061 3158 7841666 7841763 3.360000e-20 110.0
29 TraesCS7B01G448800 chr4B 92.000 50 4 0 1708 1757 668105494 668105543 1.590000e-08 71.3
30 TraesCS7B01G448800 chr1A 87.500 80 8 2 3067 3145 521707991 521708069 1.220000e-14 91.6
31 TraesCS7B01G448800 chr1A 95.349 43 2 0 2993 3035 45853182 45853224 5.700000e-08 69.4
32 TraesCS7B01G448800 chr5D 92.000 50 4 0 1708 1757 72403789 72403838 1.590000e-08 71.3
33 TraesCS7B01G448800 chr5D 76.471 136 27 4 2983 3116 365441984 365442116 5.700000e-08 69.4
34 TraesCS7B01G448800 chr1D 92.000 50 4 0 1708 1757 393105134 393105085 1.590000e-08 71.3
35 TraesCS7B01G448800 chr1D 95.349 43 2 0 2993 3035 46390804 46390846 5.700000e-08 69.4


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 TraesCS7B01G448800 chr7B 711440414 711443598 3184 True 2688.50 5107 100.00000 1 3185 2 chr7B.!!$R1 3184
1 TraesCS7B01G448800 chr7A 14916958 14920444 3486 True 891.00 2741 91.02475 1 3183 4 chr7A.!!$R1 3182
2 TraesCS7B01G448800 chr7D 16116691 16121099 4408 True 788.40 2641 91.45500 1 3185 5 chr7D.!!$R2 3184
3 TraesCS7B01G448800 chr3D 584758286 584761104 2818 False 894.00 2610 92.07675 67 3185 4 chr3D.!!$F3 3118
4 TraesCS7B01G448800 chr4A 718751396 718753848 2452 True 702.55 2431 89.66525 1 2658 4 chr4A.!!$R1 2657

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
749 791 0.038892 GCCAAACAGCACAGGTCATG 60.039 55.0 0.0 0.0 0.0 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2507 2922 0.103208 CGCGGGTAGATTTCTCAGCT 59.897 55.0 0.0 0.0 0.0 4.24 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
65 66 3.526931 ACGAGAGTCTGAGAGAGAGAG 57.473 52.381 0.00 0.00 44.19 3.20
451 468 1.155889 CGCAAGGTCTATGTTGTGCA 58.844 50.000 0.00 0.00 32.29 4.57
460 493 3.088532 TCTATGTTGTGCACATTTCCCC 58.911 45.455 22.39 5.38 44.40 4.81
476 509 7.503566 CACATTTCCCCTGTTTCATCTATATGT 59.496 37.037 0.00 0.00 34.50 2.29
478 511 6.575244 TTCCCCTGTTTCATCTATATGTGT 57.425 37.500 0.00 0.00 34.50 3.72
514 551 2.034812 ACGAATCATCTAGAACTCGGCC 59.965 50.000 15.89 0.00 38.97 6.13
516 553 2.088104 ATCATCTAGAACTCGGCCCA 57.912 50.000 0.00 0.00 0.00 5.36
548 585 3.297134 TGGGTGGCCTGAATTAGAATC 57.703 47.619 3.32 0.00 0.00 2.52
557 594 5.510520 GGCCTGAATTAGAATCGACTGATCT 60.511 44.000 0.00 0.00 32.24 2.75
584 621 5.459536 AGGCTTTGATTTTCCTCAGAAAC 57.540 39.130 0.00 0.00 41.69 2.78
644 681 1.290203 GACGTATCGGTCTCACGGTA 58.710 55.000 0.00 0.00 39.91 4.02
645 682 1.869767 GACGTATCGGTCTCACGGTAT 59.130 52.381 0.00 0.00 39.91 2.73
646 683 3.059884 GACGTATCGGTCTCACGGTATA 58.940 50.000 0.00 0.00 39.91 1.47
647 684 3.466836 ACGTATCGGTCTCACGGTATAA 58.533 45.455 0.00 0.00 39.91 0.98
653 690 7.059945 CGTATCGGTCTCACGGTATAAATAAAC 59.940 40.741 0.00 0.00 31.42 2.01
676 713 5.238650 ACAATTGTCACCTCTTTTAACCTCG 59.761 40.000 4.92 0.00 0.00 4.63
685 722 5.987953 ACCTCTTTTAACCTCGTGTTCTTAC 59.012 40.000 0.00 0.00 38.42 2.34
706 748 5.059404 ACAAATGATGGGCTTCGTTAAAG 57.941 39.130 0.00 0.00 38.08 1.85
717 759 3.123116 GCTTCGTTAAAGGTGTCTACTGC 59.877 47.826 0.00 0.00 35.37 4.40
732 774 1.242076 ACTGCTGTGAGACATTTGCC 58.758 50.000 0.00 0.00 0.00 4.52
739 781 2.223782 TGTGAGACATTTGCCAAACAGC 60.224 45.455 0.00 0.00 0.00 4.40
747 789 0.682532 TTGCCAAACAGCACAGGTCA 60.683 50.000 0.00 0.00 43.97 4.02
749 791 0.038892 GCCAAACAGCACAGGTCATG 60.039 55.000 0.00 0.00 0.00 3.07
831 874 9.643693 ATCAAATTCCTTATTTTTGCTAGTGTG 57.356 29.630 0.00 0.00 34.19 3.82
886 932 5.170198 AGGCCCCTGAGGAAATATACATTA 58.830 41.667 0.00 0.00 38.24 1.90
1007 1057 3.698040 AGACAAATTCCCATCATGCAGAC 59.302 43.478 0.00 0.00 0.00 3.51
1016 1066 2.563013 ATCATGCAGACCCCCAGCAC 62.563 60.000 0.00 0.00 41.60 4.40
1049 1099 4.096532 GGTTTCTACTTCAATTAGCCCTGC 59.903 45.833 0.00 0.00 0.00 4.85
1081 1131 0.112412 ACAAGGTTGGGCCGATCTTT 59.888 50.000 17.02 6.15 43.70 2.52
1132 1182 1.284785 TGTTGGGATCCTCCATTGACC 59.715 52.381 12.58 0.00 38.64 4.02
1158 1208 1.006571 CTTTGCTGCAACCTGCCAG 60.007 57.895 15.72 4.80 44.23 4.85
1183 1233 2.093216 CGTGCAGCATTCTCTTCCC 58.907 57.895 0.00 0.00 0.00 3.97
1241 1291 0.744874 CTTCTTATCCGACCCGCTGA 59.255 55.000 0.00 0.00 0.00 4.26
1351 1401 5.108217 CGTAAAGTCATTGATGTAGCTAGCG 60.108 44.000 9.55 0.00 0.00 4.26
1451 1501 0.972983 ATCTGCTGCTACCGTGGAGT 60.973 55.000 0.00 0.00 0.00 3.85
1512 1562 0.969894 CTCCACGTCTCCCTTTCAGT 59.030 55.000 0.00 0.00 0.00 3.41
1706 1756 0.107410 GCCATGGACCACGGTATGAA 60.107 55.000 18.40 0.00 0.00 2.57
1710 1760 2.979814 TGGACCACGGTATGAAGATG 57.020 50.000 0.00 0.00 0.00 2.90
2239 2324 3.436704 TCTTTTCTTAAGTGCCGATGCTG 59.563 43.478 1.63 0.00 38.71 4.41
2316 2415 5.774690 AGACTTGGACATTTTTGCCTGAATA 59.225 36.000 0.00 0.00 0.00 1.75
2351 2450 5.616270 TGTTGGCTTGTAATAAGAGACACA 58.384 37.500 0.00 0.00 0.00 3.72
2353 2452 5.222079 TGGCTTGTAATAAGAGACACACA 57.778 39.130 0.00 0.00 0.00 3.72
2354 2453 5.616270 TGGCTTGTAATAAGAGACACACAA 58.384 37.500 0.00 0.00 0.00 3.33
2356 2455 5.122396 GGCTTGTAATAAGAGACACACAAGG 59.878 44.000 12.61 0.00 41.85 3.61
2357 2456 5.122396 GCTTGTAATAAGAGACACACAAGGG 59.878 44.000 12.61 0.00 41.85 3.95
2358 2457 5.160607 TGTAATAAGAGACACACAAGGGG 57.839 43.478 0.00 0.00 0.00 4.79
2401 2699 4.819105 TGTGTTCTTGTACTGATAGGGG 57.181 45.455 0.00 0.00 0.00 4.79
2440 2738 4.398988 CAGAGTTCTCTGTGCTCTCTATGT 59.601 45.833 18.38 0.00 37.48 2.29
2490 2905 2.822255 GTCCGCTATTTGGCCGCA 60.822 61.111 0.00 0.00 0.00 5.69
2507 2922 0.880278 GCAATCTCCCGCTAATCGCA 60.880 55.000 0.00 0.00 39.08 5.10
2520 2935 4.302455 GCTAATCGCAGCTGAGAAATCTA 58.698 43.478 24.24 11.80 38.57 1.98
2535 2950 2.702592 ATCTACCCGCGATTTTCCAA 57.297 45.000 8.23 0.00 0.00 3.53
2562 2977 2.043604 AATCGCGGGAGATCATGCCA 62.044 55.000 6.13 0.00 40.07 4.92
2592 3007 1.067821 GAGATCGCTCCATTCCTTCGT 59.932 52.381 0.00 0.00 35.01 3.85
2611 3026 1.200484 GTTTAGCCATCGCGGGAAAAA 59.800 47.619 6.13 2.03 41.18 1.94
2618 3033 2.009774 CATCGCGGGAAAAATCTCTGT 58.990 47.619 6.13 0.00 0.00 3.41
2620 3035 1.001520 TCGCGGGAAAAATCTCTGTCA 59.998 47.619 6.13 0.00 0.00 3.58
2623 3038 2.814336 GCGGGAAAAATCTCTGTCACTT 59.186 45.455 0.00 0.00 0.00 3.16
2624 3039 3.253432 GCGGGAAAAATCTCTGTCACTTT 59.747 43.478 0.00 0.00 0.00 2.66
2625 3040 4.787598 CGGGAAAAATCTCTGTCACTTTG 58.212 43.478 0.00 0.00 0.00 2.77
2704 3128 6.095377 AGGAATGATTTTCATGAAAAGCGAC 58.905 36.000 32.37 26.09 46.28 5.19
2740 3164 1.762957 TGATAGCTGGGCAGGTACTTC 59.237 52.381 0.00 0.00 43.22 3.01
2744 3168 0.749454 GCTGGGCAGGTACTTCCATG 60.749 60.000 0.00 0.00 45.87 3.66
2750 3174 1.279271 GCAGGTACTTCCATGGACTGT 59.721 52.381 23.19 21.46 34.60 3.55
2775 3199 4.613925 AGTTCAGACTGAGAATGAAGCA 57.386 40.909 5.10 0.00 33.99 3.91
2795 3219 4.803426 CGCAGTGGGGAGCTCGTC 62.803 72.222 7.83 2.69 0.00 4.20
2796 3220 4.803426 GCAGTGGGGAGCTCGTCG 62.803 72.222 7.83 0.00 0.00 5.12
2797 3221 4.803426 CAGTGGGGAGCTCGTCGC 62.803 72.222 7.83 8.88 37.39 5.19
2819 3243 2.817844 TGATGCGATACATAGGCGTACT 59.182 45.455 0.00 0.00 39.84 2.73
2825 3249 3.059393 CGATACATAGGCGTACTCGTTGA 60.059 47.826 0.00 0.00 39.49 3.18
2851 3275 2.581208 TATTGCGTGTACAGGCCGGG 62.581 60.000 31.36 1.20 41.13 5.73
2868 3306 1.378250 GGCCAGTCTTCAGCATGCT 60.378 57.895 16.30 16.30 34.76 3.79
2943 3381 2.432510 AGGCTGTAGAATGAGGTGCTAC 59.567 50.000 0.00 0.00 36.06 3.58
2983 3778 6.926630 TTTTAACCCTGCTGAACCAAATAT 57.073 33.333 0.00 0.00 0.00 1.28
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
64 65 1.137697 AGGGAAACGGGTTGTTCTCT 58.862 50.000 0.00 0.00 40.84 3.10
65 66 1.878088 GAAGGGAAACGGGTTGTTCTC 59.122 52.381 0.00 0.00 40.84 2.87
110 111 2.956964 GTGGCTCGATCGCTTCCG 60.957 66.667 11.09 0.00 0.00 4.30
451 468 7.503566 CACATATAGATGAAACAGGGGAAATGT 59.496 37.037 3.93 0.00 36.48 2.71
460 493 7.922837 TGCATGAACACATATAGATGAAACAG 58.077 34.615 3.93 0.00 36.48 3.16
476 509 3.467374 TCGTAGGCATATGCATGAACA 57.533 42.857 28.07 4.13 44.36 3.18
478 511 4.640364 TGATTCGTAGGCATATGCATGAA 58.360 39.130 28.07 23.09 44.36 2.57
514 551 1.002134 ACCCAAAGATCCAGCGTGG 60.002 57.895 0.00 0.00 39.43 4.94
516 553 1.002134 CCACCCAAAGATCCAGCGT 60.002 57.895 0.00 0.00 0.00 5.07
548 585 2.932614 CAAAGCCTAACCAGATCAGTCG 59.067 50.000 0.00 0.00 0.00 4.18
557 594 4.735369 TGAGGAAAATCAAAGCCTAACCA 58.265 39.130 0.00 0.00 0.00 3.67
625 662 1.290203 TACCGTGAGACCGATACGTC 58.710 55.000 0.00 0.00 36.17 4.34
647 684 9.758651 GGTTAAAAGAGGTGACAATTGTTTATT 57.241 29.630 13.36 0.00 0.00 1.40
653 690 5.238650 ACGAGGTTAAAAGAGGTGACAATTG 59.761 40.000 3.24 3.24 0.00 2.32
676 713 5.391312 AAGCCCATCATTTGTAAGAACAC 57.609 39.130 0.00 0.00 34.61 3.32
685 722 4.082245 ACCTTTAACGAAGCCCATCATTTG 60.082 41.667 0.00 0.00 33.84 2.32
706 748 1.613925 TGTCTCACAGCAGTAGACACC 59.386 52.381 13.55 0.00 43.45 4.16
717 759 3.635331 CTGTTTGGCAAATGTCTCACAG 58.365 45.455 16.74 13.13 0.00 3.66
732 774 4.456911 AGATAACATGACCTGTGCTGTTTG 59.543 41.667 0.00 0.00 38.39 2.93
739 781 6.273071 TCGTTATCAGATAACATGACCTGTG 58.727 40.000 26.20 11.51 44.08 3.66
747 789 5.977725 CAGACCGTTCGTTATCAGATAACAT 59.022 40.000 26.20 9.41 44.08 2.71
749 791 5.575957 TCAGACCGTTCGTTATCAGATAAC 58.424 41.667 19.76 19.76 41.25 1.89
831 874 6.030228 GCCTATGCATGAAGAAACTTGTTAC 58.970 40.000 10.16 0.00 37.47 2.50
886 932 9.736414 ATAAAGAGACATATAGCATGCAAGAAT 57.264 29.630 21.98 10.02 0.00 2.40
916 962 8.578448 TGAACAATTTCAAGGATGTGATGATA 57.422 30.769 0.00 0.00 38.87 2.15
917 963 7.470935 TGAACAATTTCAAGGATGTGATGAT 57.529 32.000 0.00 0.00 38.87 2.45
918 964 6.897706 TGAACAATTTCAAGGATGTGATGA 57.102 33.333 0.00 0.00 38.87 2.92
919 965 6.471198 CGATGAACAATTTCAAGGATGTGATG 59.529 38.462 0.00 0.00 45.01 3.07
924 970 5.314923 ACCGATGAACAATTTCAAGGATG 57.685 39.130 15.06 0.00 45.01 3.51
957 1007 6.969043 TCACATACCAAATTCAGGTCCTAAT 58.031 36.000 5.86 0.00 40.54 1.73
958 1008 6.381498 TCACATACCAAATTCAGGTCCTAA 57.619 37.500 5.86 0.00 40.54 2.69
959 1009 6.356556 CATCACATACCAAATTCAGGTCCTA 58.643 40.000 5.86 0.00 40.54 2.94
960 1010 4.927267 TCACATACCAAATTCAGGTCCT 57.073 40.909 5.86 0.00 40.54 3.85
1007 1057 1.075482 ACTGACAATGTGCTGGGGG 59.925 57.895 0.00 0.00 0.00 5.40
1016 1066 6.618287 TTGAAGTAGAAACCACTGACAATG 57.382 37.500 0.00 0.00 0.00 2.82
1049 1099 3.753272 CCAACCTTGTAATCCAGACACAG 59.247 47.826 0.00 0.00 0.00 3.66
1081 1131 2.244117 GAGTGAAGCAGGCCATCCGA 62.244 60.000 5.01 0.00 37.47 4.55
1091 1141 1.881973 GAGCAACAATGGAGTGAAGCA 59.118 47.619 0.00 0.00 0.00 3.91
1132 1182 3.972107 TTGCAGCAAAGGCAAGAAG 57.028 47.368 4.99 0.00 45.57 2.85
1158 1208 1.226491 GAATGCTGCACGCCATGAC 60.226 57.895 3.57 0.00 38.05 3.06
1183 1233 2.898729 AGGTTAGATGCAGATCGGTG 57.101 50.000 0.00 0.00 33.34 4.94
1293 1343 6.414079 CATGTATCGAGAATTGAAAGGAACG 58.586 40.000 0.00 0.00 28.09 3.95
1351 1401 3.111038 GCCAAGGGCGCTATTGTC 58.889 61.111 19.04 7.24 39.62 3.18
1366 1416 0.254178 TCTTGAGGAATCTGGCAGCC 59.746 55.000 10.34 3.66 0.00 4.85
1451 1501 4.393371 TGAACACATCGACAACAAGACAAA 59.607 37.500 0.00 0.00 0.00 2.83
1512 1562 0.973496 TGCCACCATAGTAGCCGTCA 60.973 55.000 0.00 0.00 28.30 4.35
1706 1756 2.224066 GCCAACCGCAGAGTATACATCT 60.224 50.000 5.50 2.60 37.47 2.90
1710 1760 0.532196 GGGCCAACCGCAGAGTATAC 60.532 60.000 4.39 0.00 40.31 1.47
1905 1955 2.222027 GTCTTCACCTTCACCCACTTG 58.778 52.381 0.00 0.00 0.00 3.16
2239 2324 7.848223 AACAAAATAAATTCAATAGCAGCCC 57.152 32.000 0.00 0.00 0.00 5.19
2310 2409 8.822652 AGCCAACAAAAGAAAAAGATATTCAG 57.177 30.769 0.00 0.00 0.00 3.02
2316 2415 8.962884 ATTACAAGCCAACAAAAGAAAAAGAT 57.037 26.923 0.00 0.00 0.00 2.40
2370 2668 9.826574 ATCAGTACAAGAACACAAAGTACTTAA 57.173 29.630 8.92 0.00 42.33 1.85
2507 2922 0.103208 CGCGGGTAGATTTCTCAGCT 59.897 55.000 0.00 0.00 0.00 4.24
2520 2935 2.413310 ACTATTGGAAAATCGCGGGT 57.587 45.000 6.13 0.00 0.00 5.28
2535 2950 3.572682 TGATCTCCCGCGATTTGTACTAT 59.427 43.478 8.23 0.00 0.00 2.12
2562 2977 1.579084 GAGCGATCTCGGGCGATAGT 61.579 60.000 0.00 0.00 40.23 2.12
2592 3007 1.535833 TTTTTCCCGCGATGGCTAAA 58.464 45.000 8.23 2.67 36.88 1.85
2611 3026 1.016130 CGCGGCAAAGTGACAGAGAT 61.016 55.000 0.00 0.00 0.00 2.75
2618 3033 3.438781 AGATTAAAATCGCGGCAAAGTGA 59.561 39.130 6.13 0.00 40.35 3.41
2620 3035 5.295787 TCATAGATTAAAATCGCGGCAAAGT 59.704 36.000 6.13 0.00 40.35 2.66
2623 3038 4.814234 ACTCATAGATTAAAATCGCGGCAA 59.186 37.500 6.13 0.00 40.35 4.52
2624 3039 4.377021 ACTCATAGATTAAAATCGCGGCA 58.623 39.130 6.13 0.00 40.35 5.69
2625 3040 4.992381 ACTCATAGATTAAAATCGCGGC 57.008 40.909 6.13 0.00 40.35 6.53
2704 3128 6.377780 CAGCTATCAGCACATGTACTAGTAG 58.622 44.000 1.87 5.40 45.56 2.57
2740 3164 4.221703 AGTCTGAACTTCTACAGTCCATGG 59.778 45.833 4.97 4.97 32.94 3.66
2744 3168 4.762765 TCTCAGTCTGAACTTCTACAGTCC 59.237 45.833 3.67 0.00 32.94 3.85
2750 3174 6.015095 TGCTTCATTCTCAGTCTGAACTTCTA 60.015 38.462 3.67 0.00 31.71 2.10
2775 3199 4.008933 GAGCTCCCCACTGCGTGT 62.009 66.667 0.87 0.00 0.00 4.49
2796 3220 0.994995 CGCCTATGTATCGCATCAGC 59.005 55.000 0.00 0.00 38.94 4.26
2797 3221 2.354109 ACGCCTATGTATCGCATCAG 57.646 50.000 0.00 0.00 38.94 2.90
2798 3222 2.817844 AGTACGCCTATGTATCGCATCA 59.182 45.455 0.00 0.00 38.94 3.07
2799 3223 3.427243 GAGTACGCCTATGTATCGCATC 58.573 50.000 0.00 0.00 38.94 3.91
2800 3224 2.159558 CGAGTACGCCTATGTATCGCAT 60.160 50.000 0.00 0.00 41.42 4.73
2801 3225 1.196127 CGAGTACGCCTATGTATCGCA 59.804 52.381 0.00 0.00 0.00 5.10
2802 3226 1.196354 ACGAGTACGCCTATGTATCGC 59.804 52.381 0.00 0.00 43.96 4.58
2803 3227 3.059393 TCAACGAGTACGCCTATGTATCG 60.059 47.826 0.00 0.00 43.96 2.92
2804 3228 4.465016 CTCAACGAGTACGCCTATGTATC 58.535 47.826 0.00 0.00 43.96 2.24
2805 3229 3.304525 GCTCAACGAGTACGCCTATGTAT 60.305 47.826 0.00 0.00 43.96 2.29
2806 3230 2.032550 GCTCAACGAGTACGCCTATGTA 59.967 50.000 0.00 0.00 43.96 2.29
2807 3231 1.202268 GCTCAACGAGTACGCCTATGT 60.202 52.381 0.00 0.00 43.96 2.29
2808 3232 1.478137 GCTCAACGAGTACGCCTATG 58.522 55.000 0.00 0.00 43.96 2.23
2809 3233 0.384669 GGCTCAACGAGTACGCCTAT 59.615 55.000 0.00 0.00 43.96 2.57
2810 3234 1.805254 GGCTCAACGAGTACGCCTA 59.195 57.895 0.00 0.00 43.96 3.93
2811 3235 1.977544 AGGCTCAACGAGTACGCCT 60.978 57.895 2.71 2.71 45.70 5.52
2812 3236 1.080025 AAGGCTCAACGAGTACGCC 60.080 57.895 0.00 0.00 43.96 5.68
2819 3243 1.075542 CGCAATACAAGGCTCAACGA 58.924 50.000 0.00 0.00 0.00 3.85
2825 3249 2.346803 CTGTACACGCAATACAAGGCT 58.653 47.619 0.00 0.00 32.27 4.58
2851 3275 1.654954 CCAGCATGCTGAAGACTGGC 61.655 60.000 42.21 1.80 46.30 4.85
2855 3279 2.413142 GGGCCAGCATGCTGAAGAC 61.413 63.158 42.21 30.28 46.30 3.01
2879 3317 1.788258 CAATGTGAGTGACTCTGCGT 58.212 50.000 14.42 5.50 0.00 5.24
2943 3381 7.500559 AGGGTTAAAATCTGCTATTAGCTTCAG 59.499 37.037 16.29 6.25 42.97 3.02
2958 3396 4.864704 TTGGTTCAGCAGGGTTAAAATC 57.135 40.909 0.00 0.00 0.00 2.17


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

AutoCloner maintained by Alex Coulton.