Multiple sequence alignment - TraesCS7B01G431000

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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 TraesCS7B01G431000 chr7B 100.000 2501 0 0 1 2501 699360958 699363458 0.000000e+00 4619.0
1 TraesCS7B01G431000 chr7B 84.772 637 60 16 728 1341 699562814 699562192 2.750000e-169 604.0
2 TraesCS7B01G431000 chr7B 89.460 389 35 4 959 1341 699524627 699524239 1.040000e-133 486.0
3 TraesCS7B01G431000 chr7B 84.226 336 37 5 1003 1338 699354569 699354888 1.870000e-81 313.0
4 TraesCS7B01G431000 chr7B 82.500 160 22 2 1345 1504 699562101 699561948 4.340000e-28 135.0
5 TraesCS7B01G431000 chr7B 81.875 160 23 2 1345 1504 699530581 699530428 2.020000e-26 130.0
6 TraesCS7B01G431000 chr7B 87.952 83 6 2 868 948 699524746 699524666 7.360000e-16 95.3
7 TraesCS7B01G431000 chr7B 80.645 124 8 5 732 842 699524864 699524744 5.730000e-12 82.4
8 TraesCS7B01G431000 chr5D 96.662 719 22 1 1 719 542461683 542462399 0.000000e+00 1194.0
9 TraesCS7B01G431000 chr5D 96.523 719 25 0 1 719 550608395 550607677 0.000000e+00 1190.0
10 TraesCS7B01G431000 chr5D 96.384 719 26 0 1 719 469437889 469438607 0.000000e+00 1184.0
11 TraesCS7B01G431000 chr5D 80.728 467 72 9 2039 2491 352217559 352218021 5.120000e-92 348.0
12 TraesCS7B01G431000 chr5D 82.500 160 19 4 2337 2488 498031413 498031571 5.610000e-27 132.0
13 TraesCS7B01G431000 chr3B 96.255 721 25 1 1 719 723656566 723657286 0.000000e+00 1181.0
14 TraesCS7B01G431000 chr3B 78.390 472 79 14 2044 2499 823197802 823197338 4.070000e-73 285.0
15 TraesCS7B01G431000 chr3B 89.474 57 6 0 1446 1502 739889101 739889045 3.450000e-09 73.1
16 TraesCS7B01G431000 chr7D 96.245 719 27 0 1 719 64983862 64984580 0.000000e+00 1179.0
17 TraesCS7B01G431000 chr7D 89.171 905 43 19 868 1721 610797551 610796651 0.000000e+00 1077.0
18 TraesCS7B01G431000 chr7D 88.610 518 52 5 1984 2499 610795675 610795163 7.600000e-175 623.0
19 TraesCS7B01G431000 chr7D 82.278 474 65 13 2037 2495 47425386 47425855 2.330000e-105 392.0
20 TraesCS7B01G431000 chr7D 79.789 475 78 11 2039 2499 60277988 60277518 1.850000e-86 329.0
21 TraesCS7B01G431000 chr7D 78.344 471 81 11 2041 2496 145910100 145910564 4.070000e-73 285.0
22 TraesCS7B01G431000 chr7D 75.000 408 68 26 2109 2496 509561125 509561518 9.260000e-35 158.0
23 TraesCS7B01G431000 chr7D 82.203 118 8 7 738 842 610797666 610797549 3.430000e-14 89.8
24 TraesCS7B01G431000 chr6D 96.106 719 28 0 1 719 19378888 19378170 0.000000e+00 1173.0
25 TraesCS7B01G431000 chr6D 78.116 361 58 12 2155 2501 422193931 422194284 2.520000e-50 209.0
26 TraesCS7B01G431000 chr6D 83.019 159 17 4 2345 2495 63757873 63758029 4.340000e-28 135.0
27 TraesCS7B01G431000 chr3D 96.106 719 28 0 1 719 582572034 582571316 0.000000e+00 1173.0
28 TraesCS7B01G431000 chr3D 95.967 719 29 0 1 719 430363601 430364319 0.000000e+00 1168.0
29 TraesCS7B01G431000 chr1D 95.967 719 29 0 1 719 62364637 62363919 0.000000e+00 1168.0
30 TraesCS7B01G431000 chr1D 80.928 194 28 6 2314 2499 469891280 469891088 7.210000e-31 145.0
31 TraesCS7B01G431000 chr1D 85.833 120 16 1 2377 2496 365430263 365430381 2.610000e-25 126.0
32 TraesCS7B01G431000 chr7A 88.000 350 33 6 995 1341 700685334 700684991 3.000000e-109 405.0
33 TraesCS7B01G431000 chr7A 83.527 431 28 18 1576 1987 700684751 700684345 1.830000e-96 363.0
34 TraesCS7B01G431000 chr7A 79.614 466 74 11 2039 2489 298477514 298477055 5.190000e-82 315.0
35 TraesCS7B01G431000 chr7A 86.957 92 6 3 1449 1534 700684838 700684747 5.690000e-17 99.0
36 TraesCS7B01G431000 chr2B 86.016 379 47 2 968 1340 540813739 540813361 3.870000e-108 401.0
37 TraesCS7B01G431000 chr4D 81.551 477 69 11 2039 2501 344128838 344128367 2.350000e-100 375.0
38 TraesCS7B01G431000 chr4D 79.915 473 75 9 2039 2496 745154 745621 1.850000e-86 329.0
39 TraesCS7B01G431000 chr2A 84.433 379 53 3 968 1340 602718685 602718307 3.930000e-98 368.0
40 TraesCS7B01G431000 chr2A 83.421 380 51 5 968 1335 602688788 602688409 2.380000e-90 342.0
41 TraesCS7B01G431000 chr5B 79.832 476 78 13 2039 2501 34893045 34893515 5.160000e-87 331.0
42 TraesCS7B01G431000 chr5B 79.406 471 74 13 2045 2499 635099684 635099221 6.720000e-81 311.0


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 TraesCS7B01G431000 chr7B 699360958 699363458 2500 False 4619.000000 4619 100.000000 1 2501 1 chr7B.!!$F2 2500
1 TraesCS7B01G431000 chr7B 699561948 699562814 866 True 369.500000 604 83.636000 728 1504 2 chr7B.!!$R3 776
2 TraesCS7B01G431000 chr7B 699524239 699524864 625 True 221.233333 486 86.019000 732 1341 3 chr7B.!!$R2 609
3 TraesCS7B01G431000 chr5D 542461683 542462399 716 False 1194.000000 1194 96.662000 1 719 1 chr5D.!!$F4 718
4 TraesCS7B01G431000 chr5D 550607677 550608395 718 True 1190.000000 1190 96.523000 1 719 1 chr5D.!!$R1 718
5 TraesCS7B01G431000 chr5D 469437889 469438607 718 False 1184.000000 1184 96.384000 1 719 1 chr5D.!!$F2 718
6 TraesCS7B01G431000 chr3B 723656566 723657286 720 False 1181.000000 1181 96.255000 1 719 1 chr3B.!!$F1 718
7 TraesCS7B01G431000 chr7D 64983862 64984580 718 False 1179.000000 1179 96.245000 1 719 1 chr7D.!!$F2 718
8 TraesCS7B01G431000 chr7D 610795163 610797666 2503 True 596.600000 1077 86.661333 738 2499 3 chr7D.!!$R2 1761
9 TraesCS7B01G431000 chr6D 19378170 19378888 718 True 1173.000000 1173 96.106000 1 719 1 chr6D.!!$R1 718
10 TraesCS7B01G431000 chr3D 582571316 582572034 718 True 1173.000000 1173 96.106000 1 719 1 chr3D.!!$R1 718
11 TraesCS7B01G431000 chr3D 430363601 430364319 718 False 1168.000000 1168 95.967000 1 719 1 chr3D.!!$F1 718
12 TraesCS7B01G431000 chr1D 62363919 62364637 718 True 1168.000000 1168 95.967000 1 719 1 chr1D.!!$R1 718
13 TraesCS7B01G431000 chr7A 700684345 700685334 989 True 289.000000 405 86.161333 995 1987 3 chr7A.!!$R2 992

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
949 979 0.249868 CAGCCTCCAAGTCACGAACA 60.25 55.0 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2053 2956 0.318275 GCTAGCCGGTGAAGATCGAG 60.318 60.0 2.29 0.0 0.0 4.04 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
188 191 7.506114 AGGGTGAATATGCGTTTCTTTCTATA 58.494 34.615 0.00 0.00 0.00 1.31
346 349 1.736681 GCTCAATCTCAACTGCAGACC 59.263 52.381 23.35 0.00 0.00 3.85
374 377 5.123227 CCTCACCTCCGCTATTTTATCAAA 58.877 41.667 0.00 0.00 0.00 2.69
376 379 5.984725 TCACCTCCGCTATTTTATCAAAGA 58.015 37.500 0.00 0.00 0.00 2.52
566 569 1.856259 TCCCTCTCTAGTGAGCCATCT 59.144 52.381 15.04 0.00 40.03 2.90
632 635 2.487762 GTCCAAAATCGGTGAGCAATGA 59.512 45.455 0.00 0.00 0.00 2.57
670 673 3.956848 GGCCTCAATTCTTTCTAATGCCT 59.043 43.478 0.00 0.00 32.53 4.75
689 692 2.210711 GGACCGAGGCTAGGGGATG 61.211 68.421 18.34 0.00 0.00 3.51
709 712 5.454187 GGATGTTTATATTCCCAGTCGGTGA 60.454 44.000 0.00 0.00 0.00 4.02
719 722 2.167693 CCCAGTCGGTGATAACTAGCAA 59.832 50.000 0.00 0.00 0.00 3.91
720 723 3.369052 CCCAGTCGGTGATAACTAGCAAA 60.369 47.826 0.00 0.00 0.00 3.68
721 724 4.250464 CCAGTCGGTGATAACTAGCAAAA 58.750 43.478 0.00 0.00 0.00 2.44
722 725 4.693566 CCAGTCGGTGATAACTAGCAAAAA 59.306 41.667 0.00 0.00 0.00 1.94
787 791 0.817634 TGTTGCAACCAAGTCGGAGG 60.818 55.000 26.14 0.00 38.63 4.30
788 792 0.534203 GTTGCAACCAAGTCGGAGGA 60.534 55.000 19.15 0.00 38.63 3.71
829 846 3.394674 TCTCCACTTCGTACAATTGCA 57.605 42.857 5.05 0.00 0.00 4.08
856 873 1.270358 GCCCTAGCTCTTCCCGTAATG 60.270 57.143 0.00 0.00 35.50 1.90
860 883 2.317530 AGCTCTTCCCGTAATGAAGC 57.682 50.000 0.00 0.00 39.24 3.86
882 905 4.745620 GCAACTATCTAATTGGACTCGGAC 59.254 45.833 0.00 0.00 0.00 4.79
948 978 1.569479 GCAGCCTCCAAGTCACGAAC 61.569 60.000 0.00 0.00 0.00 3.95
949 979 0.249868 CAGCCTCCAAGTCACGAACA 60.250 55.000 0.00 0.00 0.00 3.18
951 981 0.951040 GCCTCCAAGTCACGAACAGG 60.951 60.000 0.00 0.00 0.00 4.00
953 983 1.070134 CCTCCAAGTCACGAACAGGAA 59.930 52.381 0.00 0.00 34.93 3.36
955 985 2.802816 CTCCAAGTCACGAACAGGAAAG 59.197 50.000 0.00 0.00 34.93 2.62
956 986 2.169769 TCCAAGTCACGAACAGGAAAGT 59.830 45.455 0.00 0.00 33.08 2.66
1176 1237 1.003233 GGATCTATTCGCCCAGGCC 60.003 63.158 2.37 0.00 37.98 5.19
1194 1255 2.755469 TACCCTACCGCACGGGAC 60.755 66.667 14.51 0.00 43.44 4.46
1198 1259 2.048023 CCTACCGCACGGGACTACA 61.048 63.158 14.51 0.00 39.97 2.74
1230 1291 0.325484 ATCAGCTGGAGAGACAGGCT 60.325 55.000 15.13 0.00 38.90 4.58
1231 1292 0.543883 TCAGCTGGAGAGACAGGCTT 60.544 55.000 15.13 0.00 38.90 4.35
1233 1294 1.744741 GCTGGAGAGACAGGCTTGC 60.745 63.158 0.00 0.00 38.90 4.01
1298 1368 3.407424 TGGAGTTTCTGGTGATGACAG 57.593 47.619 0.00 0.00 37.30 3.51
1320 1390 3.801997 CCAGGGGCTTCGGCTGAT 61.802 66.667 0.00 0.00 41.44 2.90
1374 1531 0.038892 CAAAGAGGCAGCAACGCAAT 60.039 50.000 0.00 0.00 0.00 3.56
1388 1545 0.231279 CGCAATATGTCGCGTTACCC 59.769 55.000 5.77 0.00 46.23 3.69
1530 1697 6.018425 AGCTAGACGATTTGCTTCAACATATG 60.018 38.462 0.00 0.00 30.96 1.78
1543 1710 6.371548 GCTTCAACATATGTGTAGACTTTCCA 59.628 38.462 9.63 0.00 37.67 3.53
1546 1713 8.862325 TCAACATATGTGTAGACTTTCCATTT 57.138 30.769 9.63 0.00 37.67 2.32
1547 1714 9.952030 TCAACATATGTGTAGACTTTCCATTTA 57.048 29.630 9.63 0.00 37.67 1.40
1567 1734 5.554822 TTATTCGTCGGCTTGCTTTTTAT 57.445 34.783 0.00 0.00 0.00 1.40
1753 2603 7.325694 TTTAGTAAGCACTTAGCCGACTAAAT 58.674 34.615 14.83 0.00 45.89 1.40
1765 2615 6.920569 AGCCGACTAAATATTCACGATTTT 57.079 33.333 0.00 0.00 0.00 1.82
1766 2616 7.316544 AGCCGACTAAATATTCACGATTTTT 57.683 32.000 0.00 0.00 0.00 1.94
1916 2774 7.531857 ACTTCAGAATACAGATCGATGGTAT 57.468 36.000 0.54 8.05 0.00 2.73
1927 2785 5.625721 CAGATCGATGGTATTTAGTGTCGAC 59.374 44.000 9.11 9.11 40.34 4.20
1987 2846 4.808895 GCAAACCCGAAAAAGAACAATTCT 59.191 37.500 0.00 0.00 43.15 2.40
2037 2940 6.211584 TGACTAGTTAATCTTTCTGCTCCTGT 59.788 38.462 0.00 0.00 0.00 4.00
2042 2945 6.772716 AGTTAATCTTTCTGCTCCTGTGAAAA 59.227 34.615 0.00 0.00 30.67 2.29
2053 2956 1.547901 CCTGTGAAAACCTTCCTCCCC 60.548 57.143 0.00 0.00 0.00 4.81
2061 2964 0.340208 ACCTTCCTCCCCTCGATCTT 59.660 55.000 0.00 0.00 0.00 2.40
2075 2978 1.686325 GATCTTCACCGGCTAGCCCA 61.686 60.000 28.09 6.72 0.00 5.36
2084 2987 1.968540 GGCTAGCCCATGGATTCGC 60.969 63.158 24.19 8.10 0.00 4.70
2107 3010 2.196925 CCTCCGCCTGTCGCTCTAT 61.197 63.158 0.00 0.00 36.73 1.98
2142 3045 1.283321 GAAGGGATTTCTGGTGCCTCT 59.717 52.381 0.00 0.00 36.28 3.69
2147 3050 2.637947 GATTTCTGGTGCCTCTTCTCC 58.362 52.381 0.00 0.00 0.00 3.71
2169 3072 4.009002 CGGCTAGTAGATAGGTAGGGTTC 58.991 52.174 0.00 0.00 31.55 3.62
2177 3080 7.748677 AGTAGATAGGTAGGGTTCTAGTTCTC 58.251 42.308 0.00 0.00 0.00 2.87
2184 3087 0.175989 GGTTCTAGTTCTCGCAGGGG 59.824 60.000 0.00 0.00 0.00 4.79
2224 3127 1.406970 GCGCTTCTTCTTCGAGTCGG 61.407 60.000 13.54 0.00 0.00 4.79
2234 3137 1.174712 TTCGAGTCGGTCTTTCGGGT 61.175 55.000 13.54 0.00 35.21 5.28
2238 3141 1.117142 AGTCGGTCTTTCGGGTTCCA 61.117 55.000 0.00 0.00 0.00 3.53
2261 3164 2.439507 TCCTCCTCAAGTTTGTCTGCTT 59.560 45.455 0.00 0.00 0.00 3.91
2267 3170 0.663153 AAGTTTGTCTGCTTGGACGC 59.337 50.000 0.00 0.00 38.91 5.19
2268 3171 1.082756 GTTTGTCTGCTTGGACGCG 60.083 57.895 3.53 3.53 38.91 6.01
2274 3177 0.530744 TCTGCTTGGACGCGTTAGAT 59.469 50.000 15.53 0.00 0.00 1.98
2316 3219 4.021925 GCCAGCTCCCGACAAGGT 62.022 66.667 0.00 0.00 38.74 3.50
2318 3221 1.073199 CCAGCTCCCGACAAGGTTT 59.927 57.895 0.00 0.00 38.74 3.27
2320 3223 1.073199 AGCTCCCGACAAGGTTTGG 59.927 57.895 0.00 0.00 38.74 3.28
2325 3228 3.681593 CTCCCGACAAGGTTTGGATTTA 58.318 45.455 0.00 0.00 38.74 1.40
2328 3231 4.013728 CCCGACAAGGTTTGGATTTATCA 58.986 43.478 0.00 0.00 38.74 2.15
2329 3232 4.142469 CCCGACAAGGTTTGGATTTATCAC 60.142 45.833 0.00 0.00 38.74 3.06
2334 3237 6.005198 ACAAGGTTTGGATTTATCACCGTAA 58.995 36.000 0.00 0.00 32.32 3.18
2335 3238 6.490721 ACAAGGTTTGGATTTATCACCGTAAA 59.509 34.615 0.00 0.00 32.32 2.01
2359 3264 1.091537 CACCGGCGATATTTGGTGTT 58.908 50.000 9.30 0.00 45.34 3.32
2384 3289 6.580963 AATTCTTCAGATCGATTCAACGAG 57.419 37.500 0.00 0.00 45.22 4.18
2395 3300 4.430765 CAACGAGGACGACCCCGG 62.431 72.222 12.74 0.00 42.66 5.73
2428 3333 1.928046 TCCTTAGGGGGCACATGCA 60.928 57.895 6.15 0.00 44.36 3.96
2439 3344 0.166814 GCACATGCACGAAGACTTCC 59.833 55.000 9.63 0.00 41.59 3.46
2445 3350 1.738099 CACGAAGACTTCCCGGCTG 60.738 63.158 9.63 0.00 0.00 4.85
2462 3367 1.067565 GCTGTCATCGACAAGGTCAGA 60.068 52.381 0.00 0.00 42.26 3.27
2489 3394 1.215647 GGTGTAGGAGTGGCGACAG 59.784 63.158 0.00 0.00 44.46 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 23 5.047306 ACTCATGACATTCCTCAAGTTACGA 60.047 40.000 0.00 0.00 0.00 3.43
374 377 8.421784 TGCGACTATCTACCTTAATTGATTTCT 58.578 33.333 0.00 0.00 0.00 2.52
376 379 8.204836 ACTGCGACTATCTACCTTAATTGATTT 58.795 33.333 0.00 0.00 0.00 2.17
505 508 4.947147 GTGGGCACGCCAACCTCA 62.947 66.667 10.83 0.00 33.94 3.86
589 592 4.263905 ACAACCAATCCCAAGCTCTGATTA 60.264 41.667 5.35 0.00 0.00 1.75
590 593 3.094572 CAACCAATCCCAAGCTCTGATT 58.905 45.455 0.00 0.00 0.00 2.57
591 594 2.042162 ACAACCAATCCCAAGCTCTGAT 59.958 45.455 0.00 0.00 0.00 2.90
632 635 0.249911 GGCCTTATCGGATCACGCTT 60.250 55.000 0.00 0.00 43.86 4.68
670 673 2.711899 ATCCCCTAGCCTCGGTCCA 61.712 63.158 0.00 0.00 0.00 4.02
689 692 7.215085 AGTTATCACCGACTGGGAATATAAAC 58.785 38.462 0.00 0.00 40.75 2.01
736 740 2.325761 CTTCAACTTCCGGTGTCTACG 58.674 52.381 0.00 0.00 0.00 3.51
787 791 3.366396 TGGAGAAGGACTAGGACACATC 58.634 50.000 0.00 0.00 0.00 3.06
788 792 3.474798 TGGAGAAGGACTAGGACACAT 57.525 47.619 0.00 0.00 0.00 3.21
796 812 4.282496 GAAGTGGAGATGGAGAAGGACTA 58.718 47.826 0.00 0.00 0.00 2.59
856 873 5.463724 CCGAGTCCAATTAGATAGTTGCTTC 59.536 44.000 0.00 0.00 0.00 3.86
860 883 5.980116 CAGTCCGAGTCCAATTAGATAGTTG 59.020 44.000 0.00 0.00 0.00 3.16
951 981 0.592754 CGGATCGAGCGAGGACTTTC 60.593 60.000 0.00 0.00 0.00 2.62
953 983 3.111939 CGGATCGAGCGAGGACTT 58.888 61.111 0.00 0.00 0.00 3.01
955 985 4.632458 GGCGGATCGAGCGAGGAC 62.632 72.222 0.00 0.00 35.00 3.85
1090 1148 1.079875 GGCGCATCTTGTTTGGCATG 61.080 55.000 10.83 0.00 0.00 4.06
1194 1255 7.500227 TCCAGCTGATTTTTCCTGATTATGTAG 59.500 37.037 17.39 0.00 0.00 2.74
1198 1259 6.666678 TCTCCAGCTGATTTTTCCTGATTAT 58.333 36.000 17.39 0.00 0.00 1.28
1256 1320 2.268076 TTTGCCTTCGCTCTTGCCC 61.268 57.895 0.00 0.00 35.36 5.36
1320 1390 1.067142 CCGTCTTGTACCTTGCTGCTA 60.067 52.381 0.00 0.00 0.00 3.49
1530 1697 6.237755 CCGACGAATAAATGGAAAGTCTACAC 60.238 42.308 0.00 0.00 0.00 2.90
1543 1710 4.434713 AAAAGCAAGCCGACGAATAAAT 57.565 36.364 0.00 0.00 0.00 1.40
1546 1713 4.632251 TCATAAAAAGCAAGCCGACGAATA 59.368 37.500 0.00 0.00 0.00 1.75
1547 1714 3.438781 TCATAAAAAGCAAGCCGACGAAT 59.561 39.130 0.00 0.00 0.00 3.34
1567 1734 9.237187 ACATTGTATACCACACAAAACATATCA 57.763 29.630 0.00 0.00 39.22 2.15
1658 1838 7.024368 AGGATAGAGATTGAGATCCAAGGATT 58.976 38.462 2.62 0.00 40.38 3.01
1721 1901 7.767198 TCGGCTAAGTGCTTACTAAATTTACAT 59.233 33.333 0.00 0.00 42.39 2.29
1722 1902 7.063780 GTCGGCTAAGTGCTTACTAAATTTACA 59.936 37.037 0.00 0.00 42.39 2.41
1723 1903 7.277319 AGTCGGCTAAGTGCTTACTAAATTTAC 59.723 37.037 0.00 0.00 42.39 2.01
1726 1906 5.731591 AGTCGGCTAAGTGCTTACTAAATT 58.268 37.500 0.00 0.00 42.39 1.82
1730 1910 5.902613 TTTAGTCGGCTAAGTGCTTACTA 57.097 39.130 9.78 0.00 42.39 1.82
1733 1913 7.437267 GTGAATATTTAGTCGGCTAAGTGCTTA 59.563 37.037 14.36 0.00 42.39 3.09
1735 1915 5.753921 GTGAATATTTAGTCGGCTAAGTGCT 59.246 40.000 14.36 1.88 42.39 4.40
1736 1916 5.332355 CGTGAATATTTAGTCGGCTAAGTGC 60.332 44.000 14.36 5.20 38.31 4.40
1737 1917 5.975344 TCGTGAATATTTAGTCGGCTAAGTG 59.025 40.000 14.36 0.00 38.31 3.16
1739 1919 7.639162 AATCGTGAATATTTAGTCGGCTAAG 57.361 36.000 9.78 0.00 38.31 2.18
1740 1920 8.428186 AAAATCGTGAATATTTAGTCGGCTAA 57.572 30.769 5.12 5.12 35.57 3.09
1742 1922 6.920569 AAAATCGTGAATATTTAGTCGGCT 57.079 33.333 0.00 0.00 0.00 5.52
1840 2691 8.912988 TCAGGATTTTGAAAACAAAGACACTAT 58.087 29.630 0.00 0.00 0.00 2.12
1841 2692 8.287439 TCAGGATTTTGAAAACAAAGACACTA 57.713 30.769 0.00 0.00 0.00 2.74
1842 2693 7.169158 TCAGGATTTTGAAAACAAAGACACT 57.831 32.000 0.00 0.00 0.00 3.55
1843 2694 7.826260 TTCAGGATTTTGAAAACAAAGACAC 57.174 32.000 0.00 0.00 34.32 3.67
1844 2695 8.310382 TCTTTCAGGATTTTGAAAACAAAGACA 58.690 29.630 0.00 0.00 44.06 3.41
1845 2696 8.702163 TCTTTCAGGATTTTGAAAACAAAGAC 57.298 30.769 0.00 0.00 44.06 3.01
1847 2698 8.934825 TGTTCTTTCAGGATTTTGAAAACAAAG 58.065 29.630 0.00 0.00 44.06 2.77
1849 2700 8.839310 TTGTTCTTTCAGGATTTTGAAAACAA 57.161 26.923 11.63 11.63 44.06 2.83
1850 2701 8.839310 TTTGTTCTTTCAGGATTTTGAAAACA 57.161 26.923 0.00 3.24 44.06 2.83
1851 2702 9.920826 GATTTGTTCTTTCAGGATTTTGAAAAC 57.079 29.630 0.00 1.03 44.06 2.43
1861 2719 6.942005 TCTATGCAAGATTTGTTCTTTCAGGA 59.058 34.615 0.00 0.00 42.15 3.86
1862 2720 7.149569 TCTATGCAAGATTTGTTCTTTCAGG 57.850 36.000 0.00 0.00 42.15 3.86
2015 2918 6.634805 TCACAGGAGCAGAAAGATTAACTAG 58.365 40.000 0.00 0.00 0.00 2.57
2037 2940 0.690762 CGAGGGGAGGAAGGTTTTCA 59.309 55.000 0.00 0.00 34.90 2.69
2042 2945 0.340208 AAGATCGAGGGGAGGAAGGT 59.660 55.000 0.00 0.00 0.00 3.50
2053 2956 0.318275 GCTAGCCGGTGAAGATCGAG 60.318 60.000 2.29 0.00 0.00 4.04
2061 2964 3.479203 CCATGGGCTAGCCGGTGA 61.479 66.667 28.77 14.99 36.85 4.02
2075 2978 2.150051 GGAGGGGAGGCGAATCCAT 61.150 63.158 8.41 0.00 41.52 3.41
2097 3000 3.592814 CCGGCCGATAGAGCGACA 61.593 66.667 30.73 0.00 39.76 4.35
2099 3002 3.592814 CACCGGCCGATAGAGCGA 61.593 66.667 30.73 0.00 39.76 4.93
2124 3027 1.283321 GAAGAGGCACCAGAAATCCCT 59.717 52.381 0.00 0.00 0.00 4.20
2142 3045 4.019501 CCTACCTATCTACTAGCCGGAGAA 60.020 50.000 5.05 0.00 0.00 2.87
2147 3050 3.717452 ACCCTACCTATCTACTAGCCG 57.283 52.381 0.00 0.00 0.00 5.52
2184 3087 2.686816 CCATCCGTCCAAACACCGC 61.687 63.158 0.00 0.00 0.00 5.68
2188 3091 2.359354 CCGCCATCCGTCCAAACA 60.359 61.111 0.00 0.00 34.38 2.83
2224 3127 2.357075 GAGGATTGGAACCCGAAAGAC 58.643 52.381 0.00 0.00 0.00 3.01
2234 3137 4.104738 AGACAAACTTGAGGAGGATTGGAA 59.895 41.667 0.00 0.00 33.24 3.53
2238 3141 3.073650 AGCAGACAAACTTGAGGAGGATT 59.926 43.478 0.00 0.00 0.00 3.01
2261 3164 1.141019 GCTCCATCTAACGCGTCCA 59.859 57.895 14.44 2.08 0.00 4.02
2267 3170 0.596083 CGCTGGAGCTCCATCTAACG 60.596 60.000 35.11 26.29 46.46 3.18
2268 3171 0.461961 ACGCTGGAGCTCCATCTAAC 59.538 55.000 35.11 19.96 46.46 2.34
2274 3177 2.067365 TATTCTACGCTGGAGCTCCA 57.933 50.000 33.04 33.04 45.30 3.86
2283 3186 2.548920 GCTGGCAGGATTATTCTACGCT 60.549 50.000 17.64 0.00 0.00 5.07
2286 3189 3.558109 GGGAGCTGGCAGGATTATTCTAC 60.558 52.174 17.64 3.11 0.00 2.59
2291 3194 0.764369 TCGGGAGCTGGCAGGATTAT 60.764 55.000 17.64 0.00 0.00 1.28
2292 3195 1.382557 TCGGGAGCTGGCAGGATTA 60.383 57.895 17.64 0.00 0.00 1.75
2293 3196 2.688666 TCGGGAGCTGGCAGGATT 60.689 61.111 17.64 0.00 0.00 3.01
2294 3197 3.474570 GTCGGGAGCTGGCAGGAT 61.475 66.667 17.64 0.00 0.00 3.24
2312 3215 7.712204 ATTTACGGTGATAAATCCAAACCTT 57.288 32.000 0.00 0.00 30.49 3.50
2342 3245 4.561735 ATTAAACACCAAATATCGCCGG 57.438 40.909 0.00 0.00 0.00 6.13
2354 3259 7.974675 TGAATCGATCTGAAGAATTAAACACC 58.025 34.615 0.00 0.00 0.00 4.16
2359 3264 7.222805 CCTCGTTGAATCGATCTGAAGAATTAA 59.777 37.037 0.00 0.00 39.12 1.40
2384 3289 3.834799 CTACAGCCGGGGTCGTCC 61.835 72.222 2.18 0.00 33.95 4.79
2415 3320 3.925630 CTTCGTGCATGTGCCCCCT 62.926 63.158 5.68 0.00 41.18 4.79
2428 3333 2.156051 GACAGCCGGGAAGTCTTCGT 62.156 60.000 2.18 0.00 0.00 3.85
2439 3344 1.811266 CCTTGTCGATGACAGCCGG 60.811 63.158 0.00 0.00 43.69 6.13
2445 3350 1.732732 CGGTCTGACCTTGTCGATGAC 60.733 57.143 23.49 0.00 35.66 3.06
2472 3377 1.446272 GCTGTCGCCACTCCTACAC 60.446 63.158 0.00 0.00 0.00 2.90
2474 3379 1.153745 CTGCTGTCGCCACTCCTAC 60.154 63.158 0.00 0.00 34.43 3.18
2476 3381 4.385405 GCTGCTGTCGCCACTCCT 62.385 66.667 0.00 0.00 34.43 3.69


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

AutoCloner maintained by Alex Coulton.