Multiple sequence alignment - TraesCS7D01G353500

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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 TraesCS7D01G353500 chr7D 100.000 3082 0 0 1 3082 457139621 457142702 0.000000e+00 5692
1 TraesCS7D01G353500 chr7B 92.982 1539 66 17 893 2395 479196738 479198270 0.000000e+00 2206
2 TraesCS7D01G353500 chr7B 85.549 865 102 8 1 842 346741575 346742439 0.000000e+00 883
3 TraesCS7D01G353500 chr7B 92.350 183 13 1 2901 3082 479200528 479200710 3.050000e-65 259
4 TraesCS7D01G353500 chr7B 92.806 139 9 1 2730 2868 479198460 479198597 1.870000e-47 200
5 TraesCS7D01G353500 chr7B 94.203 69 4 0 2630 2698 479198399 479198467 4.200000e-19 106
6 TraesCS7D01G353500 chr7A 93.266 1485 79 15 929 2395 543361673 543360192 0.000000e+00 2169
7 TraesCS7D01G353500 chr7A 91.502 859 51 10 1 837 524206265 524205407 0.000000e+00 1162
8 TraesCS7D01G353500 chr7A 93.375 483 28 3 2581 3059 543360196 543359714 0.000000e+00 712
9 TraesCS7D01G353500 chr1D 93.148 861 35 12 1 838 470957491 470958350 0.000000e+00 1242
10 TraesCS7D01G353500 chr4B 90.187 856 61 12 7 839 672292908 672293763 0.000000e+00 1094
11 TraesCS7D01G353500 chr3B 89.006 855 72 12 6 838 660997337 660996483 0.000000e+00 1038
12 TraesCS7D01G353500 chr3B 86.179 861 96 10 1 838 640706901 640706041 0.000000e+00 909
13 TraesCS7D01G353500 chr5D 88.721 860 75 10 1 838 376787107 376786248 0.000000e+00 1031
14 TraesCS7D01G353500 chr1B 87.413 858 86 12 3 838 668232350 668233207 0.000000e+00 966
15 TraesCS7D01G353500 chr1B 86.280 328 23 8 533 838 75086607 75086280 1.370000e-88 337
16 TraesCS7D01G353500 chr2D 83.295 862 117 13 1 838 71950844 71949986 0.000000e+00 769
17 TraesCS7D01G353500 chr6A 86.119 353 28 8 508 839 457669547 457669899 8.120000e-96 361


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 TraesCS7D01G353500 chr7D 457139621 457142702 3081 False 5692.00 5692 100.00000 1 3082 1 chr7D.!!$F1 3081
1 TraesCS7D01G353500 chr7B 346741575 346742439 864 False 883.00 883 85.54900 1 842 1 chr7B.!!$F1 841
2 TraesCS7D01G353500 chr7B 479196738 479200710 3972 False 692.75 2206 93.08525 893 3082 4 chr7B.!!$F2 2189
3 TraesCS7D01G353500 chr7A 543359714 543361673 1959 True 1440.50 2169 93.32050 929 3059 2 chr7A.!!$R2 2130
4 TraesCS7D01G353500 chr7A 524205407 524206265 858 True 1162.00 1162 91.50200 1 837 1 chr7A.!!$R1 836
5 TraesCS7D01G353500 chr1D 470957491 470958350 859 False 1242.00 1242 93.14800 1 838 1 chr1D.!!$F1 837
6 TraesCS7D01G353500 chr4B 672292908 672293763 855 False 1094.00 1094 90.18700 7 839 1 chr4B.!!$F1 832
7 TraesCS7D01G353500 chr3B 660996483 660997337 854 True 1038.00 1038 89.00600 6 838 1 chr3B.!!$R2 832
8 TraesCS7D01G353500 chr3B 640706041 640706901 860 True 909.00 909 86.17900 1 838 1 chr3B.!!$R1 837
9 TraesCS7D01G353500 chr5D 376786248 376787107 859 True 1031.00 1031 88.72100 1 838 1 chr5D.!!$R1 837
10 TraesCS7D01G353500 chr1B 668232350 668233207 857 False 966.00 966 87.41300 3 838 1 chr1B.!!$F1 835
11 TraesCS7D01G353500 chr2D 71949986 71950844 858 True 769.00 769 83.29500 1 838 1 chr2D.!!$R1 837

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
360 363 1.302511 ATGAACCGGCCTGTGTGTC 60.303 57.895 0.0 0.0 0.0 3.67 F
1236 1266 0.252742 AGGTCGGAGTGGAAGGGATT 60.253 55.000 0.0 0.0 0.0 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1727 1760 0.172578 CGATGGCGGTTCTGTCAGTA 59.827 55.0 0.0 0.0 0.0 2.74 R
2409 2482 0.315568 CCGGAACATTTTTGGGCGAA 59.684 50.0 0.0 0.0 0.0 4.70 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
62 63 3.083997 GGGACATCCGTGGCTCCT 61.084 66.667 0.00 0.00 36.71 3.69
360 363 1.302511 ATGAACCGGCCTGTGTGTC 60.303 57.895 0.00 0.00 0.00 3.67
675 701 2.045536 CTCCTGGAGCCAAGCACC 60.046 66.667 11.42 0.00 39.68 5.01
748 775 2.455291 CGCTTGCATCGCAGTAGCA 61.455 57.895 11.86 0.00 40.97 3.49
750 777 1.364626 GCTTGCATCGCAGTAGCACT 61.365 55.000 7.57 0.00 40.72 4.40
768 795 1.723608 CTTTCCTGTGCACGCAACCA 61.724 55.000 13.13 0.00 0.00 3.67
784 811 3.334691 CAACCACGATGTCAACCTGTAT 58.665 45.455 0.00 0.00 0.00 2.29
856 883 6.763303 AAAAATGTTGCAACTTCCGTTATC 57.237 33.333 28.61 0.18 0.00 1.75
857 884 5.446143 AAATGTTGCAACTTCCGTTATCA 57.554 34.783 28.61 6.33 0.00 2.15
858 885 5.446143 AATGTTGCAACTTCCGTTATCAA 57.554 34.783 28.61 5.74 0.00 2.57
859 886 4.217754 TGTTGCAACTTCCGTTATCAAC 57.782 40.909 28.61 0.00 41.30 3.18
860 887 3.628032 TGTTGCAACTTCCGTTATCAACA 59.372 39.130 28.61 15.05 44.35 3.33
861 888 3.889196 TGCAACTTCCGTTATCAACAC 57.111 42.857 0.00 0.00 0.00 3.32
862 889 3.206964 TGCAACTTCCGTTATCAACACA 58.793 40.909 0.00 0.00 0.00 3.72
863 890 3.002862 TGCAACTTCCGTTATCAACACAC 59.997 43.478 0.00 0.00 0.00 3.82
864 891 3.002862 GCAACTTCCGTTATCAACACACA 59.997 43.478 0.00 0.00 0.00 3.72
865 892 4.496673 GCAACTTCCGTTATCAACACACAA 60.497 41.667 0.00 0.00 0.00 3.33
866 893 4.806342 ACTTCCGTTATCAACACACAAC 57.194 40.909 0.00 0.00 0.00 3.32
867 894 4.193090 ACTTCCGTTATCAACACACAACA 58.807 39.130 0.00 0.00 0.00 3.33
868 895 4.636648 ACTTCCGTTATCAACACACAACAA 59.363 37.500 0.00 0.00 0.00 2.83
869 896 5.124138 ACTTCCGTTATCAACACACAACAAA 59.876 36.000 0.00 0.00 0.00 2.83
870 897 5.759506 TCCGTTATCAACACACAACAAAT 57.240 34.783 0.00 0.00 0.00 2.32
871 898 6.137794 TCCGTTATCAACACACAACAAATT 57.862 33.333 0.00 0.00 0.00 1.82
872 899 6.565234 TCCGTTATCAACACACAACAAATTT 58.435 32.000 0.00 0.00 0.00 1.82
873 900 6.693545 TCCGTTATCAACACACAACAAATTTC 59.306 34.615 0.00 0.00 0.00 2.17
874 901 6.473778 CCGTTATCAACACACAACAAATTTCA 59.526 34.615 0.00 0.00 0.00 2.69
875 902 7.168972 CCGTTATCAACACACAACAAATTTCAT 59.831 33.333 0.00 0.00 0.00 2.57
876 903 8.538856 CGTTATCAACACACAACAAATTTCATT 58.461 29.630 0.00 0.00 0.00 2.57
877 904 9.635632 GTTATCAACACACAACAAATTTCATTG 57.364 29.630 9.27 9.27 36.37 2.82
878 905 6.104439 TCAACACACAACAAATTTCATTGC 57.896 33.333 10.35 0.00 33.52 3.56
879 906 5.640783 TCAACACACAACAAATTTCATTGCA 59.359 32.000 10.35 0.00 33.52 4.08
880 907 6.148315 TCAACACACAACAAATTTCATTGCAA 59.852 30.769 0.00 0.00 33.52 4.08
881 908 6.680874 ACACACAACAAATTTCATTGCAAT 57.319 29.167 5.99 5.99 33.52 3.56
882 909 7.783090 ACACACAACAAATTTCATTGCAATA 57.217 28.000 12.53 0.00 33.52 1.90
883 910 7.629130 ACACACAACAAATTTCATTGCAATAC 58.371 30.769 12.53 0.00 33.52 1.89
884 911 7.279536 ACACACAACAAATTTCATTGCAATACA 59.720 29.630 12.53 0.00 33.52 2.29
885 912 8.283992 CACACAACAAATTTCATTGCAATACAT 58.716 29.630 12.53 1.49 33.52 2.29
886 913 8.497554 ACACAACAAATTTCATTGCAATACATC 58.502 29.630 12.53 0.00 33.52 3.06
887 914 7.684897 CACAACAAATTTCATTGCAATACATCG 59.315 33.333 12.53 0.00 33.52 3.84
888 915 6.335176 ACAAATTTCATTGCAATACATCGC 57.665 33.333 12.53 0.00 33.52 4.58
889 916 6.101332 ACAAATTTCATTGCAATACATCGCT 58.899 32.000 12.53 0.00 33.52 4.93
890 917 7.257003 ACAAATTTCATTGCAATACATCGCTA 58.743 30.769 12.53 0.00 33.52 4.26
891 918 7.433131 ACAAATTTCATTGCAATACATCGCTAG 59.567 33.333 12.53 0.00 33.52 3.42
1013 1043 1.035139 GAATCCATGGAAGCGGCAAT 58.965 50.000 20.67 0.00 0.00 3.56
1088 1118 2.360475 GCCTTGGCTCAGACCCAC 60.360 66.667 4.11 0.00 30.65 4.61
1233 1263 2.982130 CAGGTCGGAGTGGAAGGG 59.018 66.667 0.00 0.00 0.00 3.95
1234 1264 1.609501 CAGGTCGGAGTGGAAGGGA 60.610 63.158 0.00 0.00 0.00 4.20
1235 1265 0.978146 CAGGTCGGAGTGGAAGGGAT 60.978 60.000 0.00 0.00 0.00 3.85
1236 1266 0.252742 AGGTCGGAGTGGAAGGGATT 60.253 55.000 0.00 0.00 0.00 3.01
1238 1268 0.744771 GTCGGAGTGGAAGGGATTGC 60.745 60.000 0.00 0.00 0.00 3.56
1285 1315 1.308998 CGGTGAGGTGCTTGTTCTTT 58.691 50.000 0.00 0.00 0.00 2.52
1354 1387 0.392706 TCATGCGGCGGATCTGTATT 59.607 50.000 12.07 0.00 0.00 1.89
1550 1583 2.195139 GGGCTCATGGATGCTGCT 59.805 61.111 0.00 0.00 0.00 4.24
1604 1637 1.922135 GCGGCTTCAAGATCGGCAAA 61.922 55.000 0.00 0.00 0.00 3.68
1715 1748 3.371034 TGGCTTAGTGGATGCTGTAGTA 58.629 45.455 0.00 0.00 0.00 1.82
1723 1756 2.289133 TGGATGCTGTAGTACGCAACAA 60.289 45.455 18.85 10.57 39.89 2.83
1727 1760 2.035449 TGCTGTAGTACGCAACAACTCT 59.965 45.455 14.57 0.00 32.40 3.24
1728 1761 3.253921 TGCTGTAGTACGCAACAACTCTA 59.746 43.478 14.57 0.00 32.40 2.43
1735 1768 2.743938 ACGCAACAACTCTACTGACAG 58.256 47.619 0.00 0.00 0.00 3.51
1808 1841 2.216046 GAGATCATGGCGCTGATTCAA 58.784 47.619 12.80 0.00 36.01 2.69
1868 1901 9.842775 TTCTTGCTGATGAATTATGACTCTTAT 57.157 29.630 0.00 0.00 0.00 1.73
1913 1946 2.997897 GACTGCGAGGACTGGGGT 60.998 66.667 0.00 0.00 0.00 4.95
1997 2030 3.838317 TGGAGTACTTGGCACAGTTCTAT 59.162 43.478 0.00 0.00 42.39 1.98
2009 2042 5.016051 CACAGTTCTATGATGTGCCTACT 57.984 43.478 0.00 0.00 38.05 2.57
2063 2099 3.534721 GGAAGACAGGGTTCCTTCG 57.465 57.895 0.00 0.00 40.46 3.79
2105 2141 5.008415 ACACAAGCTCTTCTCAAGAATGTTG 59.992 40.000 0.00 0.00 37.02 3.33
2112 2148 6.204495 GCTCTTCTCAAGAATGTTGTCTCTTT 59.796 38.462 0.00 0.00 37.02 2.52
2177 2215 5.929058 TCTCTTATGAGAATGTCAGCACT 57.071 39.130 5.88 0.00 45.42 4.40
2239 2292 2.656947 TTAGTAATGCAGGGATGGGC 57.343 50.000 0.00 0.00 0.00 5.36
2241 2294 1.152963 GTAATGCAGGGATGGGCGT 60.153 57.895 0.00 0.00 0.00 5.68
2373 2446 5.772393 TCACTCTTTGGCCTCCTATTTTA 57.228 39.130 3.32 0.00 0.00 1.52
2374 2447 6.327386 TCACTCTTTGGCCTCCTATTTTAT 57.673 37.500 3.32 0.00 0.00 1.40
2375 2448 6.357367 TCACTCTTTGGCCTCCTATTTTATC 58.643 40.000 3.32 0.00 0.00 1.75
2415 2488 5.767816 ATGTTAAATCAATACCTTCGCCC 57.232 39.130 0.00 0.00 0.00 6.13
2416 2489 4.590918 TGTTAAATCAATACCTTCGCCCA 58.409 39.130 0.00 0.00 0.00 5.36
2417 2490 5.010933 TGTTAAATCAATACCTTCGCCCAA 58.989 37.500 0.00 0.00 0.00 4.12
2418 2491 5.477291 TGTTAAATCAATACCTTCGCCCAAA 59.523 36.000 0.00 0.00 0.00 3.28
2419 2492 6.015350 TGTTAAATCAATACCTTCGCCCAAAA 60.015 34.615 0.00 0.00 0.00 2.44
2420 2493 5.476091 AAATCAATACCTTCGCCCAAAAA 57.524 34.783 0.00 0.00 0.00 1.94
2421 2494 5.675684 AATCAATACCTTCGCCCAAAAAT 57.324 34.783 0.00 0.00 0.00 1.82
2422 2495 4.448537 TCAATACCTTCGCCCAAAAATG 57.551 40.909 0.00 0.00 0.00 2.32
2423 2496 3.829601 TCAATACCTTCGCCCAAAAATGT 59.170 39.130 0.00 0.00 0.00 2.71
2424 2497 4.282195 TCAATACCTTCGCCCAAAAATGTT 59.718 37.500 0.00 0.00 0.00 2.71
2425 2498 2.812358 ACCTTCGCCCAAAAATGTTC 57.188 45.000 0.00 0.00 0.00 3.18
2426 2499 1.343142 ACCTTCGCCCAAAAATGTTCC 59.657 47.619 0.00 0.00 0.00 3.62
2427 2500 1.668628 CCTTCGCCCAAAAATGTTCCG 60.669 52.381 0.00 0.00 0.00 4.30
2428 2501 0.315568 TTCGCCCAAAAATGTTCCGG 59.684 50.000 0.00 0.00 0.00 5.14
2429 2502 0.824182 TCGCCCAAAAATGTTCCGGT 60.824 50.000 0.00 0.00 0.00 5.28
2430 2503 0.665972 CGCCCAAAAATGTTCCGGTG 60.666 55.000 0.00 0.00 0.00 4.94
2431 2504 0.948623 GCCCAAAAATGTTCCGGTGC 60.949 55.000 0.00 0.00 0.00 5.01
2432 2505 0.390860 CCCAAAAATGTTCCGGTGCA 59.609 50.000 0.00 1.68 0.00 4.57
2433 2506 1.605202 CCCAAAAATGTTCCGGTGCAG 60.605 52.381 0.00 0.00 0.00 4.41
2434 2507 1.605202 CCAAAAATGTTCCGGTGCAGG 60.605 52.381 0.00 0.00 0.00 4.85
2435 2508 1.339610 CAAAAATGTTCCGGTGCAGGA 59.660 47.619 0.00 0.00 38.79 3.86
2436 2509 1.923356 AAAATGTTCCGGTGCAGGAT 58.077 45.000 0.00 0.00 40.48 3.24
2437 2510 1.176527 AAATGTTCCGGTGCAGGATG 58.823 50.000 0.00 0.00 40.48 3.51
2453 2526 5.791336 CAGGATGCTGTTATAGTACCTCA 57.209 43.478 5.98 0.00 0.00 3.86
2454 2527 6.161855 CAGGATGCTGTTATAGTACCTCAA 57.838 41.667 5.98 0.00 0.00 3.02
2455 2528 5.986135 CAGGATGCTGTTATAGTACCTCAAC 59.014 44.000 5.98 0.00 0.00 3.18
2456 2529 5.900123 AGGATGCTGTTATAGTACCTCAACT 59.100 40.000 0.00 0.00 0.00 3.16
2457 2530 7.014326 CAGGATGCTGTTATAGTACCTCAACTA 59.986 40.741 5.98 0.00 36.44 2.24
2458 2531 7.730784 AGGATGCTGTTATAGTACCTCAACTAT 59.269 37.037 2.42 2.42 43.47 2.12
2459 2532 8.030106 GGATGCTGTTATAGTACCTCAACTATC 58.970 40.741 0.01 0.00 40.90 2.08
2460 2533 6.967135 TGCTGTTATAGTACCTCAACTATCG 58.033 40.000 0.01 0.00 40.90 2.92
2461 2534 6.016527 TGCTGTTATAGTACCTCAACTATCGG 60.017 42.308 0.01 0.00 40.90 4.18
2462 2535 6.016443 GCTGTTATAGTACCTCAACTATCGGT 60.016 42.308 0.01 0.00 40.90 4.69
2463 2536 7.502120 TGTTATAGTACCTCAACTATCGGTC 57.498 40.000 0.01 0.00 40.90 4.79
2464 2537 7.056006 TGTTATAGTACCTCAACTATCGGTCA 58.944 38.462 0.01 0.00 40.90 4.02
2465 2538 7.228108 TGTTATAGTACCTCAACTATCGGTCAG 59.772 40.741 0.01 0.00 40.90 3.51
2466 2539 4.232188 AGTACCTCAACTATCGGTCAGA 57.768 45.455 0.00 0.00 32.36 3.27
2467 2540 4.597004 AGTACCTCAACTATCGGTCAGAA 58.403 43.478 0.00 0.00 32.36 3.02
2468 2541 4.641094 AGTACCTCAACTATCGGTCAGAAG 59.359 45.833 0.00 0.00 32.36 2.85
2469 2542 3.432378 ACCTCAACTATCGGTCAGAAGT 58.568 45.455 0.00 0.00 0.00 3.01
2470 2543 3.833070 ACCTCAACTATCGGTCAGAAGTT 59.167 43.478 0.00 0.00 33.58 2.66
2471 2544 5.014858 ACCTCAACTATCGGTCAGAAGTTA 58.985 41.667 0.00 0.00 32.75 2.24
2472 2545 5.125739 ACCTCAACTATCGGTCAGAAGTTAG 59.874 44.000 0.00 0.00 32.75 2.34
2473 2546 5.450688 CCTCAACTATCGGTCAGAAGTTAGG 60.451 48.000 0.00 0.00 32.75 2.69
2474 2547 4.113354 CAACTATCGGTCAGAAGTTAGGC 58.887 47.826 0.00 0.00 32.75 3.93
2475 2548 2.694109 ACTATCGGTCAGAAGTTAGGCC 59.306 50.000 0.00 0.00 0.00 5.19
2476 2549 1.867363 ATCGGTCAGAAGTTAGGCCT 58.133 50.000 11.78 11.78 0.00 5.19
2477 2550 0.895530 TCGGTCAGAAGTTAGGCCTG 59.104 55.000 17.99 0.00 0.00 4.85
2478 2551 0.895530 CGGTCAGAAGTTAGGCCTGA 59.104 55.000 17.99 3.42 34.87 3.86
2479 2552 1.275291 CGGTCAGAAGTTAGGCCTGAA 59.725 52.381 17.99 2.76 38.49 3.02
2480 2553 2.289444 CGGTCAGAAGTTAGGCCTGAAA 60.289 50.000 17.99 0.00 38.49 2.69
2481 2554 3.751518 GGTCAGAAGTTAGGCCTGAAAA 58.248 45.455 17.99 0.00 38.49 2.29
2482 2555 4.142038 GGTCAGAAGTTAGGCCTGAAAAA 58.858 43.478 17.99 0.00 38.49 1.94
2483 2556 4.216472 GGTCAGAAGTTAGGCCTGAAAAAG 59.784 45.833 17.99 0.00 38.49 2.27
2484 2557 5.063880 GTCAGAAGTTAGGCCTGAAAAAGA 58.936 41.667 17.99 2.25 38.49 2.52
2485 2558 5.707764 GTCAGAAGTTAGGCCTGAAAAAGAT 59.292 40.000 17.99 0.00 38.49 2.40
2486 2559 6.207614 GTCAGAAGTTAGGCCTGAAAAAGATT 59.792 38.462 17.99 0.00 38.49 2.40
2487 2560 6.431234 TCAGAAGTTAGGCCTGAAAAAGATTC 59.569 38.462 17.99 8.88 34.38 2.52
2488 2561 6.207417 CAGAAGTTAGGCCTGAAAAAGATTCA 59.793 38.462 17.99 0.00 0.00 2.57
2489 2562 6.777580 AGAAGTTAGGCCTGAAAAAGATTCAA 59.222 34.615 17.99 0.00 0.00 2.69
2490 2563 6.976934 AGTTAGGCCTGAAAAAGATTCAAA 57.023 33.333 17.99 0.00 0.00 2.69
2491 2564 7.360113 AGTTAGGCCTGAAAAAGATTCAAAA 57.640 32.000 17.99 0.00 0.00 2.44
2492 2565 7.791029 AGTTAGGCCTGAAAAAGATTCAAAAA 58.209 30.769 17.99 0.00 0.00 1.94
2522 2595 8.693120 TGTAATAAACAGTGTGTATTGGGAAA 57.307 30.769 23.58 5.47 29.86 3.13
2523 2596 9.132923 TGTAATAAACAGTGTGTATTGGGAAAA 57.867 29.630 23.58 4.84 29.86 2.29
2524 2597 9.968870 GTAATAAACAGTGTGTATTGGGAAAAA 57.031 29.630 23.58 4.22 29.86 1.94
2525 2598 8.880878 AATAAACAGTGTGTATTGGGAAAAAC 57.119 30.769 16.45 0.00 26.28 2.43
2526 2599 6.538945 AAACAGTGTGTATTGGGAAAAACT 57.461 33.333 0.00 0.00 0.00 2.66
2527 2600 5.514274 ACAGTGTGTATTGGGAAAAACTG 57.486 39.130 0.00 0.00 39.67 3.16
2528 2601 5.197451 ACAGTGTGTATTGGGAAAAACTGA 58.803 37.500 0.00 0.00 37.73 3.41
2529 2602 5.833131 ACAGTGTGTATTGGGAAAAACTGAT 59.167 36.000 0.00 0.00 37.73 2.90
2530 2603 7.001674 ACAGTGTGTATTGGGAAAAACTGATA 58.998 34.615 0.00 0.00 37.73 2.15
2531 2604 7.174946 ACAGTGTGTATTGGGAAAAACTGATAG 59.825 37.037 0.00 0.00 37.73 2.08
2532 2605 7.390440 CAGTGTGTATTGGGAAAAACTGATAGA 59.610 37.037 0.00 0.00 36.71 1.98
2533 2606 7.942341 AGTGTGTATTGGGAAAAACTGATAGAA 59.058 33.333 0.00 0.00 0.00 2.10
2534 2607 8.237267 GTGTGTATTGGGAAAAACTGATAGAAG 58.763 37.037 0.00 0.00 0.00 2.85
2535 2608 8.160765 TGTGTATTGGGAAAAACTGATAGAAGA 58.839 33.333 0.00 0.00 0.00 2.87
2536 2609 9.178758 GTGTATTGGGAAAAACTGATAGAAGAT 57.821 33.333 0.00 0.00 0.00 2.40
2539 2612 8.753497 ATTGGGAAAAACTGATAGAAGATACC 57.247 34.615 0.00 0.00 0.00 2.73
2540 2613 7.265599 TGGGAAAAACTGATAGAAGATACCA 57.734 36.000 0.00 0.00 0.00 3.25
2541 2614 7.872138 TGGGAAAAACTGATAGAAGATACCAT 58.128 34.615 0.00 0.00 0.00 3.55
2542 2615 8.998814 TGGGAAAAACTGATAGAAGATACCATA 58.001 33.333 0.00 0.00 0.00 2.74
2566 2639 0.796312 CGTTCCACGGAGAATGTTGG 59.204 55.000 0.00 0.00 38.08 3.77
2567 2640 1.876416 CGTTCCACGGAGAATGTTGGT 60.876 52.381 0.00 0.00 38.08 3.67
2568 2641 2.610976 CGTTCCACGGAGAATGTTGGTA 60.611 50.000 0.00 0.00 38.08 3.25
2569 2642 3.606687 GTTCCACGGAGAATGTTGGTAT 58.393 45.455 0.00 0.00 0.00 2.73
2570 2643 3.992943 TCCACGGAGAATGTTGGTATT 57.007 42.857 0.00 0.00 0.00 1.89
2571 2644 5.180271 GTTCCACGGAGAATGTTGGTATTA 58.820 41.667 0.00 0.00 0.00 0.98
2572 2645 5.623956 TCCACGGAGAATGTTGGTATTAT 57.376 39.130 0.00 0.00 0.00 1.28
2573 2646 5.607477 TCCACGGAGAATGTTGGTATTATC 58.393 41.667 0.00 0.00 0.00 1.75
2574 2647 5.129650 TCCACGGAGAATGTTGGTATTATCA 59.870 40.000 0.00 0.00 31.59 2.15
2575 2648 5.466728 CCACGGAGAATGTTGGTATTATCAG 59.533 44.000 0.00 0.00 31.59 2.90
2576 2649 6.049149 CACGGAGAATGTTGGTATTATCAGT 58.951 40.000 0.00 0.00 37.23 3.41
2577 2650 6.538742 CACGGAGAATGTTGGTATTATCAGTT 59.461 38.462 0.00 0.00 35.53 3.16
2578 2651 6.538742 ACGGAGAATGTTGGTATTATCAGTTG 59.461 38.462 0.00 0.00 34.59 3.16
2579 2652 6.511767 CGGAGAATGTTGGTATTATCAGTTGC 60.512 42.308 0.00 0.00 31.59 4.17
2580 2653 6.543831 GGAGAATGTTGGTATTATCAGTTGCT 59.456 38.462 0.00 0.00 31.59 3.91
2581 2654 7.254932 GGAGAATGTTGGTATTATCAGTTGCTC 60.255 40.741 0.00 0.00 31.59 4.26
2582 2655 7.341805 AGAATGTTGGTATTATCAGTTGCTCT 58.658 34.615 0.00 0.00 0.00 4.09
2583 2656 8.486210 AGAATGTTGGTATTATCAGTTGCTCTA 58.514 33.333 0.00 0.00 0.00 2.43
2605 2678 5.957771 ATCAGATAGTGCCTTAGAAACCA 57.042 39.130 0.00 0.00 0.00 3.67
2624 2697 5.720371 ACCATAACAAAGCAAAGCACATA 57.280 34.783 0.00 0.00 0.00 2.29
2627 2700 7.257722 ACCATAACAAAGCAAAGCACATATAC 58.742 34.615 0.00 0.00 0.00 1.47
2714 2871 9.731819 CATTCAAATATTTGTTCATCTCTCAGG 57.268 33.333 23.95 0.00 39.18 3.86
2715 2872 7.325660 TCAAATATTTGTTCATCTCTCAGGC 57.674 36.000 23.95 0.00 39.18 4.85
2764 2924 6.481954 ACCTTCTCACGTGATTTAATCAAC 57.518 37.500 20.40 3.76 41.69 3.18
2768 2928 3.004171 TCACGTGATTTAATCAACCGGG 58.996 45.455 15.76 15.12 41.69 5.73
2776 2936 6.151480 GTGATTTAATCAACCGGGTTTCCTAA 59.849 38.462 10.33 5.10 41.69 2.69
2823 2983 6.980978 CCTGTGGTATCATAACAGTAGAAGTG 59.019 42.308 0.00 0.00 39.75 3.16
2852 3012 4.019174 AGGTTAAGCCATGTTTGATCCTG 58.981 43.478 0.00 0.00 40.61 3.86
2896 3371 6.645700 CTGAGAACAGTAGAGCATTTCTTC 57.354 41.667 0.00 0.00 39.11 2.87
2912 4970 7.121168 AGCATTTCTTCGGTATCTGATTGAAAA 59.879 33.333 0.00 0.00 0.00 2.29
2918 4976 9.667107 TCTTCGGTATCTGATTGAAAATTTACT 57.333 29.630 0.00 0.00 0.00 2.24
2922 4980 8.338259 CGGTATCTGATTGAAAATTTACTCAGG 58.662 37.037 14.28 1.53 32.83 3.86
3054 5113 6.041979 ACCAAGAGCAAGAAATTACCACAAAT 59.958 34.615 0.00 0.00 0.00 2.32
3062 5121 4.777366 AGAAATTACCACAAATGAAGGGGG 59.223 41.667 0.00 0.00 0.00 5.40
3064 5123 0.780637 TACCACAAATGAAGGGGGCA 59.219 50.000 0.00 0.00 0.00 5.36
3067 5126 1.152830 ACAAATGAAGGGGGCACGT 59.847 52.632 0.00 0.00 0.00 4.49
3068 5127 0.402504 ACAAATGAAGGGGGCACGTA 59.597 50.000 0.00 0.00 0.00 3.57
3069 5128 1.094785 CAAATGAAGGGGGCACGTAG 58.905 55.000 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
111 112 1.269621 CCGTGGTAAGATCGATGGACC 60.270 57.143 0.54 7.83 0.00 4.46
675 701 7.509546 AGACCAGTTACATTACAGGGATAATG 58.490 38.462 4.38 4.38 44.69 1.90
748 775 1.724582 GGTTGCGTGCACAGGAAAGT 61.725 55.000 18.64 0.00 0.00 2.66
750 777 1.750780 TGGTTGCGTGCACAGGAAA 60.751 52.632 18.64 0.00 0.00 3.13
768 795 6.761714 GGATAGAAAATACAGGTTGACATCGT 59.238 38.462 0.00 0.00 0.00 3.73
784 811 7.353525 TCTTTGCATTGATAGGGGATAGAAAA 58.646 34.615 0.00 0.00 0.00 2.29
846 873 4.804608 TGTTGTGTGTTGATAACGGAAG 57.195 40.909 0.00 0.00 0.00 3.46
847 874 5.562506 TTTGTTGTGTGTTGATAACGGAA 57.437 34.783 0.00 0.00 0.00 4.30
848 875 5.759506 ATTTGTTGTGTGTTGATAACGGA 57.240 34.783 0.00 0.00 0.00 4.69
849 876 6.473778 TGAAATTTGTTGTGTGTTGATAACGG 59.526 34.615 0.00 0.00 0.00 4.44
850 877 7.443218 TGAAATTTGTTGTGTGTTGATAACG 57.557 32.000 0.00 0.00 0.00 3.18
851 878 9.635632 CAATGAAATTTGTTGTGTGTTGATAAC 57.364 29.630 0.00 0.00 31.22 1.89
852 879 8.333908 GCAATGAAATTTGTTGTGTGTTGATAA 58.666 29.630 0.00 0.00 31.22 1.75
853 880 7.493645 TGCAATGAAATTTGTTGTGTGTTGATA 59.506 29.630 0.00 0.00 31.22 2.15
854 881 6.315642 TGCAATGAAATTTGTTGTGTGTTGAT 59.684 30.769 0.00 0.00 31.22 2.57
855 882 5.640783 TGCAATGAAATTTGTTGTGTGTTGA 59.359 32.000 0.00 0.00 31.22 3.18
856 883 5.866075 TGCAATGAAATTTGTTGTGTGTTG 58.134 33.333 0.00 0.00 31.22 3.33
857 884 6.492007 TTGCAATGAAATTTGTTGTGTGTT 57.508 29.167 0.00 0.00 31.22 3.32
858 885 6.680874 ATTGCAATGAAATTTGTTGTGTGT 57.319 29.167 12.09 0.00 31.22 3.72
859 886 7.628235 TGTATTGCAATGAAATTTGTTGTGTG 58.372 30.769 22.27 0.00 31.22 3.82
860 887 7.783090 TGTATTGCAATGAAATTTGTTGTGT 57.217 28.000 22.27 0.00 31.22 3.72
861 888 7.684897 CGATGTATTGCAATGAAATTTGTTGTG 59.315 33.333 22.27 0.00 31.22 3.33
862 889 7.621841 GCGATGTATTGCAATGAAATTTGTTGT 60.622 33.333 22.27 0.00 31.22 3.32
863 890 6.679500 GCGATGTATTGCAATGAAATTTGTTG 59.320 34.615 22.27 2.00 31.22 3.33
864 891 6.591062 AGCGATGTATTGCAATGAAATTTGTT 59.409 30.769 22.27 5.26 39.70 2.83
865 892 6.101332 AGCGATGTATTGCAATGAAATTTGT 58.899 32.000 22.27 0.00 39.70 2.83
866 893 6.578020 AGCGATGTATTGCAATGAAATTTG 57.422 33.333 22.27 9.84 39.70 2.32
867 894 7.483307 ACTAGCGATGTATTGCAATGAAATTT 58.517 30.769 22.27 4.97 39.70 1.82
868 895 7.031226 ACTAGCGATGTATTGCAATGAAATT 57.969 32.000 22.27 2.26 39.70 1.82
869 896 6.624352 ACTAGCGATGTATTGCAATGAAAT 57.376 33.333 22.27 11.96 39.70 2.17
870 897 6.435430 AACTAGCGATGTATTGCAATGAAA 57.565 33.333 22.27 7.54 39.70 2.69
871 898 7.728847 ATAACTAGCGATGTATTGCAATGAA 57.271 32.000 22.27 10.10 39.70 2.57
872 899 7.728847 AATAACTAGCGATGTATTGCAATGA 57.271 32.000 22.27 8.74 39.70 2.57
873 900 8.495148 TGTAATAACTAGCGATGTATTGCAATG 58.505 33.333 22.27 5.77 39.70 2.82
874 901 8.601845 TGTAATAACTAGCGATGTATTGCAAT 57.398 30.769 17.56 17.56 39.70 3.56
875 902 8.426881 TTGTAATAACTAGCGATGTATTGCAA 57.573 30.769 0.00 0.00 39.70 4.08
876 903 8.601845 ATTGTAATAACTAGCGATGTATTGCA 57.398 30.769 6.84 0.00 39.70 4.08
877 904 7.893236 CGATTGTAATAACTAGCGATGTATTGC 59.107 37.037 0.00 0.00 41.66 3.56
878 905 7.893236 GCGATTGTAATAACTAGCGATGTATTG 59.107 37.037 2.11 0.00 41.66 1.90
879 906 7.597369 TGCGATTGTAATAACTAGCGATGTATT 59.403 33.333 2.11 0.00 41.66 1.89
880 907 7.088272 TGCGATTGTAATAACTAGCGATGTAT 58.912 34.615 2.11 0.00 41.66 2.29
881 908 6.440436 TGCGATTGTAATAACTAGCGATGTA 58.560 36.000 2.11 0.00 41.66 2.29
882 909 5.286438 TGCGATTGTAATAACTAGCGATGT 58.714 37.500 2.11 0.00 41.66 3.06
883 910 5.666427 GCTGCGATTGTAATAACTAGCGATG 60.666 44.000 2.11 0.00 41.66 3.84
884 911 4.386049 GCTGCGATTGTAATAACTAGCGAT 59.614 41.667 2.11 0.00 41.66 4.58
885 912 3.734231 GCTGCGATTGTAATAACTAGCGA 59.266 43.478 2.11 0.00 41.66 4.93
886 913 3.120991 GGCTGCGATTGTAATAACTAGCG 60.121 47.826 0.00 0.00 41.95 4.26
887 914 4.058817 AGGCTGCGATTGTAATAACTAGC 58.941 43.478 0.00 0.00 0.00 3.42
888 915 5.050091 CCAAGGCTGCGATTGTAATAACTAG 60.050 44.000 13.09 0.00 0.00 2.57
889 916 4.814234 CCAAGGCTGCGATTGTAATAACTA 59.186 41.667 13.09 0.00 0.00 2.24
890 917 3.627577 CCAAGGCTGCGATTGTAATAACT 59.372 43.478 13.09 0.00 0.00 2.24
891 918 3.625764 TCCAAGGCTGCGATTGTAATAAC 59.374 43.478 13.09 0.00 0.00 1.89
1013 1043 3.449227 CTACCACCGAGCTCGCCA 61.449 66.667 30.49 11.31 38.18 5.69
1203 1233 3.618780 GACCTGCTGCTGGTGAGGG 62.619 68.421 32.00 10.51 35.85 4.30
1233 1263 3.654020 GGCTCCATCGCCGCAATC 61.654 66.667 0.00 0.00 40.79 2.67
1267 1297 2.576615 AGAAAGAACAAGCACCTCACC 58.423 47.619 0.00 0.00 0.00 4.02
1285 1315 2.314071 TCGTAACAGGAAGGGGAAGA 57.686 50.000 0.00 0.00 0.00 2.87
1334 1367 0.610174 ATACAGATCCGCCGCATGAT 59.390 50.000 0.00 0.00 0.00 2.45
1354 1387 0.252881 AATCTCCTCCCTCACCTGCA 60.253 55.000 0.00 0.00 0.00 4.41
1535 1568 1.451067 GGATAGCAGCATCCATGAGC 58.549 55.000 15.32 0.00 43.52 4.26
1581 1614 1.592669 CGATCTTGAAGCCGCCGAT 60.593 57.895 0.00 0.00 0.00 4.18
1604 1637 1.903877 CTGTCCATTCACCGGCCTCT 61.904 60.000 0.00 0.00 0.00 3.69
1715 1748 2.361119 TCTGTCAGTAGAGTTGTTGCGT 59.639 45.455 0.00 0.00 0.00 5.24
1723 1756 0.889306 GGCGGTTCTGTCAGTAGAGT 59.111 55.000 0.00 0.00 0.00 3.24
1727 1760 0.172578 CGATGGCGGTTCTGTCAGTA 59.827 55.000 0.00 0.00 0.00 2.74
1728 1761 1.079819 CGATGGCGGTTCTGTCAGT 60.080 57.895 0.00 0.00 0.00 3.41
1735 1768 2.461110 AATGCGACGATGGCGGTTC 61.461 57.895 0.00 0.00 43.17 3.62
1808 1841 0.538516 CCGATCCGATCCTCTCCAGT 60.539 60.000 2.69 0.00 0.00 4.00
1913 1946 1.717077 ACTTCCCCTGGAGAGACTGTA 59.283 52.381 0.00 0.00 31.21 2.74
1919 1952 1.277580 ATGCCACTTCCCCTGGAGAG 61.278 60.000 0.00 0.00 31.21 3.20
1920 1953 1.229951 ATGCCACTTCCCCTGGAGA 60.230 57.895 0.00 0.00 31.21 3.71
1997 2030 1.281867 CTTTCCCCAGTAGGCACATCA 59.718 52.381 0.00 0.00 0.00 3.07
2009 2042 3.704545 ATGCCATAATTCCTTTCCCCA 57.295 42.857 0.00 0.00 0.00 4.96
2063 2099 2.563471 GTCATCTCCTGACGGTGTAC 57.437 55.000 0.00 0.00 44.58 2.90
2164 2202 8.757982 ATCCATAAAATTAGTGCTGACATTCT 57.242 30.769 0.00 0.00 0.00 2.40
2217 2270 3.256631 GCCCATCCCTGCATTACTAATTG 59.743 47.826 0.00 0.00 0.00 2.32
2239 2292 3.186613 GGAGGCTCTCTTTTTGTGTTACG 59.813 47.826 15.23 0.00 0.00 3.18
2241 2294 4.706842 AGGAGGCTCTCTTTTTGTGTTA 57.293 40.909 15.23 0.00 0.00 2.41
2391 2464 6.829298 TGGGCGAAGGTATTGATTTAACATAA 59.171 34.615 0.00 0.00 0.00 1.90
2394 2467 4.590918 TGGGCGAAGGTATTGATTTAACA 58.409 39.130 0.00 0.00 0.00 2.41
2395 2468 5.570234 TTGGGCGAAGGTATTGATTTAAC 57.430 39.130 0.00 0.00 0.00 2.01
2396 2469 6.591750 TTTTGGGCGAAGGTATTGATTTAA 57.408 33.333 0.00 0.00 0.00 1.52
2397 2470 6.591750 TTTTTGGGCGAAGGTATTGATTTA 57.408 33.333 0.00 0.00 0.00 1.40
2398 2471 5.476091 TTTTTGGGCGAAGGTATTGATTT 57.524 34.783 0.00 0.00 0.00 2.17
2399 2472 5.046663 ACATTTTTGGGCGAAGGTATTGATT 60.047 36.000 0.00 0.00 0.00 2.57
2400 2473 4.466015 ACATTTTTGGGCGAAGGTATTGAT 59.534 37.500 0.00 0.00 0.00 2.57
2401 2474 3.829601 ACATTTTTGGGCGAAGGTATTGA 59.170 39.130 0.00 0.00 0.00 2.57
2402 2475 4.186856 ACATTTTTGGGCGAAGGTATTG 57.813 40.909 0.00 0.00 0.00 1.90
2403 2476 4.322424 GGAACATTTTTGGGCGAAGGTATT 60.322 41.667 0.00 0.00 0.00 1.89
2404 2477 3.194755 GGAACATTTTTGGGCGAAGGTAT 59.805 43.478 0.00 0.00 0.00 2.73
2405 2478 2.559231 GGAACATTTTTGGGCGAAGGTA 59.441 45.455 0.00 0.00 0.00 3.08
2406 2479 1.343142 GGAACATTTTTGGGCGAAGGT 59.657 47.619 0.00 0.00 0.00 3.50
2407 2480 1.668628 CGGAACATTTTTGGGCGAAGG 60.669 52.381 0.00 0.00 0.00 3.46
2408 2481 1.668628 CCGGAACATTTTTGGGCGAAG 60.669 52.381 0.00 0.00 0.00 3.79
2409 2482 0.315568 CCGGAACATTTTTGGGCGAA 59.684 50.000 0.00 0.00 0.00 4.70
2410 2483 0.824182 ACCGGAACATTTTTGGGCGA 60.824 50.000 9.46 0.00 0.00 5.54
2411 2484 0.665972 CACCGGAACATTTTTGGGCG 60.666 55.000 9.46 0.00 0.00 6.13
2412 2485 0.948623 GCACCGGAACATTTTTGGGC 60.949 55.000 9.46 0.00 0.00 5.36
2413 2486 0.390860 TGCACCGGAACATTTTTGGG 59.609 50.000 9.46 0.00 0.00 4.12
2414 2487 1.605202 CCTGCACCGGAACATTTTTGG 60.605 52.381 9.46 0.00 0.00 3.28
2415 2488 1.339610 TCCTGCACCGGAACATTTTTG 59.660 47.619 9.46 0.00 0.00 2.44
2416 2489 1.698506 TCCTGCACCGGAACATTTTT 58.301 45.000 9.46 0.00 0.00 1.94
2417 2490 1.545582 CATCCTGCACCGGAACATTTT 59.454 47.619 9.46 0.00 36.49 1.82
2418 2491 1.176527 CATCCTGCACCGGAACATTT 58.823 50.000 9.46 0.00 36.49 2.32
2419 2492 1.315257 GCATCCTGCACCGGAACATT 61.315 55.000 9.46 0.00 44.26 2.71
2420 2493 1.750399 GCATCCTGCACCGGAACAT 60.750 57.895 9.46 0.00 44.26 2.71
2421 2494 2.359850 GCATCCTGCACCGGAACA 60.360 61.111 9.46 4.42 44.26 3.18
2427 2500 7.200034 AGGTACTATAACAGCATCCTGCACC 62.200 48.000 1.52 0.00 42.16 5.01
2428 2501 4.202264 AGGTACTATAACAGCATCCTGCAC 60.202 45.833 1.52 0.00 42.16 4.57
2429 2502 3.967326 AGGTACTATAACAGCATCCTGCA 59.033 43.478 1.52 0.00 42.16 4.41
2430 2503 4.039245 TGAGGTACTATAACAGCATCCTGC 59.961 45.833 0.00 0.00 41.55 4.85
2431 2504 5.791336 TGAGGTACTATAACAGCATCCTG 57.209 43.478 0.00 0.00 41.55 3.86
2432 2505 5.900123 AGTTGAGGTACTATAACAGCATCCT 59.100 40.000 0.00 0.00 41.55 3.24
2433 2506 6.163135 AGTTGAGGTACTATAACAGCATCC 57.837 41.667 0.00 0.00 41.55 3.51
2434 2507 7.751348 CGATAGTTGAGGTACTATAACAGCATC 59.249 40.741 0.00 1.12 41.55 3.91
2435 2508 7.309255 CCGATAGTTGAGGTACTATAACAGCAT 60.309 40.741 0.00 0.00 41.55 3.79
2436 2509 6.016527 CCGATAGTTGAGGTACTATAACAGCA 60.017 42.308 0.00 0.00 41.55 4.41
2437 2510 6.016443 ACCGATAGTTGAGGTACTATAACAGC 60.016 42.308 0.00 0.00 41.55 4.40
2438 2511 7.228108 TGACCGATAGTTGAGGTACTATAACAG 59.772 40.741 0.00 0.00 41.55 3.16
2439 2512 7.056006 TGACCGATAGTTGAGGTACTATAACA 58.944 38.462 0.00 0.00 41.55 2.41
2440 2513 7.443575 TCTGACCGATAGTTGAGGTACTATAAC 59.556 40.741 0.00 0.00 41.55 1.89
2441 2514 7.512130 TCTGACCGATAGTTGAGGTACTATAA 58.488 38.462 0.00 0.00 41.55 0.98
2442 2515 7.071069 TCTGACCGATAGTTGAGGTACTATA 57.929 40.000 0.00 0.00 41.55 1.31
2443 2516 5.938279 TCTGACCGATAGTTGAGGTACTAT 58.062 41.667 0.00 0.00 41.55 2.12
2444 2517 5.363562 TCTGACCGATAGTTGAGGTACTA 57.636 43.478 0.00 0.00 41.55 1.82
2445 2518 8.015840 TAACTTCTGACCGATAGTTGAGGTACT 61.016 40.741 0.00 0.00 38.57 2.73
2446 2519 4.398673 ACTTCTGACCGATAGTTGAGGTAC 59.601 45.833 0.00 0.00 38.57 3.34
2447 2520 4.597004 ACTTCTGACCGATAGTTGAGGTA 58.403 43.478 0.00 0.00 38.57 3.08
2448 2521 3.432378 ACTTCTGACCGATAGTTGAGGT 58.568 45.455 0.00 0.00 41.63 3.85
2449 2522 4.457834 AACTTCTGACCGATAGTTGAGG 57.542 45.455 0.00 0.00 30.17 3.86
2450 2523 5.583495 CCTAACTTCTGACCGATAGTTGAG 58.417 45.833 0.00 0.00 33.28 3.02
2451 2524 4.142227 GCCTAACTTCTGACCGATAGTTGA 60.142 45.833 0.00 0.00 33.28 3.18
2452 2525 4.113354 GCCTAACTTCTGACCGATAGTTG 58.887 47.826 0.00 0.00 33.28 3.16
2453 2526 3.132467 GGCCTAACTTCTGACCGATAGTT 59.868 47.826 0.00 0.00 35.25 2.24
2454 2527 2.694109 GGCCTAACTTCTGACCGATAGT 59.306 50.000 0.00 0.00 0.00 2.12
2455 2528 2.959707 AGGCCTAACTTCTGACCGATAG 59.040 50.000 1.29 0.00 0.00 2.08
2456 2529 2.693591 CAGGCCTAACTTCTGACCGATA 59.306 50.000 3.98 0.00 0.00 2.92
2457 2530 1.482593 CAGGCCTAACTTCTGACCGAT 59.517 52.381 3.98 0.00 0.00 4.18
2458 2531 0.895530 CAGGCCTAACTTCTGACCGA 59.104 55.000 3.98 0.00 0.00 4.69
2459 2532 0.895530 TCAGGCCTAACTTCTGACCG 59.104 55.000 3.98 0.00 33.21 4.79
2460 2533 3.418684 TTTCAGGCCTAACTTCTGACC 57.581 47.619 3.98 0.00 37.28 4.02
2461 2534 5.063880 TCTTTTTCAGGCCTAACTTCTGAC 58.936 41.667 3.98 0.00 37.28 3.51
2462 2535 5.304686 TCTTTTTCAGGCCTAACTTCTGA 57.695 39.130 3.98 0.00 35.95 3.27
2463 2536 6.207417 TGAATCTTTTTCAGGCCTAACTTCTG 59.793 38.462 3.98 0.00 0.00 3.02
2464 2537 6.306987 TGAATCTTTTTCAGGCCTAACTTCT 58.693 36.000 3.98 0.00 0.00 2.85
2465 2538 6.575162 TGAATCTTTTTCAGGCCTAACTTC 57.425 37.500 3.98 1.07 0.00 3.01
2466 2539 6.976934 TTGAATCTTTTTCAGGCCTAACTT 57.023 33.333 3.98 0.00 0.00 2.66
2467 2540 6.976934 TTTGAATCTTTTTCAGGCCTAACT 57.023 33.333 3.98 0.00 0.00 2.24
2497 2570 8.693120 TTTCCCAATACACACTGTTTATTACA 57.307 30.769 1.13 0.00 34.95 2.41
2498 2571 9.968870 TTTTTCCCAATACACACTGTTTATTAC 57.031 29.630 1.13 0.00 0.00 1.89
2499 2572 9.968870 GTTTTTCCCAATACACACTGTTTATTA 57.031 29.630 1.13 0.00 0.00 0.98
2500 2573 8.700973 AGTTTTTCCCAATACACACTGTTTATT 58.299 29.630 0.00 0.00 0.00 1.40
2501 2574 8.141268 CAGTTTTTCCCAATACACACTGTTTAT 58.859 33.333 0.00 0.00 0.00 1.40
2502 2575 7.339721 TCAGTTTTTCCCAATACACACTGTTTA 59.660 33.333 0.00 0.00 33.57 2.01
2503 2576 6.153680 TCAGTTTTTCCCAATACACACTGTTT 59.846 34.615 0.00 0.00 33.57 2.83
2504 2577 5.654650 TCAGTTTTTCCCAATACACACTGTT 59.345 36.000 0.00 0.00 33.57 3.16
2505 2578 5.197451 TCAGTTTTTCCCAATACACACTGT 58.803 37.500 0.00 0.00 33.57 3.55
2506 2579 5.766150 TCAGTTTTTCCCAATACACACTG 57.234 39.130 0.00 0.00 33.19 3.66
2507 2580 7.458397 TCTATCAGTTTTTCCCAATACACACT 58.542 34.615 0.00 0.00 0.00 3.55
2508 2581 7.681939 TCTATCAGTTTTTCCCAATACACAC 57.318 36.000 0.00 0.00 0.00 3.82
2509 2582 8.160765 TCTTCTATCAGTTTTTCCCAATACACA 58.839 33.333 0.00 0.00 0.00 3.72
2510 2583 8.561738 TCTTCTATCAGTTTTTCCCAATACAC 57.438 34.615 0.00 0.00 0.00 2.90
2513 2586 9.847224 GGTATCTTCTATCAGTTTTTCCCAATA 57.153 33.333 0.00 0.00 0.00 1.90
2514 2587 8.336235 TGGTATCTTCTATCAGTTTTTCCCAAT 58.664 33.333 0.00 0.00 0.00 3.16
2515 2588 7.695055 TGGTATCTTCTATCAGTTTTTCCCAA 58.305 34.615 0.00 0.00 0.00 4.12
2516 2589 7.265599 TGGTATCTTCTATCAGTTTTTCCCA 57.734 36.000 0.00 0.00 0.00 4.37
2548 2621 1.892209 ACCAACATTCTCCGTGGAAC 58.108 50.000 0.00 0.00 0.00 3.62
2549 2622 3.992943 ATACCAACATTCTCCGTGGAA 57.007 42.857 0.00 0.00 0.00 3.53
2550 2623 3.992943 AATACCAACATTCTCCGTGGA 57.007 42.857 0.00 0.00 0.00 4.02
2551 2624 5.364778 TGATAATACCAACATTCTCCGTGG 58.635 41.667 0.00 0.00 0.00 4.94
2552 2625 6.049149 ACTGATAATACCAACATTCTCCGTG 58.951 40.000 0.00 0.00 0.00 4.94
2553 2626 6.235231 ACTGATAATACCAACATTCTCCGT 57.765 37.500 0.00 0.00 0.00 4.69
2554 2627 6.511767 GCAACTGATAATACCAACATTCTCCG 60.512 42.308 0.00 0.00 0.00 4.63
2555 2628 6.543831 AGCAACTGATAATACCAACATTCTCC 59.456 38.462 0.00 0.00 0.00 3.71
2556 2629 7.497249 AGAGCAACTGATAATACCAACATTCTC 59.503 37.037 0.00 0.00 0.00 2.87
2557 2630 7.341805 AGAGCAACTGATAATACCAACATTCT 58.658 34.615 0.00 0.00 0.00 2.40
2558 2631 7.559590 AGAGCAACTGATAATACCAACATTC 57.440 36.000 0.00 0.00 0.00 2.67
2559 2632 9.277783 GATAGAGCAACTGATAATACCAACATT 57.722 33.333 0.00 0.00 0.00 2.71
2560 2633 8.432013 TGATAGAGCAACTGATAATACCAACAT 58.568 33.333 0.00 0.00 0.00 2.71
2561 2634 7.791029 TGATAGAGCAACTGATAATACCAACA 58.209 34.615 0.00 0.00 0.00 3.33
2562 2635 8.144478 TCTGATAGAGCAACTGATAATACCAAC 58.856 37.037 0.00 0.00 0.00 3.77
2563 2636 8.250143 TCTGATAGAGCAACTGATAATACCAA 57.750 34.615 0.00 0.00 0.00 3.67
2564 2637 7.839680 TCTGATAGAGCAACTGATAATACCA 57.160 36.000 0.00 0.00 0.00 3.25
2568 2641 8.034215 GCACTATCTGATAGAGCAACTGATAAT 58.966 37.037 29.85 6.14 45.13 1.28
2569 2642 7.374272 GCACTATCTGATAGAGCAACTGATAA 58.626 38.462 29.85 0.00 45.13 1.75
2570 2643 6.071672 GGCACTATCTGATAGAGCAACTGATA 60.072 42.308 32.97 0.00 46.81 2.15
2571 2644 5.279406 GGCACTATCTGATAGAGCAACTGAT 60.279 44.000 32.97 9.98 46.81 2.90
2572 2645 4.038522 GGCACTATCTGATAGAGCAACTGA 59.961 45.833 32.97 0.48 46.81 3.41
2573 2646 4.039004 AGGCACTATCTGATAGAGCAACTG 59.961 45.833 32.97 20.61 46.81 3.16
2574 2647 4.222336 AGGCACTATCTGATAGAGCAACT 58.778 43.478 32.97 24.04 46.81 3.16
2575 2648 4.599047 AGGCACTATCTGATAGAGCAAC 57.401 45.455 32.97 22.76 46.81 4.17
2576 2649 6.071320 TCTAAGGCACTATCTGATAGAGCAA 58.929 40.000 32.97 22.28 46.81 3.91
2577 2650 5.635120 TCTAAGGCACTATCTGATAGAGCA 58.365 41.667 32.97 20.04 46.81 4.26
2578 2651 6.582677 TTCTAAGGCACTATCTGATAGAGC 57.417 41.667 28.12 28.12 45.09 4.09
2579 2652 7.014711 TGGTTTCTAAGGCACTATCTGATAGAG 59.985 40.741 26.93 20.91 38.49 2.43
2580 2653 6.839134 TGGTTTCTAAGGCACTATCTGATAGA 59.161 38.462 26.93 5.21 38.49 1.98
2581 2654 7.055667 TGGTTTCTAAGGCACTATCTGATAG 57.944 40.000 20.37 20.37 38.49 2.08
2582 2655 7.618019 ATGGTTTCTAAGGCACTATCTGATA 57.382 36.000 0.00 0.00 38.49 2.15
2583 2656 5.957771 TGGTTTCTAAGGCACTATCTGAT 57.042 39.130 0.00 0.00 38.49 2.90
2711 2868 2.419673 TCAATGCAAACTATGACGCCTG 59.580 45.455 0.00 0.00 0.00 4.85
2712 2869 2.710377 TCAATGCAAACTATGACGCCT 58.290 42.857 0.00 0.00 0.00 5.52
2713 2870 3.485947 TTCAATGCAAACTATGACGCC 57.514 42.857 0.00 0.00 0.00 5.68
2714 2871 6.412072 GTCTATTTCAATGCAAACTATGACGC 59.588 38.462 0.00 0.00 0.00 5.19
2715 2872 7.463544 TGTCTATTTCAATGCAAACTATGACG 58.536 34.615 0.00 0.00 0.00 4.35
2764 2924 5.419471 TGGTGATTAAAATTAGGAAACCCGG 59.581 40.000 0.00 0.00 0.00 5.73
2823 2983 4.584327 AACATGGCTTAACCTGTTTCAC 57.416 40.909 0.00 0.00 36.80 3.18
2896 3371 8.338259 CCTGAGTAAATTTTCAATCAGATACCG 58.662 37.037 16.29 0.72 37.03 4.02
2912 4970 4.985538 TGGTTCTCTTTGCCTGAGTAAAT 58.014 39.130 0.00 0.00 33.59 1.40
2918 4976 3.576078 TTCTTGGTTCTCTTTGCCTGA 57.424 42.857 0.00 0.00 0.00 3.86
2922 4980 7.719778 AATCAAATTTCTTGGTTCTCTTTGC 57.280 32.000 0.00 0.00 0.00 3.68
2989 5047 8.698973 TTTTTACAAGATGAACCTTATGTCCA 57.301 30.769 0.00 0.00 0.00 4.02
3054 5113 1.610554 GCTACTACGTGCCCCCTTCA 61.611 60.000 0.00 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.