Multiple sequence alignment - TraesCS7D01G502900

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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 TraesCS7D01G502900 chr7D 100.000 3182 0 0 1 3182 608221552 608224733 0.000000e+00 5877.0
1 TraesCS7D01G502900 chr7D 91.249 2297 128 24 516 2750 610422013 610419728 0.000000e+00 3061.0
2 TraesCS7D01G502900 chr7D 89.467 2231 129 29 602 2750 608272458 608274664 0.000000e+00 2721.0
3 TraesCS7D01G502900 chr7D 88.786 1186 98 8 1596 2750 514918648 514919829 0.000000e+00 1421.0
4 TraesCS7D01G502900 chr7D 86.086 1114 77 30 557 1595 514912697 514913807 0.000000e+00 1127.0
5 TraesCS7D01G502900 chr7D 88.179 313 24 6 230 530 610422346 610422035 8.390000e-96 361.0
6 TraesCS7D01G502900 chr7D 90.598 234 18 4 2 232 514908078 514908310 1.110000e-79 307.0
7 TraesCS7D01G502900 chr7D 93.532 201 8 1 230 425 514908631 514908831 8.630000e-76 294.0
8 TraesCS7D01G502900 chr7D 83.922 255 31 6 232 479 610707771 610708022 5.310000e-58 235.0
9 TraesCS7D01G502900 chr7D 96.154 52 2 0 479 530 514908849 514908900 5.660000e-13 86.1
10 TraesCS7D01G502900 chr7B 87.708 2530 201 49 230 2683 693713712 693716207 0.000000e+00 2848.0
11 TraesCS7D01G502900 chr7B 89.599 2221 167 24 578 2753 698682399 698684600 0.000000e+00 2763.0
12 TraesCS7D01G502900 chr7B 88.032 2256 166 22 596 2753 696238403 696240652 0.000000e+00 2575.0
13 TraesCS7D01G502900 chr7B 87.528 1780 141 36 511 2232 693681453 693683209 0.000000e+00 1982.0
14 TraesCS7D01G502900 chr7B 90.400 1500 111 10 1282 2750 693664476 693665973 0.000000e+00 1941.0
15 TraesCS7D01G502900 chr7B 91.983 1210 81 8 1121 2315 694747387 694748595 0.000000e+00 1683.0
16 TraesCS7D01G502900 chr7B 83.404 1175 149 23 1470 2618 693669619 693670773 0.000000e+00 1048.0
17 TraesCS7D01G502900 chr7B 88.906 649 34 18 256 879 693663346 693663981 0.000000e+00 765.0
18 TraesCS7D01G502900 chr7B 86.980 553 45 11 2224 2750 693684866 693685417 5.870000e-167 597.0
19 TraesCS7D01G502900 chr7B 87.179 468 26 10 2309 2750 694748766 694749225 4.740000e-138 501.0
20 TraesCS7D01G502900 chr7B 87.462 327 19 13 263 577 698676434 698676750 1.090000e-94 357.0
21 TraesCS7D01G502900 chr7B 87.059 255 22 5 230 479 693678426 693678674 8.690000e-71 278.0
22 TraesCS7D01G502900 chr7B 87.059 255 22 5 230 479 693693943 693694191 8.690000e-71 278.0
23 TraesCS7D01G502900 chr7B 91.975 162 12 1 913 1073 693664305 693664466 3.190000e-55 226.0
24 TraesCS7D01G502900 chr7B 92.381 105 8 0 2 106 693662807 693662911 1.980000e-32 150.0
25 TraesCS7D01G502900 chr7B 89.831 118 7 3 115 232 698676158 698676270 2.560000e-31 147.0
26 TraesCS7D01G502900 chr7A 90.593 2158 121 27 667 2750 700299945 700302094 0.000000e+00 2785.0
27 TraesCS7D01G502900 chr7A 90.361 2158 126 26 667 2750 700337763 700339912 0.000000e+00 2758.0
28 TraesCS7D01G502900 chr7A 93.377 151 9 1 3 153 700299732 700299881 4.130000e-54 222.0
29 TraesCS7D01G502900 chr7A 90.968 155 9 2 3 153 700337546 700337699 1.500000e-48 204.0
30 TraesCS7D01G502900 chrUn 90.021 1914 131 21 880 2750 77521290 77523186 0.000000e+00 2422.0
31 TraesCS7D01G502900 chrUn 87.493 1783 142 36 511 2235 364811052 364809293 0.000000e+00 1982.0
32 TraesCS7D01G502900 chrUn 90.291 618 30 18 230 830 77515295 77515899 0.000000e+00 782.0
33 TraesCS7D01G502900 chrUn 83.696 828 68 33 511 1285 344773539 344772726 0.000000e+00 719.0
34 TraesCS7D01G502900 chrUn 93.074 231 8 1 2 232 77514770 77514992 6.580000e-87 331.0
35 TraesCS7D01G502900 chr5D 85.354 1707 194 26 1014 2670 3632899 3634599 0.000000e+00 1716.0
36 TraesCS7D01G502900 chr5D 94.989 439 22 0 2744 3182 458640150 458640588 0.000000e+00 689.0
37 TraesCS7D01G502900 chr1A 92.661 436 30 2 2747 3182 2158106 2158539 7.490000e-176 627.0
38 TraesCS7D01G502900 chr6D 95.733 375 15 1 2746 3120 277054301 277054674 1.260000e-168 603.0
39 TraesCS7D01G502900 chr1D 90.611 458 17 5 2750 3182 458396117 458395661 4.570000e-163 584.0
40 TraesCS7D01G502900 chr4A 90.433 439 39 3 2747 3182 654414513 654414951 2.750000e-160 575.0
41 TraesCS7D01G502900 chr4A 84.992 613 38 28 230 830 735184379 735183809 9.900000e-160 573.0
42 TraesCS7D01G502900 chr4A 79.518 747 72 33 329 1019 662053465 662052744 1.040000e-124 457.0
43 TraesCS7D01G502900 chr4A 96.104 231 8 1 2 232 735184911 735184682 3.000000e-100 375.0
44 TraesCS7D01G502900 chr4A 90.654 107 9 1 3 108 662054025 662053919 1.190000e-29 141.0
45 TraesCS7D01G502900 chr2D 90.466 451 21 8 2754 3182 638873730 638873280 2.750000e-160 575.0
46 TraesCS7D01G502900 chr1B 90.531 433 35 2 2750 3182 234797243 234796817 4.610000e-158 568.0
47 TraesCS7D01G502900 chr5B 90.300 433 34 4 2750 3182 528962648 528962224 7.710000e-156 560.0
48 TraesCS7D01G502900 chr5B 91.176 102 9 0 3079 3180 548884276 548884175 4.280000e-29 139.0
49 TraesCS7D01G502900 chr4B 91.084 415 33 3 2748 3162 574232761 574232351 2.770000e-155 558.0


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 TraesCS7D01G502900 chr7D 608221552 608224733 3181 False 5877.000000 5877 100.0000 1 3182 1 chr7D.!!$F2 3181
1 TraesCS7D01G502900 chr7D 608272458 608274664 2206 False 2721.000000 2721 89.4670 602 2750 1 chr7D.!!$F3 2148
2 TraesCS7D01G502900 chr7D 610419728 610422346 2618 True 1711.000000 3061 89.7140 230 2750 2 chr7D.!!$R1 2520
3 TraesCS7D01G502900 chr7D 514918648 514919829 1181 False 1421.000000 1421 88.7860 1596 2750 1 chr7D.!!$F1 1154
4 TraesCS7D01G502900 chr7D 514908078 514913807 5729 False 453.525000 1127 91.5925 2 1595 4 chr7D.!!$F5 1593
5 TraesCS7D01G502900 chr7B 693713712 693716207 2495 False 2848.000000 2848 87.7080 230 2683 1 chr7B.!!$F2 2453
6 TraesCS7D01G502900 chr7B 698682399 698684600 2201 False 2763.000000 2763 89.5990 578 2753 1 chr7B.!!$F4 2175
7 TraesCS7D01G502900 chr7B 696238403 696240652 2249 False 2575.000000 2575 88.0320 596 2753 1 chr7B.!!$F3 2157
8 TraesCS7D01G502900 chr7B 694747387 694749225 1838 False 1092.000000 1683 89.5810 1121 2750 2 chr7B.!!$F7 1629
9 TraesCS7D01G502900 chr7B 693678426 693685417 6991 False 952.333333 1982 87.1890 230 2750 3 chr7B.!!$F6 2520
10 TraesCS7D01G502900 chr7B 693662807 693670773 7966 False 826.000000 1941 89.4132 2 2750 5 chr7B.!!$F5 2748
11 TraesCS7D01G502900 chr7B 698676158 698676750 592 False 252.000000 357 88.6465 115 577 2 chr7B.!!$F8 462
12 TraesCS7D01G502900 chr7A 700299732 700302094 2362 False 1503.500000 2785 91.9850 3 2750 2 chr7A.!!$F1 2747
13 TraesCS7D01G502900 chr7A 700337546 700339912 2366 False 1481.000000 2758 90.6645 3 2750 2 chr7A.!!$F2 2747
14 TraesCS7D01G502900 chrUn 77521290 77523186 1896 False 2422.000000 2422 90.0210 880 2750 1 chrUn.!!$F1 1870
15 TraesCS7D01G502900 chrUn 364809293 364811052 1759 True 1982.000000 1982 87.4930 511 2235 1 chrUn.!!$R2 1724
16 TraesCS7D01G502900 chrUn 344772726 344773539 813 True 719.000000 719 83.6960 511 1285 1 chrUn.!!$R1 774
17 TraesCS7D01G502900 chrUn 77514770 77515899 1129 False 556.500000 782 91.6825 2 830 2 chrUn.!!$F2 828
18 TraesCS7D01G502900 chr5D 3632899 3634599 1700 False 1716.000000 1716 85.3540 1014 2670 1 chr5D.!!$F1 1656
19 TraesCS7D01G502900 chr4A 735183809 735184911 1102 True 474.000000 573 90.5480 2 830 2 chr4A.!!$R2 828
20 TraesCS7D01G502900 chr4A 662052744 662054025 1281 True 299.000000 457 85.0860 3 1019 2 chr4A.!!$R1 1016

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
622 7860 0.676184 GCCGACCTCATGCATCTCTA 59.324 55.0 0.0 0.0 0.0 2.43 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2269 11623 0.528017 GCGACATGTCAGTCTCCTCA 59.472 55.0 24.93 0.0 36.38 3.86 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
53 54 6.464519 CGTGTGATGTTATTTCATGTAAACGG 59.535 38.462 0.00 0.00 0.00 4.44
112 162 2.740826 GTGTGTATGTGCGCGGGT 60.741 61.111 8.83 0.00 0.00 5.28
145 195 6.073222 CGCTGTTATTGGGAGTATAATGTTCC 60.073 42.308 0.00 0.00 0.00 3.62
173 223 9.347240 ACATATGTTGATAGGGAGATTCAAAAG 57.653 33.333 1.41 0.00 31.66 2.27
401 1066 2.351157 GGCTATTTAGACCGCGACGTAT 60.351 50.000 8.23 0.00 0.00 3.06
443 1108 5.123344 GTGGTACTAATGTTTCTTTCGGCAT 59.877 40.000 0.00 0.00 0.00 4.40
444 1109 6.314400 GTGGTACTAATGTTTCTTTCGGCATA 59.686 38.462 0.00 0.00 0.00 3.14
537 3989 2.810400 GCTAAACTGTGCCTCTTGTCCA 60.810 50.000 0.00 0.00 0.00 4.02
538 3990 2.664402 AAACTGTGCCTCTTGTCCAT 57.336 45.000 0.00 0.00 0.00 3.41
539 3991 3.788227 AAACTGTGCCTCTTGTCCATA 57.212 42.857 0.00 0.00 0.00 2.74
598 7825 3.069980 ATCTGCCGACGACTGAGCC 62.070 63.158 0.00 0.00 0.00 4.70
622 7860 0.676184 GCCGACCTCATGCATCTCTA 59.324 55.000 0.00 0.00 0.00 2.43
751 8037 1.353103 CAATCGCAATCCTGACGCC 59.647 57.895 0.00 0.00 0.00 5.68
774 8064 3.135712 TCTGGTTGGCTACAAAACTGAGA 59.864 43.478 0.80 0.00 38.54 3.27
903 8260 1.453155 AATCACCACACGAGCCATTC 58.547 50.000 0.00 0.00 0.00 2.67
917 8542 2.936498 AGCCATTCGCATTATATACGCC 59.064 45.455 0.00 0.00 41.38 5.68
925 8550 5.099575 TCGCATTATATACGCCACATGTAG 58.900 41.667 0.00 0.00 0.00 2.74
1003 8653 2.435693 GCTCTAGGTCCGGCCATGT 61.436 63.158 15.92 0.02 40.61 3.21
1009 8659 4.451150 GTCCGGCCATGTCAGCGA 62.451 66.667 2.24 0.00 0.00 4.93
1028 8678 1.843376 CAGTGGTGGAGAGGTGGGT 60.843 63.158 0.00 0.00 0.00 4.51
1095 8746 2.125673 CAGAACTACGTGCCCCCG 60.126 66.667 0.00 0.00 0.00 5.73
1097 8748 2.125793 GAACTACGTGCCCCCGAC 60.126 66.667 0.00 0.00 0.00 4.79
1098 8749 3.654173 GAACTACGTGCCCCCGACC 62.654 68.421 0.00 0.00 0.00 4.79
1295 8968 1.322442 GCAAGGACAGCAAGAACCTT 58.678 50.000 0.00 0.00 42.49 3.50
1296 8969 1.683385 GCAAGGACAGCAAGAACCTTT 59.317 47.619 0.00 0.00 40.21 3.11
1311 8984 1.752198 CTTTGGGTCTCCGTGGACA 59.248 57.895 7.20 0.00 37.91 4.02
1338 9011 0.959553 GGAGGTCACTGACGACTTCA 59.040 55.000 13.01 0.00 42.23 3.02
1339 9012 1.340248 GGAGGTCACTGACGACTTCAA 59.660 52.381 13.01 0.00 42.23 2.69
1494 9168 3.031736 CCTACCTTCCTTTCATCCTCGA 58.968 50.000 0.00 0.00 0.00 4.04
1574 9248 2.301738 GGCAGCTGGAACCCCTACT 61.302 63.158 17.12 0.00 0.00 2.57
1677 9357 1.141665 CATCGACGACCTCATGGCA 59.858 57.895 0.00 0.00 36.63 4.92
1807 9496 1.538512 CCAACTTCCTCGACTACGACA 59.461 52.381 0.00 0.00 43.81 4.35
1830 9519 1.830587 ATGACCTTGAGCTCACGGCA 61.831 55.000 32.97 29.34 44.79 5.69
1973 9662 1.738099 CAAGCGACAAGGACTCCGG 60.738 63.158 0.00 0.00 0.00 5.14
1978 9667 1.070786 GACAAGGACTCCGGCAACA 59.929 57.895 0.00 0.00 0.00 3.33
1993 9682 1.069049 GCAACAATGACAAGCCCAAGT 59.931 47.619 0.00 0.00 0.00 3.16
2059 9748 1.678728 CGGGCCTGCTTAACTTCATCA 60.679 52.381 0.84 0.00 0.00 3.07
2072 9761 0.687920 TTCATCAACGGGCTGTGGTA 59.312 50.000 0.00 0.00 0.00 3.25
2079 9768 1.377202 CGGGCTGTGGTATGCTTGT 60.377 57.895 0.00 0.00 0.00 3.16
2132 9821 0.397941 CACAAGGAGAAGCTGGACCA 59.602 55.000 0.00 0.00 0.00 4.02
2142 9831 2.270205 CTGGACCAGGCGCTGATT 59.730 61.111 14.26 0.00 32.44 2.57
2189 9878 5.614308 CATCAAGATGTCCTAATGCTGGTA 58.386 41.667 1.90 0.00 34.23 3.25
2421 11964 2.895424 CGGCCAAGGTGAAGGAGGT 61.895 63.158 2.24 0.00 0.00 3.85
2428 11980 3.379452 CAAGGTGAAGGAGGTAGAGGAT 58.621 50.000 0.00 0.00 0.00 3.24
2445 11997 2.079925 GGATGCTCAAGCGAAGAAAGT 58.920 47.619 0.00 0.00 45.83 2.66
2550 12126 4.067896 GGTGACAAGTGAAGTGACATCAT 58.932 43.478 0.00 0.00 0.00 2.45
2555 12132 3.144657 AGTGAAGTGACATCATGCCAA 57.855 42.857 0.00 0.00 0.00 4.52
2565 12142 1.822990 CATCATGCCAAGAAGCCAAGT 59.177 47.619 0.00 0.00 0.00 3.16
2570 12148 4.527816 TCATGCCAAGAAGCCAAGTAAAAT 59.472 37.500 0.00 0.00 0.00 1.82
2604 12184 4.537135 TCACTAGTGCTCCCTTACAAAG 57.463 45.455 18.45 0.00 0.00 2.77
2649 12246 7.446931 TGCACCTCTCAACTGAAACAATATTTA 59.553 33.333 0.00 0.00 0.00 1.40
2695 12292 3.357021 CTGCATATAAAGCGTGCAACAG 58.643 45.455 0.00 0.00 46.90 3.16
2707 12304 3.371168 CGTGCAACAGTACAAAATGCTT 58.629 40.909 12.18 0.00 37.86 3.91
2714 12311 6.863126 GCAACAGTACAAAATGCTTCTGTAAT 59.137 34.615 0.00 0.00 35.53 1.89
2717 12322 9.893305 AACAGTACAAAATGCTTCTGTAATAAC 57.107 29.630 0.00 0.00 35.53 1.89
2725 12330 9.762933 AAAATGCTTCTGTAATAACAAACACAT 57.237 25.926 0.00 0.00 34.49 3.21
2750 12355 5.106277 GCTTTACCTACACCAAAAGGCTAAG 60.106 44.000 0.00 0.00 36.24 2.18
2752 12357 4.287766 ACCTACACCAAAAGGCTAAGAG 57.712 45.455 0.00 0.00 36.24 2.85
2753 12358 3.010420 CCTACACCAAAAGGCTAAGAGC 58.990 50.000 0.00 0.00 41.46 4.09
2754 12359 2.656947 ACACCAAAAGGCTAAGAGCA 57.343 45.000 0.21 0.00 44.75 4.26
2756 12361 3.084786 ACACCAAAAGGCTAAGAGCATC 58.915 45.455 0.21 0.00 44.75 3.91
2767 12372 4.116878 GAGCATCTCCAGCCGTTC 57.883 61.111 0.00 0.00 0.00 3.95
2768 12373 1.880340 GAGCATCTCCAGCCGTTCG 60.880 63.158 0.00 0.00 0.00 3.95
2769 12374 2.892425 GCATCTCCAGCCGTTCGG 60.892 66.667 6.90 6.90 0.00 4.30
2790 12395 3.747976 CCCAGGGCGCCGAAAAAG 61.748 66.667 22.54 5.42 0.00 2.27
2791 12396 2.671619 CCAGGGCGCCGAAAAAGA 60.672 61.111 22.54 0.00 0.00 2.52
2799 12404 2.870372 CCGAAAAAGAGCGGCCTG 59.130 61.111 0.00 0.00 41.17 4.85
2800 12405 2.690778 CCGAAAAAGAGCGGCCTGG 61.691 63.158 0.00 0.00 41.17 4.45
2801 12406 2.690778 CGAAAAAGAGCGGCCTGGG 61.691 63.158 0.00 0.00 0.00 4.45
2802 12407 2.283173 AAAAAGAGCGGCCTGGGG 60.283 61.111 0.00 0.00 0.00 4.96
2803 12408 3.886550 AAAAAGAGCGGCCTGGGGG 62.887 63.158 0.00 0.00 0.00 5.40
2823 12428 2.835431 AGCTGGCGCTAGATCGGT 60.835 61.111 26.32 0.00 46.79 4.69
2825 12430 2.336809 CTGGCGCTAGATCGGTCC 59.663 66.667 16.85 0.00 0.00 4.46
2826 12431 3.214250 CTGGCGCTAGATCGGTCCC 62.214 68.421 16.85 0.00 0.00 4.46
2827 12432 2.913060 GGCGCTAGATCGGTCCCT 60.913 66.667 7.64 0.00 0.00 4.20
2828 12433 2.336809 GCGCTAGATCGGTCCCTG 59.663 66.667 0.00 0.00 0.00 4.45
2829 12434 3.043419 CGCTAGATCGGTCCCTGG 58.957 66.667 0.00 0.00 0.00 4.45
2830 12435 2.565645 CGCTAGATCGGTCCCTGGG 61.566 68.421 6.33 6.33 0.00 4.45
2831 12436 2.210711 GCTAGATCGGTCCCTGGGG 61.211 68.421 14.00 2.42 0.00 4.96
2832 12437 1.233369 CTAGATCGGTCCCTGGGGT 59.767 63.158 14.00 0.00 36.47 4.95
2833 12438 0.398664 CTAGATCGGTCCCTGGGGTT 60.399 60.000 14.00 0.00 36.47 4.11
2834 12439 0.398098 TAGATCGGTCCCTGGGGTTC 60.398 60.000 14.00 3.97 36.47 3.62
2835 12440 3.081409 ATCGGTCCCTGGGGTTCG 61.081 66.667 14.00 14.05 36.47 3.95
2836 12441 3.918328 ATCGGTCCCTGGGGTTCGT 62.918 63.158 14.00 3.35 36.47 3.85
2838 14739 2.841317 GGTCCCTGGGGTTCGTTT 59.159 61.111 14.00 0.00 36.47 3.60
2842 14743 1.002502 CCCTGGGGTTCGTTTCTCC 60.003 63.158 4.27 0.00 0.00 3.71
2848 14749 1.674651 GGTTCGTTTCTCCCCAGCC 60.675 63.158 0.00 0.00 0.00 4.85
2849 14750 1.072505 GTTCGTTTCTCCCCAGCCA 59.927 57.895 0.00 0.00 0.00 4.75
2853 14754 4.344865 TTTCTCCCCAGCCACGCC 62.345 66.667 0.00 0.00 0.00 5.68
2884 14785 3.902112 CCCCAAGGCGCCCCATAT 61.902 66.667 26.15 0.00 0.00 1.78
2885 14786 2.198426 CCCAAGGCGCCCCATATT 59.802 61.111 26.15 7.59 0.00 1.28
2886 14787 1.903404 CCCAAGGCGCCCCATATTC 60.903 63.158 26.15 0.00 0.00 1.75
2888 14789 1.227823 CAAGGCGCCCCATATTCGA 60.228 57.895 26.15 0.00 0.00 3.71
2889 14790 0.817634 CAAGGCGCCCCATATTCGAA 60.818 55.000 26.15 0.00 0.00 3.71
2890 14791 0.818040 AAGGCGCCCCATATTCGAAC 60.818 55.000 26.15 0.00 0.00 3.95
2891 14792 1.227853 GGCGCCCCATATTCGAACT 60.228 57.895 18.11 0.00 0.00 3.01
2893 14794 1.228657 GCGCCCCATATTCGAACTCC 61.229 60.000 0.00 0.00 0.00 3.85
2894 14795 0.105964 CGCCCCATATTCGAACTCCA 59.894 55.000 0.00 0.00 0.00 3.86
2895 14796 1.270839 CGCCCCATATTCGAACTCCAT 60.271 52.381 0.00 0.00 0.00 3.41
2896 14797 2.810400 CGCCCCATATTCGAACTCCATT 60.810 50.000 0.00 0.00 0.00 3.16
2897 14798 2.554032 GCCCCATATTCGAACTCCATTG 59.446 50.000 0.00 0.00 0.00 2.82
2898 14799 3.820557 CCCCATATTCGAACTCCATTGT 58.179 45.455 0.00 0.00 0.00 2.71
2899 14800 4.207165 CCCCATATTCGAACTCCATTGTT 58.793 43.478 0.00 0.00 0.00 2.83
2900 14801 4.644685 CCCCATATTCGAACTCCATTGTTT 59.355 41.667 0.00 0.00 0.00 2.83
2901 14802 5.221048 CCCCATATTCGAACTCCATTGTTTC 60.221 44.000 0.00 0.00 0.00 2.78
2903 14804 5.501715 CATATTCGAACTCCATTGTTTCCG 58.498 41.667 0.00 0.00 0.00 4.30
2905 14806 1.156736 CGAACTCCATTGTTTCCGCT 58.843 50.000 0.00 0.00 0.00 5.52
2921 15649 3.765026 TCCGCTCAAAGAAACAACAAAC 58.235 40.909 0.00 0.00 0.00 2.93
2922 15650 2.857748 CCGCTCAAAGAAACAACAAACC 59.142 45.455 0.00 0.00 0.00 3.27
2923 15651 2.529894 CGCTCAAAGAAACAACAAACCG 59.470 45.455 0.00 0.00 0.00 4.44
2924 15652 2.857748 GCTCAAAGAAACAACAAACCGG 59.142 45.455 0.00 0.00 0.00 5.28
2925 15653 3.674955 GCTCAAAGAAACAACAAACCGGT 60.675 43.478 0.00 0.00 0.00 5.28
2926 15654 3.839293 TCAAAGAAACAACAAACCGGTG 58.161 40.909 8.52 0.00 0.00 4.94
2928 15656 3.497297 AAGAAACAACAAACCGGTGAC 57.503 42.857 8.52 0.00 0.00 3.67
2931 15659 1.770294 AACAACAAACCGGTGACCAT 58.230 45.000 8.52 0.00 0.00 3.55
2933 15661 0.237235 CAACAAACCGGTGACCATCG 59.763 55.000 8.52 0.00 34.09 3.84
2934 15662 1.512156 AACAAACCGGTGACCATCGC 61.512 55.000 8.52 0.00 32.70 4.58
2936 15664 1.228003 AAACCGGTGACCATCGCAA 60.228 52.632 8.52 0.00 32.70 4.85
2937 15665 0.608035 AAACCGGTGACCATCGCAAT 60.608 50.000 8.52 0.00 32.70 3.56
2938 15666 0.250793 AACCGGTGACCATCGCAATA 59.749 50.000 8.52 0.00 32.70 1.90
2940 15668 0.179084 CCGGTGACCATCGCAATAGT 60.179 55.000 1.11 0.00 32.70 2.12
2943 15671 1.593006 GGTGACCATCGCAATAGTTCG 59.407 52.381 0.00 0.00 0.00 3.95
2944 15672 1.593006 GTGACCATCGCAATAGTTCGG 59.407 52.381 0.00 0.00 0.00 4.30
2951 15679 3.710233 GCAATAGTTCGGCGATTCG 57.290 52.632 11.76 0.62 0.00 3.34
2952 15680 0.232303 GCAATAGTTCGGCGATTCGG 59.768 55.000 11.76 0.00 0.00 4.30
2953 15681 1.567504 CAATAGTTCGGCGATTCGGT 58.432 50.000 11.76 0.00 0.00 4.69
2954 15682 1.257936 CAATAGTTCGGCGATTCGGTG 59.742 52.381 11.76 3.06 0.00 4.94
2955 15683 0.874607 ATAGTTCGGCGATTCGGTGC 60.875 55.000 11.76 0.00 0.00 5.01
2961 15689 2.742372 GCGATTCGGTGCCACAGT 60.742 61.111 8.34 0.00 0.00 3.55
2964 15692 1.787847 GATTCGGTGCCACAGTTCG 59.212 57.895 0.00 0.00 0.00 3.95
2971 15699 2.434185 GCCACAGTTCGGCGATCA 60.434 61.111 19.04 0.00 40.35 2.92
2972 15700 2.032634 GCCACAGTTCGGCGATCAA 61.033 57.895 19.04 0.00 40.35 2.57
2973 15701 1.573829 GCCACAGTTCGGCGATCAAA 61.574 55.000 19.04 0.00 40.35 2.69
2974 15702 1.086696 CCACAGTTCGGCGATCAAAT 58.913 50.000 19.04 0.00 0.00 2.32
2975 15703 2.276201 CCACAGTTCGGCGATCAAATA 58.724 47.619 19.04 0.00 0.00 1.40
2976 15704 2.675844 CCACAGTTCGGCGATCAAATAA 59.324 45.455 19.04 0.00 0.00 1.40
2978 15706 4.378978 CCACAGTTCGGCGATCAAATAAAA 60.379 41.667 19.04 0.00 0.00 1.52
2979 15707 4.788100 CACAGTTCGGCGATCAAATAAAAG 59.212 41.667 19.04 0.00 0.00 2.27
2980 15708 4.142687 ACAGTTCGGCGATCAAATAAAAGG 60.143 41.667 19.04 0.00 0.00 3.11
2982 15710 4.094442 AGTTCGGCGATCAAATAAAAGGAC 59.906 41.667 19.04 6.11 0.00 3.85
2983 15711 3.601435 TCGGCGATCAAATAAAAGGACA 58.399 40.909 4.99 0.00 0.00 4.02
2985 15713 3.680789 GGCGATCAAATAAAAGGACACG 58.319 45.455 0.00 0.00 0.00 4.49
2986 15714 3.098636 GCGATCAAATAAAAGGACACGC 58.901 45.455 0.00 0.00 34.54 5.34
2987 15715 3.425625 GCGATCAAATAAAAGGACACGCA 60.426 43.478 0.00 0.00 38.54 5.24
2988 15716 4.334443 CGATCAAATAAAAGGACACGCAG 58.666 43.478 0.00 0.00 0.00 5.18
2990 15718 5.062934 CGATCAAATAAAAGGACACGCAGTA 59.937 40.000 0.00 0.00 41.61 2.74
2991 15719 5.856126 TCAAATAAAAGGACACGCAGTAG 57.144 39.130 0.00 0.00 41.61 2.57
2993 15721 5.761234 TCAAATAAAAGGACACGCAGTAGTT 59.239 36.000 0.00 0.00 41.61 2.24
2994 15722 5.857822 AATAAAAGGACACGCAGTAGTTC 57.142 39.130 0.00 0.00 41.61 3.01
2996 15724 0.038526 AAGGACACGCAGTAGTTCGG 60.039 55.000 0.00 0.00 41.61 4.30
2997 15725 2.092882 GGACACGCAGTAGTTCGGC 61.093 63.158 0.00 0.00 41.61 5.54
3003 15731 2.650163 GCAGTAGTTCGGCGTACAG 58.350 57.895 18.71 6.79 0.00 2.74
3004 15732 0.169672 GCAGTAGTTCGGCGTACAGA 59.830 55.000 18.71 3.42 0.00 3.41
3006 15734 2.923605 GCAGTAGTTCGGCGTACAGAAA 60.924 50.000 18.71 0.00 0.00 2.52
3008 15736 3.364023 CAGTAGTTCGGCGTACAGAAAAG 59.636 47.826 18.71 0.19 0.00 2.27
3012 15740 2.074547 TCGGCGTACAGAAAAGGAAG 57.925 50.000 6.85 0.00 0.00 3.46
3013 15741 1.076332 CGGCGTACAGAAAAGGAAGG 58.924 55.000 0.00 0.00 0.00 3.46
3016 15744 2.678336 GGCGTACAGAAAAGGAAGGATG 59.322 50.000 0.00 0.00 0.00 3.51
3017 15745 2.096013 GCGTACAGAAAAGGAAGGATGC 59.904 50.000 0.00 0.00 0.00 3.91
3018 15746 2.348666 CGTACAGAAAAGGAAGGATGCG 59.651 50.000 0.00 0.00 0.00 4.73
3019 15747 1.826385 ACAGAAAAGGAAGGATGCGG 58.174 50.000 0.00 0.00 0.00 5.69
3021 15749 2.224769 ACAGAAAAGGAAGGATGCGGAA 60.225 45.455 0.00 0.00 0.00 4.30
3022 15750 2.421424 CAGAAAAGGAAGGATGCGGAAG 59.579 50.000 0.00 0.00 0.00 3.46
3023 15751 1.745653 GAAAAGGAAGGATGCGGAAGG 59.254 52.381 0.00 0.00 0.00 3.46
3024 15752 0.991920 AAAGGAAGGATGCGGAAGGA 59.008 50.000 0.00 0.00 0.00 3.36
3025 15753 0.543749 AAGGAAGGATGCGGAAGGAG 59.456 55.000 0.00 0.00 32.19 3.69
3026 15754 0.618968 AGGAAGGATGCGGAAGGAGT 60.619 55.000 0.00 0.00 32.19 3.85
3027 15755 1.120530 GGAAGGATGCGGAAGGAGTA 58.879 55.000 0.00 0.00 32.19 2.59
3028 15756 1.202545 GGAAGGATGCGGAAGGAGTAC 60.203 57.143 0.00 0.00 32.19 2.73
3029 15757 1.480954 GAAGGATGCGGAAGGAGTACA 59.519 52.381 0.00 0.00 32.19 2.90
3030 15758 1.794714 AGGATGCGGAAGGAGTACAT 58.205 50.000 0.00 0.00 32.19 2.29
3031 15759 1.689273 AGGATGCGGAAGGAGTACATC 59.311 52.381 0.00 0.00 37.09 3.06
3033 15761 2.158957 GGATGCGGAAGGAGTACATCAA 60.159 50.000 0.00 0.00 39.08 2.57
3034 15762 3.531538 GATGCGGAAGGAGTACATCAAA 58.468 45.455 0.00 0.00 37.62 2.69
3036 15764 1.659098 GCGGAAGGAGTACATCAAACG 59.341 52.381 0.00 0.00 0.00 3.60
3037 15765 2.929592 GCGGAAGGAGTACATCAAACGT 60.930 50.000 0.00 0.00 0.00 3.99
3038 15766 2.921754 CGGAAGGAGTACATCAAACGTC 59.078 50.000 0.00 0.00 0.00 4.34
3039 15767 2.921754 GGAAGGAGTACATCAAACGTCG 59.078 50.000 0.00 0.00 0.00 5.12
3040 15768 3.366679 GGAAGGAGTACATCAAACGTCGA 60.367 47.826 0.00 0.00 0.00 4.20
3041 15769 3.489180 AGGAGTACATCAAACGTCGAG 57.511 47.619 0.00 0.00 0.00 4.04
3044 15772 2.847133 GAGTACATCAAACGTCGAGCTC 59.153 50.000 2.73 2.73 0.00 4.09
3045 15773 2.228103 AGTACATCAAACGTCGAGCTCA 59.772 45.455 15.40 0.00 0.00 4.26
3046 15774 2.148916 ACATCAAACGTCGAGCTCAA 57.851 45.000 15.40 0.00 0.00 3.02
3047 15775 1.792949 ACATCAAACGTCGAGCTCAAC 59.207 47.619 15.40 4.23 0.00 3.18
3050 15778 0.784778 CAAACGTCGAGCTCAACCTC 59.215 55.000 15.40 0.00 0.00 3.85
3051 15779 0.319641 AAACGTCGAGCTCAACCTCC 60.320 55.000 15.40 0.00 0.00 4.30
3052 15780 2.202492 CGTCGAGCTCAACCTCCG 60.202 66.667 15.40 0.00 0.00 4.63
3053 15781 2.182030 GTCGAGCTCAACCTCCGG 59.818 66.667 15.40 0.00 0.00 5.14
3054 15782 3.760035 TCGAGCTCAACCTCCGGC 61.760 66.667 15.40 0.00 0.00 6.13
3056 15784 4.821589 GAGCTCAACCTCCGGCGG 62.822 72.222 22.51 22.51 0.00 6.13
3087 15815 3.766691 GTACGCGGGCTGGAAGGA 61.767 66.667 12.47 0.00 0.00 3.36
3091 15819 4.821589 GCGGGCTGGAAGGAGTCG 62.822 72.222 0.00 0.00 0.00 4.18
3092 15820 4.148825 CGGGCTGGAAGGAGTCGG 62.149 72.222 0.00 0.00 0.00 4.79
3093 15821 4.475135 GGGCTGGAAGGAGTCGGC 62.475 72.222 0.00 0.00 0.00 5.54
3162 15890 4.492160 GTCGCGGAGGCATCGTCA 62.492 66.667 6.13 0.00 39.92 4.35
3163 15891 3.527427 TCGCGGAGGCATCGTCAT 61.527 61.111 6.13 0.00 39.92 3.06
3164 15892 3.032609 CGCGGAGGCATCGTCATC 61.033 66.667 0.00 0.00 39.92 2.92
3166 15894 1.953138 GCGGAGGCATCGTCATCAG 60.953 63.158 0.00 0.00 39.62 2.90
3167 15895 1.953138 CGGAGGCATCGTCATCAGC 60.953 63.158 0.00 0.00 0.00 4.26
3170 15898 3.414272 GGCATCGTCATCAGCCAC 58.586 61.111 0.00 0.00 46.26 5.01
3171 15899 2.182842 GGCATCGTCATCAGCCACC 61.183 63.158 0.00 0.00 46.26 4.61
3172 15900 2.528743 GCATCGTCATCAGCCACCG 61.529 63.158 0.00 0.00 0.00 4.94
3173 15901 1.884464 CATCGTCATCAGCCACCGG 60.884 63.158 0.00 0.00 0.00 5.28
3174 15902 3.094062 ATCGTCATCAGCCACCGGG 62.094 63.158 6.32 0.00 37.18 5.73
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.351017 CCAAGTCTTAGGGCAACTCCA 59.649 52.381 0.00 0.00 36.21 3.86
53 54 1.622811 TGGGCCACACCATTGAAATTC 59.377 47.619 0.00 0.00 42.05 2.17
112 162 1.760613 CCCAATAACAGCGAGACCCTA 59.239 52.381 0.00 0.00 0.00 3.53
537 3989 1.696097 GGTGCTGATGACCCCCGTAT 61.696 60.000 0.00 0.00 0.00 3.06
538 3990 2.363975 GGTGCTGATGACCCCCGTA 61.364 63.158 0.00 0.00 0.00 4.02
539 3991 3.717294 GGTGCTGATGACCCCCGT 61.717 66.667 0.00 0.00 0.00 5.28
598 7825 2.903855 GCATGAGGTCGGCATGGG 60.904 66.667 0.00 0.00 42.53 4.00
679 7932 6.748658 CGATTGATTGCATCTTGTTACAACAT 59.251 34.615 0.00 0.00 38.95 2.71
751 8037 3.476552 TCAGTTTTGTAGCCAACCAGAG 58.523 45.455 0.00 0.00 0.00 3.35
774 8064 1.753073 GGCAAATGCAGACTTGGCTAT 59.247 47.619 19.24 0.00 42.95 2.97
903 8260 5.004440 GTCTACATGTGGCGTATATAATGCG 59.996 44.000 9.11 0.00 41.38 4.73
925 8550 0.737715 GACTGGACTGGACATGCGTC 60.738 60.000 0.00 0.00 41.80 5.19
1003 8653 1.527433 CTCTCCACCACTGTCGCTGA 61.527 60.000 0.00 0.00 0.00 4.26
1009 8659 1.843376 CCCACCTCTCCACCACTGT 60.843 63.158 0.00 0.00 0.00 3.55
1095 8746 0.456628 GTAGAGGCAGAAGGTCGGTC 59.543 60.000 0.00 0.00 0.00 4.79
1097 8748 0.684805 AGGTAGAGGCAGAAGGTCGG 60.685 60.000 0.00 0.00 0.00 4.79
1098 8749 0.741915 GAGGTAGAGGCAGAAGGTCG 59.258 60.000 0.00 0.00 0.00 4.79
1106 8757 0.904865 CAGGTGGTGAGGTAGAGGCA 60.905 60.000 0.00 0.00 0.00 4.75
1295 8968 1.448497 GTTGTCCACGGAGACCCAA 59.552 57.895 4.84 0.00 35.83 4.12
1296 8969 2.513259 GGTTGTCCACGGAGACCCA 61.513 63.158 7.14 0.00 35.83 4.51
1311 8984 0.469331 TCAGTGACCTCCTCGTGGTT 60.469 55.000 2.99 0.00 38.03 3.67
1422 9096 1.172175 GAAGACGACCCGGTAGAAGT 58.828 55.000 4.47 0.00 0.00 3.01
1574 9248 2.597217 CCAGACGCTTTTGCCCCA 60.597 61.111 0.00 0.00 43.93 4.96
1677 9357 4.043596 AGTATTCCTTGCTCTCCTGGAAT 58.956 43.478 10.37 10.37 46.94 3.01
1830 9519 2.981859 ACTCGGTGTTGTTCTTGACT 57.018 45.000 0.00 0.00 0.00 3.41
1973 9662 1.069049 ACTTGGGCTTGTCATTGTTGC 59.931 47.619 0.00 0.00 0.00 4.17
1978 9667 2.159382 CGGTAACTTGGGCTTGTCATT 58.841 47.619 0.00 0.00 0.00 2.57
1993 9682 2.228059 CTTCTCCGGCTCTATCGGTAA 58.772 52.381 0.00 0.00 46.82 2.85
2059 9748 0.960364 CAAGCATACCACAGCCCGTT 60.960 55.000 0.00 0.00 0.00 4.44
2072 9761 1.376424 CGCTCACCTCCACAAGCAT 60.376 57.895 0.00 0.00 34.39 3.79
2079 9768 0.687427 TGATGATCCGCTCACCTCCA 60.687 55.000 0.00 0.00 36.48 3.86
2181 9870 1.216064 TGAAGCCCTCATACCAGCAT 58.784 50.000 0.00 0.00 0.00 3.79
2185 9874 2.879756 GCACTTTGAAGCCCTCATACCA 60.880 50.000 0.00 0.00 32.78 3.25
2187 9876 2.680339 GAGCACTTTGAAGCCCTCATAC 59.320 50.000 0.00 0.00 32.78 2.39
2189 9878 1.831580 GAGCACTTTGAAGCCCTCAT 58.168 50.000 0.00 0.00 32.78 2.90
2269 11623 0.528017 GCGACATGTCAGTCTCCTCA 59.472 55.000 24.93 0.00 36.38 3.86
2421 11964 2.379005 TCTTCGCTTGAGCATCCTCTA 58.621 47.619 3.65 0.00 42.21 2.43
2428 11980 2.238942 TGACTTTCTTCGCTTGAGCA 57.761 45.000 3.65 0.00 42.21 4.26
2445 11997 3.576118 CTGTGTCTCCTCTTTCTCCTTGA 59.424 47.826 0.00 0.00 0.00 3.02
2555 12132 4.457257 GCTCACTCATTTTACTTGGCTTCT 59.543 41.667 0.00 0.00 0.00 2.85
2604 12184 5.093169 TGCATTAAACACTGCATTTTTGC 57.907 34.783 0.00 9.93 43.11 3.68
2649 12246 7.446625 AGCAACATTACAAGTGAGAGAAGAAAT 59.553 33.333 0.00 0.00 0.00 2.17
2707 12304 8.293867 GGTAAAGCATGTGTTTGTTATTACAGA 58.706 33.333 0.00 0.00 35.28 3.41
2714 12311 6.016943 GGTGTAGGTAAAGCATGTGTTTGTTA 60.017 38.462 0.00 0.00 0.00 2.41
2717 12322 4.277174 TGGTGTAGGTAAAGCATGTGTTTG 59.723 41.667 0.00 0.00 0.00 2.93
2720 12325 3.780804 TGGTGTAGGTAAAGCATGTGT 57.219 42.857 0.00 0.00 0.00 3.72
2725 12330 2.888414 GCCTTTTGGTGTAGGTAAAGCA 59.112 45.455 0.00 0.00 42.99 3.91
2750 12355 1.880340 CGAACGGCTGGAGATGCTC 60.880 63.158 0.00 0.00 0.00 4.26
2752 12357 2.892425 CCGAACGGCTGGAGATGC 60.892 66.667 0.00 0.00 0.00 3.91
2773 12378 3.747976 CTTTTTCGGCGCCCTGGG 61.748 66.667 23.46 8.86 0.00 4.45
2774 12379 2.671619 TCTTTTTCGGCGCCCTGG 60.672 61.111 23.46 7.26 0.00 4.45
2775 12380 2.870372 CTCTTTTTCGGCGCCCTG 59.130 61.111 23.46 8.15 0.00 4.45
2777 12382 4.460873 CGCTCTTTTTCGGCGCCC 62.461 66.667 23.46 2.84 42.28 6.13
2778 12383 4.460873 CCGCTCTTTTTCGGCGCC 62.461 66.667 19.07 19.07 46.29 6.53
2783 12388 2.690778 CCCAGGCCGCTCTTTTTCG 61.691 63.158 0.00 0.00 0.00 3.46
2785 12390 2.283173 CCCCAGGCCGCTCTTTTT 60.283 61.111 0.00 0.00 0.00 1.94
2786 12391 4.366684 CCCCCAGGCCGCTCTTTT 62.367 66.667 0.00 0.00 0.00 2.27
2807 12412 2.355244 GACCGATCTAGCGCCAGC 60.355 66.667 2.29 0.00 45.58 4.85
2808 12413 2.336809 GGACCGATCTAGCGCCAG 59.663 66.667 2.29 0.00 0.00 4.85
2810 12415 2.913060 AGGGACCGATCTAGCGCC 60.913 66.667 2.29 0.00 0.00 6.53
2811 12416 2.336809 CAGGGACCGATCTAGCGC 59.663 66.667 0.00 0.00 0.00 5.92
2812 12417 2.565645 CCCAGGGACCGATCTAGCG 61.566 68.421 0.00 0.00 0.00 4.26
2813 12418 2.210711 CCCCAGGGACCGATCTAGC 61.211 68.421 7.25 0.00 37.50 3.42
2815 12420 0.398098 GAACCCCAGGGACCGATCTA 60.398 60.000 7.25 0.00 38.96 1.98
2817 12422 2.908796 GAACCCCAGGGACCGATC 59.091 66.667 7.25 0.00 38.96 3.69
2818 12423 3.081409 CGAACCCCAGGGACCGAT 61.081 66.667 7.25 0.00 38.96 4.18
2819 12424 4.626402 ACGAACCCCAGGGACCGA 62.626 66.667 21.68 0.00 38.96 4.69
2820 12425 3.186656 AAACGAACCCCAGGGACCG 62.187 63.158 7.25 14.01 38.96 4.79
2821 12426 1.303074 GAAACGAACCCCAGGGACC 60.303 63.158 7.25 0.00 38.96 4.46
2822 12427 0.321387 GAGAAACGAACCCCAGGGAC 60.321 60.000 7.25 2.21 38.96 4.46
2823 12428 1.486145 GGAGAAACGAACCCCAGGGA 61.486 60.000 7.25 0.00 38.96 4.20
2825 12430 1.002502 GGGAGAAACGAACCCCAGG 60.003 63.158 0.00 0.00 38.69 4.45
2826 12431 4.716003 GGGAGAAACGAACCCCAG 57.284 61.111 0.00 0.00 38.69 4.45
2829 12434 1.674651 GCTGGGGAGAAACGAACCC 60.675 63.158 0.00 0.00 43.64 4.11
2830 12435 1.674651 GGCTGGGGAGAAACGAACC 60.675 63.158 0.00 0.00 0.00 3.62
2831 12436 1.072505 TGGCTGGGGAGAAACGAAC 59.927 57.895 0.00 0.00 0.00 3.95
2832 12437 1.072505 GTGGCTGGGGAGAAACGAA 59.927 57.895 0.00 0.00 0.00 3.85
2833 12438 2.747686 GTGGCTGGGGAGAAACGA 59.252 61.111 0.00 0.00 0.00 3.85
2834 12439 2.742372 CGTGGCTGGGGAGAAACG 60.742 66.667 0.00 0.00 0.00 3.60
2835 12440 3.056328 GCGTGGCTGGGGAGAAAC 61.056 66.667 0.00 0.00 0.00 2.78
2836 12441 4.344865 GGCGTGGCTGGGGAGAAA 62.345 66.667 0.00 0.00 0.00 2.52
2871 14772 0.818040 GTTCGAATATGGGGCGCCTT 60.818 55.000 28.56 17.19 0.00 4.35
2872 14773 1.227853 GTTCGAATATGGGGCGCCT 60.228 57.895 28.56 9.55 0.00 5.52
2874 14775 1.228657 GGAGTTCGAATATGGGGCGC 61.229 60.000 0.00 0.00 0.00 6.53
2875 14776 0.105964 TGGAGTTCGAATATGGGGCG 59.894 55.000 0.00 0.00 0.00 6.13
2876 14777 2.554032 CAATGGAGTTCGAATATGGGGC 59.446 50.000 0.00 0.00 0.00 5.80
2878 14779 5.221048 GGAAACAATGGAGTTCGAATATGGG 60.221 44.000 0.00 0.00 0.00 4.00
2879 14780 5.504010 CGGAAACAATGGAGTTCGAATATGG 60.504 44.000 0.00 0.00 0.00 2.74
2880 14781 5.501715 CGGAAACAATGGAGTTCGAATATG 58.498 41.667 0.00 0.00 0.00 1.78
2881 14782 4.035208 GCGGAAACAATGGAGTTCGAATAT 59.965 41.667 0.00 0.00 0.00 1.28
2883 14784 2.161609 GCGGAAACAATGGAGTTCGAAT 59.838 45.455 0.00 0.00 0.00 3.34
2884 14785 1.533731 GCGGAAACAATGGAGTTCGAA 59.466 47.619 0.00 0.00 0.00 3.71
2885 14786 1.153353 GCGGAAACAATGGAGTTCGA 58.847 50.000 0.00 0.00 0.00 3.71
2886 14787 1.128692 GAGCGGAAACAATGGAGTTCG 59.871 52.381 0.00 0.00 0.00 3.95
2888 14789 2.270352 TGAGCGGAAACAATGGAGTT 57.730 45.000 0.00 0.00 0.00 3.01
2889 14790 2.270352 TTGAGCGGAAACAATGGAGT 57.730 45.000 0.00 0.00 0.00 3.85
2890 14791 2.813754 TCTTTGAGCGGAAACAATGGAG 59.186 45.455 0.00 0.00 0.00 3.86
2891 14792 2.857483 TCTTTGAGCGGAAACAATGGA 58.143 42.857 0.00 0.00 0.00 3.41
2893 14794 4.954238 GTTTCTTTGAGCGGAAACAATG 57.046 40.909 11.93 0.00 45.92 2.82
2897 14798 3.765026 TGTTGTTTCTTTGAGCGGAAAC 58.235 40.909 10.43 10.43 46.46 2.78
2898 14799 4.442375 TTGTTGTTTCTTTGAGCGGAAA 57.558 36.364 0.00 0.00 0.00 3.13
2899 14800 4.170256 GTTTGTTGTTTCTTTGAGCGGAA 58.830 39.130 0.00 0.00 0.00 4.30
2900 14801 3.428316 GGTTTGTTGTTTCTTTGAGCGGA 60.428 43.478 0.00 0.00 0.00 5.54
2901 14802 2.857748 GGTTTGTTGTTTCTTTGAGCGG 59.142 45.455 0.00 0.00 0.00 5.52
2903 14804 2.857748 CCGGTTTGTTGTTTCTTTGAGC 59.142 45.455 0.00 0.00 0.00 4.26
2905 14806 3.506455 TCACCGGTTTGTTGTTTCTTTGA 59.494 39.130 2.97 0.00 0.00 2.69
2921 15649 0.179084 ACTATTGCGATGGTCACCGG 60.179 55.000 0.00 0.00 0.00 5.28
2922 15650 1.593006 GAACTATTGCGATGGTCACCG 59.407 52.381 3.03 0.00 0.00 4.94
2923 15651 1.593006 CGAACTATTGCGATGGTCACC 59.407 52.381 3.03 0.00 0.00 4.02
2924 15652 1.593006 CCGAACTATTGCGATGGTCAC 59.407 52.381 3.03 1.13 0.00 3.67
2925 15653 1.934589 CCGAACTATTGCGATGGTCA 58.065 50.000 3.03 0.00 0.00 4.02
2926 15654 0.582005 GCCGAACTATTGCGATGGTC 59.418 55.000 3.03 0.00 0.00 4.02
2933 15661 0.232303 CCGAATCGCCGAACTATTGC 59.768 55.000 0.00 0.00 0.00 3.56
2934 15662 1.257936 CACCGAATCGCCGAACTATTG 59.742 52.381 0.00 0.00 0.00 1.90
2936 15664 0.874607 GCACCGAATCGCCGAACTAT 60.875 55.000 0.00 0.00 0.00 2.12
2937 15665 1.517694 GCACCGAATCGCCGAACTA 60.518 57.895 0.00 0.00 0.00 2.24
2938 15666 2.813908 GCACCGAATCGCCGAACT 60.814 61.111 0.00 0.00 0.00 3.01
2944 15672 2.240612 GAACTGTGGCACCGAATCGC 62.241 60.000 16.26 0.00 0.00 4.58
2946 15674 1.635663 CCGAACTGTGGCACCGAATC 61.636 60.000 16.26 11.52 0.00 2.52
2947 15675 1.671054 CCGAACTGTGGCACCGAAT 60.671 57.895 16.26 3.50 0.00 3.34
2948 15676 2.280524 CCGAACTGTGGCACCGAA 60.281 61.111 16.26 0.00 0.00 4.30
2955 15683 1.086696 ATTTGATCGCCGAACTGTGG 58.913 50.000 0.00 0.00 0.00 4.17
2957 15685 4.142687 CCTTTTATTTGATCGCCGAACTGT 60.143 41.667 0.00 0.00 0.00 3.55
2958 15686 4.094294 TCCTTTTATTTGATCGCCGAACTG 59.906 41.667 0.00 0.00 0.00 3.16
2961 15689 4.004314 TGTCCTTTTATTTGATCGCCGAA 58.996 39.130 0.00 0.00 0.00 4.30
2964 15692 3.680789 CGTGTCCTTTTATTTGATCGCC 58.319 45.455 0.00 0.00 0.00 5.54
2966 15694 4.142902 ACTGCGTGTCCTTTTATTTGATCG 60.143 41.667 0.00 0.00 0.00 3.69
2967 15695 5.296813 ACTGCGTGTCCTTTTATTTGATC 57.703 39.130 0.00 0.00 0.00 2.92
2968 15696 5.938125 ACTACTGCGTGTCCTTTTATTTGAT 59.062 36.000 0.00 0.00 0.00 2.57
2971 15699 5.107220 CGAACTACTGCGTGTCCTTTTATTT 60.107 40.000 0.00 0.00 0.00 1.40
2972 15700 4.387862 CGAACTACTGCGTGTCCTTTTATT 59.612 41.667 0.00 0.00 0.00 1.40
2973 15701 3.924686 CGAACTACTGCGTGTCCTTTTAT 59.075 43.478 0.00 0.00 0.00 1.40
2974 15702 3.311106 CGAACTACTGCGTGTCCTTTTA 58.689 45.455 0.00 0.00 0.00 1.52
2975 15703 2.132762 CGAACTACTGCGTGTCCTTTT 58.867 47.619 0.00 0.00 0.00 2.27
2976 15704 1.604693 CCGAACTACTGCGTGTCCTTT 60.605 52.381 0.00 0.00 0.00 3.11
2978 15706 1.585006 CCGAACTACTGCGTGTCCT 59.415 57.895 0.00 0.00 0.00 3.85
2979 15707 2.092882 GCCGAACTACTGCGTGTCC 61.093 63.158 0.00 0.00 0.00 4.02
2980 15708 2.434134 CGCCGAACTACTGCGTGTC 61.434 63.158 0.00 0.00 44.68 3.67
2985 15713 0.169672 TCTGTACGCCGAACTACTGC 59.830 55.000 0.00 0.00 0.00 4.40
2986 15714 2.624316 TTCTGTACGCCGAACTACTG 57.376 50.000 0.00 0.00 0.00 2.74
2987 15715 3.572584 CTTTTCTGTACGCCGAACTACT 58.427 45.455 0.00 0.00 0.00 2.57
2988 15716 2.665052 CCTTTTCTGTACGCCGAACTAC 59.335 50.000 0.00 0.00 0.00 2.73
2989 15717 2.557924 TCCTTTTCTGTACGCCGAACTA 59.442 45.455 0.00 0.00 0.00 2.24
2990 15718 1.342174 TCCTTTTCTGTACGCCGAACT 59.658 47.619 0.00 0.00 0.00 3.01
2991 15719 1.787012 TCCTTTTCTGTACGCCGAAC 58.213 50.000 0.00 0.00 0.00 3.95
2993 15721 1.337447 CCTTCCTTTTCTGTACGCCGA 60.337 52.381 0.00 0.00 0.00 5.54
2994 15722 1.076332 CCTTCCTTTTCTGTACGCCG 58.924 55.000 0.00 0.00 0.00 6.46
2996 15724 2.096013 GCATCCTTCCTTTTCTGTACGC 59.904 50.000 0.00 0.00 0.00 4.42
2997 15725 2.348666 CGCATCCTTCCTTTTCTGTACG 59.651 50.000 0.00 0.00 0.00 3.67
2998 15726 2.678336 CCGCATCCTTCCTTTTCTGTAC 59.322 50.000 0.00 0.00 0.00 2.90
2999 15727 2.569853 TCCGCATCCTTCCTTTTCTGTA 59.430 45.455 0.00 0.00 0.00 2.74
3000 15728 1.351017 TCCGCATCCTTCCTTTTCTGT 59.649 47.619 0.00 0.00 0.00 3.41
3003 15731 1.745653 CCTTCCGCATCCTTCCTTTTC 59.254 52.381 0.00 0.00 0.00 2.29
3004 15732 1.354368 TCCTTCCGCATCCTTCCTTTT 59.646 47.619 0.00 0.00 0.00 2.27
3006 15734 0.543749 CTCCTTCCGCATCCTTCCTT 59.456 55.000 0.00 0.00 0.00 3.36
3008 15736 1.120530 TACTCCTTCCGCATCCTTCC 58.879 55.000 0.00 0.00 0.00 3.46
3012 15740 1.412710 TGATGTACTCCTTCCGCATCC 59.587 52.381 0.00 0.00 36.17 3.51
3013 15741 2.890808 TGATGTACTCCTTCCGCATC 57.109 50.000 0.00 0.00 37.17 3.91
3016 15744 1.659098 CGTTTGATGTACTCCTTCCGC 59.341 52.381 0.00 0.00 0.00 5.54
3017 15745 2.921754 GACGTTTGATGTACTCCTTCCG 59.078 50.000 0.00 0.00 0.00 4.30
3018 15746 2.921754 CGACGTTTGATGTACTCCTTCC 59.078 50.000 0.00 0.00 0.00 3.46
3019 15747 3.829948 TCGACGTTTGATGTACTCCTTC 58.170 45.455 0.00 0.00 0.00 3.46
3021 15749 2.415625 GCTCGACGTTTGATGTACTCCT 60.416 50.000 0.00 0.00 0.00 3.69
3022 15750 1.918609 GCTCGACGTTTGATGTACTCC 59.081 52.381 0.00 0.00 0.00 3.85
3023 15751 2.847133 GAGCTCGACGTTTGATGTACTC 59.153 50.000 0.00 0.00 0.00 2.59
3024 15752 2.228103 TGAGCTCGACGTTTGATGTACT 59.772 45.455 9.64 0.00 0.00 2.73
3025 15753 2.592194 TGAGCTCGACGTTTGATGTAC 58.408 47.619 9.64 0.00 0.00 2.90
3026 15754 2.984471 GTTGAGCTCGACGTTTGATGTA 59.016 45.455 18.28 0.00 0.00 2.29
3027 15755 1.792949 GTTGAGCTCGACGTTTGATGT 59.207 47.619 18.28 0.00 0.00 3.06
3028 15756 1.126846 GGTTGAGCTCGACGTTTGATG 59.873 52.381 24.65 0.00 0.00 3.07
3029 15757 1.000955 AGGTTGAGCTCGACGTTTGAT 59.999 47.619 24.65 6.42 0.00 2.57
3030 15758 0.387929 AGGTTGAGCTCGACGTTTGA 59.612 50.000 24.65 0.00 0.00 2.69
3031 15759 0.784778 GAGGTTGAGCTCGACGTTTG 59.215 55.000 25.98 0.00 0.00 2.93
3033 15761 1.289380 GGAGGTTGAGCTCGACGTT 59.711 57.895 25.98 17.57 0.00 3.99
3034 15762 2.963371 GGAGGTTGAGCTCGACGT 59.037 61.111 25.64 25.64 0.00 4.34
3070 15798 3.718210 CTCCTTCCAGCCCGCGTAC 62.718 68.421 4.92 0.00 0.00 3.67
3071 15799 3.458163 CTCCTTCCAGCCCGCGTA 61.458 66.667 4.92 0.00 0.00 4.42
3073 15801 4.821589 GACTCCTTCCAGCCCGCG 62.822 72.222 0.00 0.00 0.00 6.46
3075 15803 4.148825 CCGACTCCTTCCAGCCCG 62.149 72.222 0.00 0.00 0.00 6.13
3076 15804 4.475135 GCCGACTCCTTCCAGCCC 62.475 72.222 0.00 0.00 0.00 5.19
3119 15847 4.873129 CCACCGACGATGCCTCCG 62.873 72.222 0.00 0.00 0.00 4.63
3125 15853 4.838152 CCAGCCCCACCGACGATG 62.838 72.222 0.00 0.00 0.00 3.84
3145 15873 3.774959 ATGACGATGCCTCCGCGAC 62.775 63.158 8.23 0.00 38.08 5.19
3147 15875 3.032609 GATGACGATGCCTCCGCG 61.033 66.667 0.00 0.00 38.08 6.46
3149 15877 1.953138 GCTGATGACGATGCCTCCG 60.953 63.158 0.00 0.00 0.00 4.63
3152 15880 1.153289 GTGGCTGATGACGATGCCT 60.153 57.895 0.00 0.00 45.11 4.75
3156 15884 2.501128 CCGGTGGCTGATGACGAT 59.499 61.111 0.00 0.00 0.00 3.73
3157 15885 3.770040 CCCGGTGGCTGATGACGA 61.770 66.667 0.00 0.00 0.00 4.20


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

AutoCloner maintained by Alex Coulton.