Multiple sequence alignment - TraesCS1B01G389200

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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 TraesCS1B01G389200 chr1B 100.000 4241 0 0 1 4241 622709876 622705636 0.000000e+00 7832.0
1 TraesCS1B01G389200 chr1B 77.011 348 70 8 103 446 432277267 432276926 1.560000e-44 191.0
2 TraesCS1B01G389200 chr1B 100.000 47 0 0 2496 2542 622707335 622707289 2.100000e-13 87.9
3 TraesCS1B01G389200 chr1B 100.000 47 0 0 2542 2588 622707381 622707335 2.100000e-13 87.9
4 TraesCS1B01G389200 chr1A 89.552 1340 69 25 2542 3850 547392523 547391224 0.000000e+00 1633.0
5 TraesCS1B01G389200 chr1A 93.018 931 43 8 1633 2542 547393406 547392477 0.000000e+00 1339.0
6 TraesCS1B01G389200 chr1A 92.494 826 35 10 1738 2544 547414010 547413193 0.000000e+00 1157.0
7 TraesCS1B01G389200 chr1A 83.969 1048 70 47 646 1642 547396191 547395191 0.000000e+00 915.0
8 TraesCS1B01G389200 chr1A 90.253 554 41 5 2905 3458 547411124 547410584 0.000000e+00 712.0
9 TraesCS1B01G389200 chr1A 83.001 853 56 30 619 1434 547417796 547416996 0.000000e+00 689.0
10 TraesCS1B01G389200 chr1A 94.220 346 14 2 2542 2884 547413241 547412899 1.350000e-144 523.0
11 TraesCS1B01G389200 chr1A 93.939 198 9 2 3875 4070 547391241 547391045 3.210000e-76 296.0
12 TraesCS1B01G389200 chr1A 86.154 130 6 5 684 809 547501541 547501420 3.440000e-26 130.0
13 TraesCS1B01G389200 chr1A 82.639 144 22 3 3854 3995 155857848 155857706 1.600000e-24 124.0
14 TraesCS1B01G389200 chr1D 93.848 1024 58 4 2533 3553 452626126 452625105 0.000000e+00 1537.0
15 TraesCS1B01G389200 chr1D 93.293 835 35 5 1729 2542 452626902 452626068 0.000000e+00 1212.0
16 TraesCS1B01G389200 chr1D 87.465 1085 58 33 619 1663 452627945 452626899 0.000000e+00 1179.0
17 TraesCS1B01G389200 chr1D 91.935 310 19 3 3936 4240 452624411 452624103 3.030000e-116 429.0
18 TraesCS1B01G389200 chr1D 86.747 249 9 6 3621 3850 452625065 452624822 5.440000e-64 255.0
19 TraesCS1B01G389200 chr1D 80.734 327 56 6 9 335 319438793 319438474 9.110000e-62 248.0
20 TraesCS1B01G389200 chr3B 89.567 623 61 4 1 623 145683877 145683259 0.000000e+00 787.0
21 TraesCS1B01G389200 chr3B 88.091 613 69 4 6 618 145685912 145686520 0.000000e+00 725.0
22 TraesCS1B01G389200 chr4B 83.482 896 92 31 2591 3467 115846226 115845368 0.000000e+00 784.0
23 TraesCS1B01G389200 chr4B 83.851 805 90 22 1730 2514 115847029 115846245 0.000000e+00 730.0
24 TraesCS1B01G389200 chr4B 82.016 734 90 25 1765 2473 115880795 115880079 1.700000e-163 586.0
25 TraesCS1B01G389200 chr4B 78.410 843 106 49 817 1632 115848189 115847396 2.970000e-131 479.0
26 TraesCS1B01G389200 chr4B 98.611 144 2 0 1126 1269 115881536 115881393 5.440000e-64 255.0
27 TraesCS1B01G389200 chr4A 84.407 776 79 20 1780 2530 491916549 491915791 0.000000e+00 725.0
28 TraesCS1B01G389200 chr4A 87.520 617 71 6 6 620 464888360 464887748 0.000000e+00 708.0
29 TraesCS1B01G389200 chr4A 82.650 732 90 24 1765 2473 492031636 492030919 7.790000e-172 614.0
30 TraesCS1B01G389200 chr4A 85.010 487 41 21 817 1280 491917814 491917337 2.310000e-127 466.0
31 TraesCS1B01G389200 chr4A 89.636 357 30 5 2926 3282 491915428 491915079 8.360000e-122 448.0
32 TraesCS1B01G389200 chr4A 91.667 288 24 0 2957 3244 492030485 492030198 2.380000e-107 399.0
33 TraesCS1B01G389200 chr4A 84.776 335 28 14 2573 2905 491915801 491915488 8.850000e-82 315.0
34 TraesCS1B01G389200 chr4A 97.945 146 3 0 1124 1269 492032398 492032253 1.960000e-63 254.0
35 TraesCS1B01G389200 chr4A 83.525 261 27 11 1375 1632 491917243 491916996 3.300000e-56 230.0
36 TraesCS1B01G389200 chr4A 82.251 231 32 6 814 1037 492032721 492032493 1.560000e-44 191.0
37 TraesCS1B01G389200 chr4A 90.000 60 5 1 3409 3467 491915068 491915009 4.550000e-10 76.8
38 TraesCS1B01G389200 chr4D 86.736 671 59 16 2593 3246 81972388 81971731 0.000000e+00 719.0
39 TraesCS1B01G389200 chr4D 82.377 732 88 26 1765 2473 81986417 81985704 2.180000e-167 599.0
40 TraesCS1B01G389200 chr4D 85.542 581 66 8 1730 2310 81973313 81972751 3.650000e-165 592.0
41 TraesCS1B01G389200 chr4D 86.013 479 45 15 817 1276 81974484 81974009 1.060000e-135 494.0
42 TraesCS1B01G389200 chr4D 80.208 384 42 30 1126 1497 81987316 81986955 1.510000e-64 257.0
43 TraesCS1B01G389200 chr4D 83.333 264 25 13 1375 1632 81973923 81973673 4.270000e-55 226.0
44 TraesCS1B01G389200 chr4D 83.796 216 19 11 2320 2530 81972601 81972397 1.560000e-44 191.0
45 TraesCS1B01G389200 chr4D 76.087 184 21 16 879 1041 81987589 81987408 1.640000e-09 75.0
46 TraesCS1B01G389200 chr5D 83.929 728 73 19 2591 3302 493122212 493122911 0.000000e+00 656.0
47 TraesCS1B01G389200 chr5D 85.178 533 64 7 1730 2262 493121440 493121957 2.240000e-147 532.0
48 TraesCS1B01G389200 chr5D 84.177 316 32 16 1125 1434 299832762 299833065 1.490000e-74 291.0
49 TraesCS1B01G389200 chr5D 77.966 354 28 23 1369 1720 493120966 493121271 4.360000e-40 176.0
50 TraesCS1B01G389200 chr5D 83.916 143 21 2 3854 3995 164604858 164604999 7.400000e-28 135.0
51 TraesCS1B01G389200 chr5D 91.111 45 4 0 1001 1045 299832604 299832648 1.270000e-05 62.1
52 TraesCS1B01G389200 chr5B 81.520 763 95 17 1730 2472 608343329 608344065 1.700000e-163 586.0
53 TraesCS1B01G389200 chr5B 85.193 493 48 13 2811 3302 608344126 608344594 2.290000e-132 483.0
54 TraesCS1B01G389200 chr5B 81.803 610 54 27 1113 1720 608088776 608089330 3.860000e-125 459.0
55 TraesCS1B01G389200 chr5B 82.192 511 60 8 1982 2472 608202829 608203328 1.100000e-110 411.0
56 TraesCS1B01G389200 chr5B 76.227 774 76 53 864 1596 608340531 608341237 1.150000e-80 311.0
57 TraesCS1B01G389200 chr5B 80.603 232 15 11 1369 1596 608200171 608200376 7.340000e-33 152.0
58 TraesCS1B01G389200 chr5B 83.108 148 19 6 3854 3998 403708720 403708576 3.440000e-26 130.0
59 TraesCS1B01G389200 chr5B 97.917 48 1 0 1387 1434 341066796 341066843 2.720000e-12 84.2
60 TraesCS1B01G389200 chr5B 91.111 45 4 0 1001 1045 341062699 341062743 1.270000e-05 62.1
61 TraesCS1B01G389200 chr6D 91.919 297 21 2 7 303 340437044 340437337 3.050000e-111 412.0
62 TraesCS1B01G389200 chr6D 90.968 155 13 1 465 619 340437496 340437649 1.550000e-49 207.0
63 TraesCS1B01G389200 chr5A 84.146 246 21 6 2591 2821 616070859 616071101 5.520000e-54 222.0
64 TraesCS1B01G389200 chr5A 77.904 353 29 22 1369 1720 616069615 616069919 1.570000e-39 174.0
65 TraesCS1B01G389200 chr5A 85.549 173 16 7 2309 2472 616070618 616070790 5.640000e-39 172.0
66 TraesCS1B01G389200 chr5A 95.455 66 3 0 1369 1434 397250108 397250173 5.800000e-19 106.0
67 TraesCS1B01G389200 chr5A 95.122 41 2 0 1001 1041 397249747 397249787 9.840000e-07 65.8
68 TraesCS1B01G389200 chr2D 85.135 148 20 2 3854 4000 122864122 122864268 2.640000e-32 150.0
69 TraesCS1B01G389200 chr2B 84.028 144 19 4 3854 3994 556423954 556423812 7.400000e-28 135.0
70 TraesCS1B01G389200 chr6B 82.877 146 20 5 3854 3997 183308386 183308244 4.450000e-25 126.0
71 TraesCS1B01G389200 chr3D 82.313 147 23 3 3849 3994 76231138 76230994 1.600000e-24 124.0
72 TraesCS1B01G389200 chr3D 82.517 143 22 3 3854 3995 73853099 73853239 5.760000e-24 122.0
73 TraesCS1B01G389200 chr3D 92.500 80 6 0 3750 3829 49039985 49039906 9.640000e-22 115.0


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 TraesCS1B01G389200 chr1B 622705636 622709876 4240 True 2669.266667 7832 100.000000 1 4241 3 chr1B.!!$R2 4240
1 TraesCS1B01G389200 chr1A 547391045 547396191 5146 True 1045.750000 1633 90.119500 646 4070 4 chr1A.!!$R3 3424
2 TraesCS1B01G389200 chr1A 547410584 547417796 7212 True 770.250000 1157 89.992000 619 3458 4 chr1A.!!$R4 2839
3 TraesCS1B01G389200 chr1D 452624103 452627945 3842 True 922.400000 1537 90.657600 619 4240 5 chr1D.!!$R2 3621
4 TraesCS1B01G389200 chr3B 145683259 145683877 618 True 787.000000 787 89.567000 1 623 1 chr3B.!!$R1 622
5 TraesCS1B01G389200 chr3B 145685912 145686520 608 False 725.000000 725 88.091000 6 618 1 chr3B.!!$F1 612
6 TraesCS1B01G389200 chr4B 115845368 115848189 2821 True 664.333333 784 81.914333 817 3467 3 chr4B.!!$R1 2650
7 TraesCS1B01G389200 chr4B 115880079 115881536 1457 True 420.500000 586 90.313500 1126 2473 2 chr4B.!!$R2 1347
8 TraesCS1B01G389200 chr4A 464887748 464888360 612 True 708.000000 708 87.520000 6 620 1 chr4A.!!$R1 614
9 TraesCS1B01G389200 chr4A 491915009 491917814 2805 True 376.800000 725 86.225667 817 3467 6 chr4A.!!$R2 2650
10 TraesCS1B01G389200 chr4A 492030198 492032721 2523 True 364.500000 614 88.628250 814 3244 4 chr4A.!!$R3 2430
11 TraesCS1B01G389200 chr4D 81971731 81974484 2753 True 444.400000 719 85.084000 817 3246 5 chr4D.!!$R1 2429
12 TraesCS1B01G389200 chr4D 81985704 81987589 1885 True 310.333333 599 79.557333 879 2473 3 chr4D.!!$R2 1594
13 TraesCS1B01G389200 chr5D 493120966 493122911 1945 False 454.666667 656 82.357667 1369 3302 3 chr5D.!!$F3 1933
14 TraesCS1B01G389200 chr5B 608340531 608344594 4063 False 460.000000 586 80.980000 864 3302 3 chr5B.!!$F5 2438
15 TraesCS1B01G389200 chr5B 608088776 608089330 554 False 459.000000 459 81.803000 1113 1720 1 chr5B.!!$F3 607
16 TraesCS1B01G389200 chr5B 608200171 608203328 3157 False 281.500000 411 81.397500 1369 2472 2 chr5B.!!$F4 1103
17 TraesCS1B01G389200 chr6D 340437044 340437649 605 False 309.500000 412 91.443500 7 619 2 chr6D.!!$F1 612

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
241 242 0.462047 GGTGGTCGCCTCCATGTAAG 60.462 60.000 10.79 0.0 39.81 2.34 F
1060 1213 0.035152 TCTGGGGTAGCATGCAGTTG 60.035 55.000 21.98 3.2 0.00 3.16 F
1117 1271 1.372582 TGGAGATCTGAATTGTGCGC 58.627 50.000 0.00 0.0 0.00 6.09 F
1317 1505 3.127895 TCTCACGGTTTTGTGTTTTCCTG 59.872 43.478 0.00 0.0 40.74 3.86 F
2964 12394 0.256752 CAATCTGGTGGATGCAGGGA 59.743 55.000 0.00 0.0 34.45 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1076 1229 1.606994 CCGTCCACAAAAGATCGACCA 60.607 52.381 0.00 0.00 0.00 4.02 R
2406 9998 0.992970 TTGATGCCCCAGCCATCCTA 60.993 55.000 0.00 0.00 38.69 2.94 R
2796 10433 2.359107 ATGTGGCCAGTGCACTCG 60.359 61.111 18.64 12.58 40.13 4.18 R
3102 12533 3.243569 CCTTCCTCATGTACATCTCGACC 60.244 52.174 5.07 0.00 0.00 4.79 R
4089 13940 0.249868 TGAGGACAGGTTTCTGCACG 60.250 55.000 0.00 0.00 44.59 5.34 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
55 56 0.684535 TCCAACTTCTCGGCATCACA 59.315 50.000 0.00 0.00 0.00 3.58
157 158 1.961277 GTCACCGTGGTTCCAGCAG 60.961 63.158 0.00 0.00 0.00 4.24
194 195 4.573210 CATCTGGATGCTGTGGGG 57.427 61.111 0.00 0.00 31.39 4.96
199 200 0.548031 CTGGATGCTGTGGGGTGTAT 59.452 55.000 0.00 0.00 0.00 2.29
221 222 8.205512 TGTATAAAAAGTGACTGTAGTGGTGAA 58.794 33.333 0.00 0.00 0.00 3.18
241 242 0.462047 GGTGGTCGCCTCCATGTAAG 60.462 60.000 10.79 0.00 39.81 2.34
254 255 0.908910 ATGTAAGTCCGGCCATCACA 59.091 50.000 2.24 0.00 0.00 3.58
316 317 1.455849 CTTCTGCAGGGGTGGTTGA 59.544 57.895 15.13 0.00 0.00 3.18
375 376 4.393155 CAGGGCGTGGCAGCAGTA 62.393 66.667 10.33 0.00 39.27 2.74
376 377 3.402681 AGGGCGTGGCAGCAGTAT 61.403 61.111 10.33 0.00 39.27 2.12
390 453 1.453155 CAGTATTTTGCTGAGCCGGT 58.547 50.000 1.90 0.00 36.12 5.28
445 510 1.062581 CAGGAGAGAGAGGATTGGGGA 60.063 57.143 0.00 0.00 0.00 4.81
446 511 1.220236 AGGAGAGAGAGGATTGGGGAG 59.780 57.143 0.00 0.00 0.00 4.30
447 512 1.715785 GAGAGAGAGGATTGGGGAGG 58.284 60.000 0.00 0.00 0.00 4.30
468 533 3.504134 GGAGAAAGCAAAGGAGGAAGAAC 59.496 47.826 0.00 0.00 0.00 3.01
472 537 4.926140 AAGCAAAGGAGGAAGAACAAAG 57.074 40.909 0.00 0.00 0.00 2.77
474 539 3.117512 AGCAAAGGAGGAAGAACAAAGGA 60.118 43.478 0.00 0.00 0.00 3.36
483 548 4.127907 GGAAGAACAAAGGAAGAACGAGT 58.872 43.478 0.00 0.00 0.00 4.18
520 585 7.663043 AAAGGAACGAGAGAAGATAAGGTAT 57.337 36.000 0.00 0.00 0.00 2.73
624 689 4.758165 GGTTACAAACGATTCCCTTTCTCA 59.242 41.667 0.00 0.00 0.00 3.27
713 801 2.482796 TACCGTCGACCTGTAGCCCA 62.483 60.000 10.58 0.00 0.00 5.36
745 833 3.562141 TCACAACGTTTTCCACATACCAG 59.438 43.478 0.00 0.00 0.00 4.00
748 836 5.410132 CACAACGTTTTCCACATACCAGATA 59.590 40.000 0.00 0.00 0.00 1.98
749 837 5.410439 ACAACGTTTTCCACATACCAGATAC 59.590 40.000 0.00 0.00 0.00 2.24
750 838 4.510571 ACGTTTTCCACATACCAGATACC 58.489 43.478 0.00 0.00 0.00 2.73
751 839 4.020039 ACGTTTTCCACATACCAGATACCA 60.020 41.667 0.00 0.00 0.00 3.25
752 840 4.331717 CGTTTTCCACATACCAGATACCAC 59.668 45.833 0.00 0.00 0.00 4.16
753 841 5.250200 GTTTTCCACATACCAGATACCACA 58.750 41.667 0.00 0.00 0.00 4.17
758 846 1.070134 CATACCAGATACCACACGGGG 59.930 57.143 0.00 0.00 42.91 5.73
811 899 4.008933 GCAGACAGCCGGACACCT 62.009 66.667 5.05 0.00 37.23 4.00
845 949 4.806936 CTTGCACTCCAAGCCTCA 57.193 55.556 0.00 0.00 43.98 3.86
856 960 4.200092 CTCCAAGCCTCACCTTAATTACC 58.800 47.826 0.00 0.00 0.00 2.85
902 1008 5.066634 CAGTATATATACAGGTCTCAGCCCG 59.933 48.000 22.00 0.00 35.74 6.13
916 1022 4.814294 CCCGGCCTTCGTTCCTCG 62.814 72.222 0.00 0.00 41.41 4.63
926 1032 3.259064 CTTCGTTCCTCGCCAAAATCTA 58.741 45.455 0.00 0.00 39.67 1.98
927 1033 2.613691 TCGTTCCTCGCCAAAATCTAC 58.386 47.619 0.00 0.00 39.67 2.59
928 1034 2.232941 TCGTTCCTCGCCAAAATCTACT 59.767 45.455 0.00 0.00 39.67 2.57
973 1095 2.864946 CAGCGACAGAGATCCATCTTTG 59.135 50.000 5.72 5.72 42.75 2.77
979 1101 5.083533 ACAGAGATCCATCTTTGTGTCTC 57.916 43.478 11.04 0.00 46.56 3.36
980 1102 4.776837 ACAGAGATCCATCTTTGTGTCTCT 59.223 41.667 11.04 0.00 46.56 3.10
981 1103 5.248020 ACAGAGATCCATCTTTGTGTCTCTT 59.752 40.000 11.04 0.00 46.56 2.85
982 1104 5.811613 CAGAGATCCATCTTTGTGTCTCTTC 59.188 44.000 0.00 0.00 38.61 2.87
983 1105 5.721000 AGAGATCCATCTTTGTGTCTCTTCT 59.279 40.000 0.00 0.00 38.00 2.85
986 1108 5.551305 TCCATCTTTGTGTCTCTTCTTCA 57.449 39.130 0.00 0.00 0.00 3.02
987 1109 5.928976 TCCATCTTTGTGTCTCTTCTTCAA 58.071 37.500 0.00 0.00 0.00 2.69
1008 1154 4.148825 GCGACAGGGATGGCGACT 62.149 66.667 7.84 0.00 44.30 4.18
1047 1193 1.484240 TGCAAAGGTTTGTTTCTGGGG 59.516 47.619 4.45 0.00 40.24 4.96
1060 1213 0.035152 TCTGGGGTAGCATGCAGTTG 60.035 55.000 21.98 3.20 0.00 3.16
1076 1229 5.916318 TGCAGTTGGTTTCATCTGATTTTT 58.084 33.333 8.19 0.00 41.07 1.94
1080 1233 6.421801 CAGTTGGTTTCATCTGATTTTTGGTC 59.578 38.462 0.00 0.00 41.07 4.02
1117 1271 1.372582 TGGAGATCTGAATTGTGCGC 58.627 50.000 0.00 0.00 0.00 6.09
1317 1505 3.127895 TCTCACGGTTTTGTGTTTTCCTG 59.872 43.478 0.00 0.00 40.74 3.86
1342 1535 4.525874 TGGGTAAATTGTTGTGATGCATCA 59.474 37.500 25.42 25.42 0.00 3.07
1346 1539 5.456548 AAATTGTTGTGATGCATCAGTGA 57.543 34.783 29.38 15.09 37.51 3.41
1536 4860 8.729805 AGTTTATTCTCTCTGGCTTCTAATTG 57.270 34.615 0.00 0.00 0.00 2.32
1600 4936 6.553953 TCATACCCTACATAAAGCAAGTGA 57.446 37.500 0.00 0.00 0.00 3.41
1601 4937 7.136822 TCATACCCTACATAAAGCAAGTGAT 57.863 36.000 0.00 0.00 0.00 3.06
1752 9046 7.303998 GCATGTTTGCTCTTCATAGATTATCC 58.696 38.462 0.00 0.00 45.77 2.59
1788 9085 6.215845 TCTTTTCACCAAATAGCTTCTTTGC 58.784 36.000 13.31 0.00 33.27 3.68
1825 9122 4.671590 TCGGAGAGGGCGTGACCA 62.672 66.667 0.00 0.00 42.05 4.02
1854 9151 3.820425 GGTGACCATGTCCTCCCA 58.180 61.111 0.00 0.00 0.00 4.37
2208 9644 3.242518 TCGATTAGTTGCTGAGTTGTCG 58.757 45.455 0.00 0.00 0.00 4.35
2360 9948 5.528690 GCTGAAGAGAATTATGTGCACCATA 59.471 40.000 15.69 9.43 34.86 2.74
2387 9979 5.571784 ATGACTGTATGCTTTTGACATGG 57.428 39.130 0.00 0.00 0.00 3.66
2388 9980 4.650734 TGACTGTATGCTTTTGACATGGA 58.349 39.130 0.00 0.00 0.00 3.41
2541 10152 5.437060 AGAACACTGAACCTAACAACATGT 58.563 37.500 0.00 0.00 0.00 3.21
2542 10153 5.885912 AGAACACTGAACCTAACAACATGTT 59.114 36.000 4.92 4.92 43.88 2.71
2543 10154 5.499139 ACACTGAACCTAACAACATGTTG 57.501 39.130 32.03 32.03 41.30 3.33
2544 10155 4.338118 ACACTGAACCTAACAACATGTTGG 59.662 41.667 35.20 23.19 41.30 3.77
2545 10156 3.317993 ACTGAACCTAACAACATGTTGGC 59.682 43.478 35.20 18.37 41.30 4.52
2546 10157 3.291584 TGAACCTAACAACATGTTGGCA 58.708 40.909 35.20 23.44 41.30 4.92
2547 10158 3.701542 TGAACCTAACAACATGTTGGCAA 59.298 39.130 35.20 21.57 41.30 4.52
2548 10159 4.160439 TGAACCTAACAACATGTTGGCAAA 59.840 37.500 35.20 19.47 41.30 3.68
2549 10160 4.953940 ACCTAACAACATGTTGGCAAAT 57.046 36.364 35.20 20.53 41.30 2.32
2550 10161 4.630111 ACCTAACAACATGTTGGCAAATG 58.370 39.130 35.20 22.22 41.30 2.32
2551 10162 4.100808 ACCTAACAACATGTTGGCAAATGT 59.899 37.500 35.20 22.76 41.30 2.71
2552 10163 5.055812 CCTAACAACATGTTGGCAAATGTT 58.944 37.500 35.20 23.80 45.54 2.71
2553 10164 5.526846 CCTAACAACATGTTGGCAAATGTTT 59.473 36.000 35.20 22.28 42.85 2.83
2554 10165 5.893897 AACAACATGTTGGCAAATGTTTT 57.106 30.435 35.20 18.34 42.85 2.43
2555 10166 5.893897 ACAACATGTTGGCAAATGTTTTT 57.106 30.435 35.20 12.73 42.85 1.94
2556 10167 5.638783 ACAACATGTTGGCAAATGTTTTTG 58.361 33.333 35.20 20.13 42.85 2.44
2557 10168 4.897025 ACATGTTGGCAAATGTTTTTGG 57.103 36.364 16.86 0.00 42.09 3.28
2558 10169 4.521146 ACATGTTGGCAAATGTTTTTGGA 58.479 34.783 16.86 0.00 42.09 3.53
2559 10170 5.131784 ACATGTTGGCAAATGTTTTTGGAT 58.868 33.333 16.86 0.08 42.09 3.41
2560 10171 5.593502 ACATGTTGGCAAATGTTTTTGGATT 59.406 32.000 16.86 0.00 42.09 3.01
2561 10172 5.496133 TGTTGGCAAATGTTTTTGGATTG 57.504 34.783 0.00 0.00 42.09 2.67
2562 10173 5.188434 TGTTGGCAAATGTTTTTGGATTGA 58.812 33.333 0.00 0.00 42.09 2.57
2563 10174 5.826737 TGTTGGCAAATGTTTTTGGATTGAT 59.173 32.000 0.00 0.00 42.09 2.57
2564 10175 6.994496 TGTTGGCAAATGTTTTTGGATTGATA 59.006 30.769 0.00 0.00 42.09 2.15
2565 10176 7.172875 TGTTGGCAAATGTTTTTGGATTGATAG 59.827 33.333 0.00 0.00 42.09 2.08
2566 10177 7.002250 TGGCAAATGTTTTTGGATTGATAGA 57.998 32.000 1.13 0.00 42.09 1.98
2567 10178 7.448420 TGGCAAATGTTTTTGGATTGATAGAA 58.552 30.769 1.13 0.00 42.09 2.10
2568 10179 7.387397 TGGCAAATGTTTTTGGATTGATAGAAC 59.613 33.333 1.13 0.00 42.09 3.01
2569 10180 7.387397 GGCAAATGTTTTTGGATTGATAGAACA 59.613 33.333 1.13 0.00 42.09 3.18
2570 10181 8.223100 GCAAATGTTTTTGGATTGATAGAACAC 58.777 33.333 1.13 0.00 42.09 3.32
2571 10182 9.480053 CAAATGTTTTTGGATTGATAGAACACT 57.520 29.630 0.00 0.00 38.85 3.55
2572 10183 9.480053 AAATGTTTTTGGATTGATAGAACACTG 57.520 29.630 0.00 0.00 0.00 3.66
2573 10184 7.815840 TGTTTTTGGATTGATAGAACACTGA 57.184 32.000 0.00 0.00 0.00 3.41
2574 10185 8.231692 TGTTTTTGGATTGATAGAACACTGAA 57.768 30.769 0.00 0.00 0.00 3.02
2575 10186 8.134895 TGTTTTTGGATTGATAGAACACTGAAC 58.865 33.333 0.00 0.00 0.00 3.18
2576 10187 6.817765 TTTGGATTGATAGAACACTGAACC 57.182 37.500 0.00 0.00 0.00 3.62
2577 10188 5.762179 TGGATTGATAGAACACTGAACCT 57.238 39.130 0.00 0.00 0.00 3.50
2578 10189 6.867519 TGGATTGATAGAACACTGAACCTA 57.132 37.500 0.00 0.00 0.00 3.08
2579 10190 7.252612 TGGATTGATAGAACACTGAACCTAA 57.747 36.000 0.00 0.00 0.00 2.69
2580 10191 7.103641 TGGATTGATAGAACACTGAACCTAAC 58.896 38.462 0.00 0.00 0.00 2.34
2581 10192 7.103641 GGATTGATAGAACACTGAACCTAACA 58.896 38.462 0.00 0.00 0.00 2.41
2582 10193 7.606456 GGATTGATAGAACACTGAACCTAACAA 59.394 37.037 0.00 0.00 31.66 2.83
2583 10194 7.724305 TTGATAGAACACTGAACCTAACAAC 57.276 36.000 0.00 0.00 0.00 3.32
2858 10495 2.943449 TGCGTCCATGATGTACGTAA 57.057 45.000 12.02 0.00 38.81 3.18
2964 12394 0.256752 CAATCTGGTGGATGCAGGGA 59.743 55.000 0.00 0.00 34.45 4.20
2970 12400 2.287117 TGGATGCAGGGATGGGGT 60.287 61.111 0.00 0.00 0.00 4.95
3318 12749 8.416485 CTTGAGAAGCAAAAGACAAAGAAAAT 57.584 30.769 0.00 0.00 35.74 1.82
3319 12750 7.760131 TGAGAAGCAAAAGACAAAGAAAATG 57.240 32.000 0.00 0.00 0.00 2.32
3353 12789 9.958125 AGAAATCTCCCCTTGGATAATAATTTT 57.042 29.630 0.00 0.00 40.80 1.82
3360 12796 9.009675 TCCCCTTGGATAATAATTTTCTAGTCA 57.990 33.333 0.00 0.00 35.03 3.41
3391 12827 3.395054 TCATCTCCATGGTCTCAGAGT 57.605 47.619 12.58 0.00 0.00 3.24
3396 12832 2.830923 CTCCATGGTCTCAGAGTGAACT 59.169 50.000 12.58 0.00 0.00 3.01
3398 12834 4.019858 TCCATGGTCTCAGAGTGAACTAG 58.980 47.826 12.58 0.00 0.00 2.57
3553 12990 2.482864 GGTGCCTGGAATTTGTTGTTG 58.517 47.619 0.00 0.00 0.00 3.33
3554 12991 2.158971 GGTGCCTGGAATTTGTTGTTGT 60.159 45.455 0.00 0.00 0.00 3.32
3555 12992 3.530535 GTGCCTGGAATTTGTTGTTGTT 58.469 40.909 0.00 0.00 0.00 2.83
3599 13036 0.311790 TACGACTTGCTTTCGACGGT 59.688 50.000 8.81 0.00 39.83 4.83
3608 13062 1.595794 GCTTTCGACGGTGAGAAAACA 59.404 47.619 8.91 0.00 36.14 2.83
3618 13072 5.547465 ACGGTGAGAAAACATGACTGATTA 58.453 37.500 0.00 0.00 0.00 1.75
3645 13108 2.235402 GACCGATTTTCACCTACCTGGA 59.765 50.000 0.00 0.00 39.71 3.86
3661 13125 2.476821 CTGGAAAAGCAACAGCCAAAG 58.523 47.619 0.00 0.00 0.00 2.77
3749 13230 9.660544 AGGATGGAAAATAAGCTATTGGTTAAT 57.339 29.630 3.02 0.00 39.23 1.40
3761 13242 9.523168 AAGCTATTGGTTAATGGTTAACAGTTA 57.477 29.630 8.10 3.12 45.63 2.24
3846 13328 4.824479 AAAAGGCTGGGTTTCAATATGG 57.176 40.909 0.00 0.00 0.00 2.74
3847 13329 3.756082 AAGGCTGGGTTTCAATATGGA 57.244 42.857 0.00 0.00 0.00 3.41
3848 13330 3.018423 AGGCTGGGTTTCAATATGGAC 57.982 47.619 0.00 0.00 0.00 4.02
3849 13331 2.582636 AGGCTGGGTTTCAATATGGACT 59.417 45.455 0.00 0.00 0.00 3.85
3850 13332 2.952310 GGCTGGGTTTCAATATGGACTC 59.048 50.000 0.00 0.00 0.00 3.36
3851 13333 3.372025 GGCTGGGTTTCAATATGGACTCT 60.372 47.826 0.00 0.00 0.00 3.24
3852 13334 4.141482 GGCTGGGTTTCAATATGGACTCTA 60.141 45.833 0.00 0.00 0.00 2.43
3853 13335 5.456763 GGCTGGGTTTCAATATGGACTCTAT 60.457 44.000 0.00 0.00 0.00 1.98
3854 13336 6.064717 GCTGGGTTTCAATATGGACTCTATT 58.935 40.000 0.00 0.00 0.00 1.73
3855 13337 6.205658 GCTGGGTTTCAATATGGACTCTATTC 59.794 42.308 0.00 0.00 0.00 1.75
3856 13338 7.206789 TGGGTTTCAATATGGACTCTATTCA 57.793 36.000 0.00 0.00 0.00 2.57
3857 13339 7.054124 TGGGTTTCAATATGGACTCTATTCAC 58.946 38.462 0.00 0.00 0.00 3.18
3858 13340 7.054124 GGGTTTCAATATGGACTCTATTCACA 58.946 38.462 0.00 0.00 0.00 3.58
3859 13341 7.556275 GGGTTTCAATATGGACTCTATTCACAA 59.444 37.037 0.00 0.00 0.00 3.33
3860 13342 8.956426 GGTTTCAATATGGACTCTATTCACAAA 58.044 33.333 0.00 0.00 0.00 2.83
3863 13345 9.685276 TTCAATATGGACTCTATTCACAAATGT 57.315 29.630 0.00 0.00 0.00 2.71
3867 13349 9.784531 ATATGGACTCTATTCACAAATGTAAGG 57.215 33.333 0.00 0.00 0.00 2.69
3868 13350 7.016153 TGGACTCTATTCACAAATGTAAGGT 57.984 36.000 0.00 0.00 0.00 3.50
3869 13351 7.103641 TGGACTCTATTCACAAATGTAAGGTC 58.896 38.462 0.00 0.00 0.00 3.85
3870 13352 7.038302 TGGACTCTATTCACAAATGTAAGGTCT 60.038 37.037 0.00 0.00 0.00 3.85
3871 13353 7.824779 GGACTCTATTCACAAATGTAAGGTCTT 59.175 37.037 0.00 0.00 0.00 3.01
3872 13354 9.220767 GACTCTATTCACAAATGTAAGGTCTTT 57.779 33.333 0.00 0.00 0.00 2.52
3873 13355 9.574516 ACTCTATTCACAAATGTAAGGTCTTTT 57.425 29.630 0.00 0.00 0.00 2.27
3876 13358 9.410556 CTATTCACAAATGTAAGGTCTTTTTGG 57.589 33.333 9.66 2.44 0.00 3.28
3877 13359 7.411486 TTCACAAATGTAAGGTCTTTTTGGA 57.589 32.000 9.66 4.01 0.00 3.53
3878 13360 7.595819 TCACAAATGTAAGGTCTTTTTGGAT 57.404 32.000 9.66 0.00 0.00 3.41
3879 13361 8.017418 TCACAAATGTAAGGTCTTTTTGGATT 57.983 30.769 9.66 0.00 0.00 3.01
3880 13362 8.482128 TCACAAATGTAAGGTCTTTTTGGATTT 58.518 29.630 9.66 0.00 0.00 2.17
3881 13363 8.764287 CACAAATGTAAGGTCTTTTTGGATTTC 58.236 33.333 9.66 0.00 0.00 2.17
3882 13364 8.482128 ACAAATGTAAGGTCTTTTTGGATTTCA 58.518 29.630 9.66 0.00 0.00 2.69
3911 13454 5.698545 GGACTACATATGGACTGAAATGAGC 59.301 44.000 7.80 0.00 0.00 4.26
4029 13880 6.375736 TGACTTTGTTGGTGACAGAATTAACA 59.624 34.615 0.00 0.00 44.54 2.41
4086 13937 2.780010 ACTGCTCCACTGGGCTATTTAT 59.220 45.455 9.23 0.00 0.00 1.40
4087 13938 3.973973 ACTGCTCCACTGGGCTATTTATA 59.026 43.478 9.23 0.00 0.00 0.98
4089 13940 5.165961 TGCTCCACTGGGCTATTTATATC 57.834 43.478 9.23 0.00 0.00 1.63
4106 13957 0.687354 ATCGTGCAGAAACCTGTCCT 59.313 50.000 0.00 0.00 34.23 3.85
4108 13959 0.249868 CGTGCAGAAACCTGTCCTCA 60.250 55.000 0.00 0.00 34.23 3.86
4116 13967 0.179018 AACCTGTCCTCAAGTGGCAC 60.179 55.000 10.29 10.29 0.00 5.01
4119 13970 2.099652 CTGTCCTCAAGTGGCACCGA 62.100 60.000 15.27 10.58 0.00 4.69
4122 13973 1.746615 CCTCAAGTGGCACCGATGG 60.747 63.158 15.27 8.42 0.00 3.51
4144 13995 3.493129 GTGATATATCGGCTTCGTTTGCA 59.507 43.478 8.19 0.00 35.06 4.08
4148 13999 2.309528 ATCGGCTTCGTTTGCAGATA 57.690 45.000 9.65 0.00 41.91 1.98
4174 14025 3.327757 AGGCTGTCAAATACTTGTGAGGA 59.672 43.478 0.00 0.00 33.94 3.71
4183 14034 6.043243 TCAAATACTTGTGAGGAGGAGTTCTT 59.957 38.462 0.00 0.00 33.94 2.52
4184 14035 3.760580 ACTTGTGAGGAGGAGTTCTTG 57.239 47.619 0.00 0.00 0.00 3.02
4198 14049 3.081804 AGTTCTTGGTCTATTTTGGCCG 58.918 45.455 0.00 0.00 0.00 6.13
4200 14051 1.173043 CTTGGTCTATTTTGGCCGCA 58.827 50.000 0.00 0.00 0.00 5.69
4240 14096 8.561738 TGGAGAAGATTTATGTGTAGTTTTCC 57.438 34.615 0.00 0.00 0.00 3.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
157 158 1.264288 GCTGCAACTGTAGTGTCCAAC 59.736 52.381 0.00 0.00 0.00 3.77
164 165 1.625315 TCCAGATGCTGCAACTGTAGT 59.375 47.619 29.89 4.34 33.37 2.73
166 167 2.635714 CATCCAGATGCTGCAACTGTA 58.364 47.619 29.89 20.21 33.37 2.74
194 195 7.654520 TCACCACTACAGTCACTTTTTATACAC 59.345 37.037 0.00 0.00 0.00 2.90
199 200 6.053005 CCTTCACCACTACAGTCACTTTTTA 58.947 40.000 0.00 0.00 0.00 1.52
221 222 0.907704 TTACATGGAGGCGACCACCT 60.908 55.000 8.46 0.00 45.04 4.00
241 242 1.303317 AAACCTGTGATGGCCGGAC 60.303 57.895 5.05 0.56 0.00 4.79
280 281 1.999648 AGCTGCAACCTCAAAATCCA 58.000 45.000 1.02 0.00 0.00 3.41
305 306 1.762370 CAAAAAGCTTCAACCACCCCT 59.238 47.619 0.00 0.00 0.00 4.79
371 372 1.131126 CACCGGCTCAGCAAAATACTG 59.869 52.381 0.00 0.00 36.44 2.74
372 373 1.271379 ACACCGGCTCAGCAAAATACT 60.271 47.619 0.00 0.00 0.00 2.12
373 374 1.130561 GACACCGGCTCAGCAAAATAC 59.869 52.381 0.00 0.00 0.00 1.89
374 375 1.448985 GACACCGGCTCAGCAAAATA 58.551 50.000 0.00 0.00 0.00 1.40
375 376 1.577328 CGACACCGGCTCAGCAAAAT 61.577 55.000 0.00 0.00 0.00 1.82
376 377 2.250939 CGACACCGGCTCAGCAAAA 61.251 57.895 0.00 0.00 0.00 2.44
390 453 3.395702 ATTGCCGCCCTACCGACA 61.396 61.111 0.00 0.00 0.00 4.35
396 459 1.148273 GATCACCATTGCCGCCCTA 59.852 57.895 0.00 0.00 0.00 3.53
405 468 2.009774 GCAGCTACAACGATCACCATT 58.990 47.619 0.00 0.00 0.00 3.16
445 510 2.982488 TCTTCCTCCTTTGCTTTCTCCT 59.018 45.455 0.00 0.00 0.00 3.69
446 511 3.425162 TCTTCCTCCTTTGCTTTCTCC 57.575 47.619 0.00 0.00 0.00 3.71
447 512 4.137543 TGTTCTTCCTCCTTTGCTTTCTC 58.862 43.478 0.00 0.00 0.00 2.87
468 533 3.202906 TCAACCACTCGTTCTTCCTTTG 58.797 45.455 0.00 0.00 29.93 2.77
472 537 2.814280 TCTCAACCACTCGTTCTTCC 57.186 50.000 0.00 0.00 29.93 3.46
497 562 6.041069 CCATACCTTATCTTCTCTCGTTCCTT 59.959 42.308 0.00 0.00 0.00 3.36
520 585 1.228831 CCATGCAAACCCACTCCCA 60.229 57.895 0.00 0.00 0.00 4.37
580 645 4.084888 GCACCGGCCGAAAACTCG 62.085 66.667 30.73 10.69 0.00 4.18
624 689 1.228154 GACCAAAACCAGGGCGACT 60.228 57.895 0.00 0.00 0.00 4.18
738 826 1.070134 CCCCGTGTGGTATCTGGTATG 59.930 57.143 0.00 0.00 0.00 2.39
745 833 0.395173 AATTGGCCCCGTGTGGTATC 60.395 55.000 0.00 0.00 0.00 2.24
748 836 1.906333 GAAATTGGCCCCGTGTGGT 60.906 57.895 0.00 0.00 0.00 4.16
749 837 2.969827 GAAATTGGCCCCGTGTGG 59.030 61.111 0.00 0.00 0.00 4.17
750 838 1.519751 TTCGAAATTGGCCCCGTGTG 61.520 55.000 0.00 0.00 0.00 3.82
751 839 0.824182 TTTCGAAATTGGCCCCGTGT 60.824 50.000 6.47 0.00 0.00 4.49
752 840 0.388006 GTTTCGAAATTGGCCCCGTG 60.388 55.000 14.69 0.00 0.00 4.94
753 841 1.529152 GGTTTCGAAATTGGCCCCGT 61.529 55.000 14.69 0.00 0.00 5.28
758 846 0.732538 CCGCTGGTTTCGAAATTGGC 60.733 55.000 14.69 15.79 0.00 4.52
809 897 1.003696 AGCGGGGAAAGAAGAAGAAGG 59.996 52.381 0.00 0.00 0.00 3.46
811 899 2.504367 CAAGCGGGGAAAGAAGAAGAA 58.496 47.619 0.00 0.00 0.00 2.52
844 948 2.249844 ATCGGCGGGTAATTAAGGTG 57.750 50.000 7.21 0.00 0.00 4.00
845 949 2.486013 GGAATCGGCGGGTAATTAAGGT 60.486 50.000 7.21 0.00 0.00 3.50
902 1008 3.894547 TTGGCGAGGAACGAAGGCC 62.895 63.158 0.00 0.00 45.77 5.19
916 1022 4.436986 GGTTCGTTGCTAGTAGATTTTGGC 60.437 45.833 0.00 0.00 0.00 4.52
926 1032 0.865769 CTTTGCGGTTCGTTGCTAGT 59.134 50.000 0.00 0.00 0.00 2.57
927 1033 0.452784 GCTTTGCGGTTCGTTGCTAG 60.453 55.000 0.00 0.00 0.00 3.42
928 1034 1.160946 TGCTTTGCGGTTCGTTGCTA 61.161 50.000 0.00 0.00 0.00 3.49
973 1095 3.915569 GTCGCTAGTTGAAGAAGAGACAC 59.084 47.826 5.95 0.00 39.13 3.67
975 1097 4.162096 TGTCGCTAGTTGAAGAAGAGAC 57.838 45.455 4.38 4.38 39.57 3.36
979 1101 2.231478 TCCCTGTCGCTAGTTGAAGAAG 59.769 50.000 0.00 0.00 0.00 2.85
980 1102 2.244695 TCCCTGTCGCTAGTTGAAGAA 58.755 47.619 0.00 0.00 0.00 2.52
981 1103 1.919240 TCCCTGTCGCTAGTTGAAGA 58.081 50.000 0.00 0.00 0.00 2.87
982 1104 2.544685 CATCCCTGTCGCTAGTTGAAG 58.455 52.381 0.00 0.00 0.00 3.02
983 1105 1.207089 CCATCCCTGTCGCTAGTTGAA 59.793 52.381 0.00 0.00 0.00 2.69
986 1108 1.522569 GCCATCCCTGTCGCTAGTT 59.477 57.895 0.00 0.00 0.00 2.24
987 1109 2.786495 CGCCATCCCTGTCGCTAGT 61.786 63.158 0.00 0.00 0.00 2.57
1008 1154 1.299648 CTTGATCACCTTCCCGGCA 59.700 57.895 0.00 0.00 35.61 5.69
1047 1193 3.441572 AGATGAAACCAACTGCATGCTAC 59.558 43.478 20.33 0.69 0.00 3.58
1060 1213 5.371115 TCGACCAAAAATCAGATGAAACC 57.629 39.130 0.00 0.00 0.00 3.27
1076 1229 1.606994 CCGTCCACAAAAGATCGACCA 60.607 52.381 0.00 0.00 0.00 4.02
1080 1233 1.665679 CCATCCGTCCACAAAAGATCG 59.334 52.381 0.00 0.00 0.00 3.69
1317 1505 4.626042 TGCATCACAACAATTTACCCAAC 58.374 39.130 0.00 0.00 0.00 3.77
1342 1535 4.301072 TTTAATTAGCCACTGCCTCACT 57.699 40.909 0.00 0.00 38.69 3.41
1346 1539 6.857437 AGAAAATTTAATTAGCCACTGCCT 57.143 33.333 0.00 0.00 38.69 4.75
1536 4860 6.204688 CAGAGATCAGTACTCAGGATGACTAC 59.795 46.154 0.00 0.00 42.56 2.73
1613 4949 9.354673 CTTCATAGTATGTTTAATCCCATTGGT 57.645 33.333 9.94 0.00 0.00 3.67
1712 8671 5.675575 GCAAACATGCTGAGGAGATTAACTG 60.676 44.000 0.00 0.00 0.00 3.16
1746 9040 6.269769 TGAAAAGAGGTGCCAAAAAGGATAAT 59.730 34.615 0.00 0.00 41.22 1.28
1752 9046 3.118811 TGGTGAAAAGAGGTGCCAAAAAG 60.119 43.478 0.00 0.00 0.00 2.27
1788 9085 2.584418 CTCTCCACGATGCTGCGG 60.584 66.667 0.00 0.00 35.12 5.69
1800 9097 3.213402 CCCTCTCCGACGCTCTCC 61.213 72.222 0.00 0.00 0.00 3.71
1825 9122 2.594592 GTCACCCGGCACAAGCTT 60.595 61.111 0.00 0.00 41.70 3.74
1854 9151 2.029073 CACTCGCCGGTGAACACT 59.971 61.111 20.06 0.00 39.34 3.55
2208 9644 2.224314 CGCCAAGTCCTGAAGAGAAAAC 59.776 50.000 0.00 0.00 0.00 2.43
2332 9916 4.194640 GCACATAATTCTCTTCAGCCTGA 58.805 43.478 0.00 0.00 0.00 3.86
2360 9948 9.577110 CATGTCAAAAGCATACAGTCATTATTT 57.423 29.630 0.00 0.00 0.00 1.40
2387 9979 2.276740 CCCCTTCCATGGCCTGTC 59.723 66.667 6.96 0.00 0.00 3.51
2388 9980 4.066139 GCCCCTTCCATGGCCTGT 62.066 66.667 6.96 0.00 41.97 4.00
2406 9998 0.992970 TTGATGCCCCAGCCATCCTA 60.993 55.000 0.00 0.00 38.69 2.94
2541 10152 7.448420 TCTATCAATCCAAAAACATTTGCCAA 58.552 30.769 0.00 0.00 0.00 4.52
2542 10153 7.002250 TCTATCAATCCAAAAACATTTGCCA 57.998 32.000 0.00 0.00 0.00 4.92
2543 10154 7.387397 TGTTCTATCAATCCAAAAACATTTGCC 59.613 33.333 0.00 0.00 0.00 4.52
2544 10155 8.223100 GTGTTCTATCAATCCAAAAACATTTGC 58.777 33.333 0.00 0.00 0.00 3.68
2545 10156 9.480053 AGTGTTCTATCAATCCAAAAACATTTG 57.520 29.630 0.00 0.00 0.00 2.32
2546 10157 9.480053 CAGTGTTCTATCAATCCAAAAACATTT 57.520 29.630 0.00 0.00 0.00 2.32
2547 10158 8.859090 TCAGTGTTCTATCAATCCAAAAACATT 58.141 29.630 0.00 0.00 0.00 2.71
2548 10159 8.408043 TCAGTGTTCTATCAATCCAAAAACAT 57.592 30.769 0.00 0.00 0.00 2.71
2549 10160 7.815840 TCAGTGTTCTATCAATCCAAAAACA 57.184 32.000 0.00 0.00 0.00 2.83
2550 10161 7.595130 GGTTCAGTGTTCTATCAATCCAAAAAC 59.405 37.037 0.00 0.00 0.00 2.43
2551 10162 7.505585 AGGTTCAGTGTTCTATCAATCCAAAAA 59.494 33.333 0.00 0.00 0.00 1.94
2552 10163 7.004086 AGGTTCAGTGTTCTATCAATCCAAAA 58.996 34.615 0.00 0.00 0.00 2.44
2553 10164 6.542821 AGGTTCAGTGTTCTATCAATCCAAA 58.457 36.000 0.00 0.00 0.00 3.28
2554 10165 6.126863 AGGTTCAGTGTTCTATCAATCCAA 57.873 37.500 0.00 0.00 0.00 3.53
2555 10166 5.762179 AGGTTCAGTGTTCTATCAATCCA 57.238 39.130 0.00 0.00 0.00 3.41
2556 10167 7.103641 TGTTAGGTTCAGTGTTCTATCAATCC 58.896 38.462 0.00 0.00 0.00 3.01
2557 10168 8.443937 GTTGTTAGGTTCAGTGTTCTATCAATC 58.556 37.037 12.20 6.98 0.00 2.67
2558 10169 7.936847 TGTTGTTAGGTTCAGTGTTCTATCAAT 59.063 33.333 12.20 0.00 0.00 2.57
2559 10170 7.276658 TGTTGTTAGGTTCAGTGTTCTATCAA 58.723 34.615 0.00 0.99 0.00 2.57
2560 10171 6.822442 TGTTGTTAGGTTCAGTGTTCTATCA 58.178 36.000 0.00 0.00 0.00 2.15
2561 10172 7.387948 ACATGTTGTTAGGTTCAGTGTTCTATC 59.612 37.037 0.00 0.00 0.00 2.08
2562 10173 7.224297 ACATGTTGTTAGGTTCAGTGTTCTAT 58.776 34.615 0.00 0.00 0.00 1.98
2563 10174 6.588204 ACATGTTGTTAGGTTCAGTGTTCTA 58.412 36.000 0.00 0.00 0.00 2.10
2564 10175 5.437060 ACATGTTGTTAGGTTCAGTGTTCT 58.563 37.500 0.00 0.00 0.00 3.01
2565 10176 5.751243 ACATGTTGTTAGGTTCAGTGTTC 57.249 39.130 0.00 0.00 0.00 3.18
2566 10177 6.354130 AGTACATGTTGTTAGGTTCAGTGTT 58.646 36.000 2.30 0.00 0.00 3.32
2567 10178 5.925509 AGTACATGTTGTTAGGTTCAGTGT 58.074 37.500 2.30 0.00 0.00 3.55
2568 10179 6.926826 TGTAGTACATGTTGTTAGGTTCAGTG 59.073 38.462 2.30 0.00 0.00 3.66
2569 10180 7.058023 TGTAGTACATGTTGTTAGGTTCAGT 57.942 36.000 2.30 0.00 0.00 3.41
2570 10181 8.547967 AATGTAGTACATGTTGTTAGGTTCAG 57.452 34.615 16.46 0.00 37.97 3.02
2796 10433 2.359107 ATGTGGCCAGTGCACTCG 60.359 61.111 18.64 12.58 40.13 4.18
2858 10495 8.884124 TTATTTATAGTAGGTATAGTGCGGGT 57.116 34.615 0.00 0.00 0.00 5.28
2888 10529 6.538742 ACCTGTGATTAATTATCGTTGGAGTG 59.461 38.462 0.00 0.00 35.94 3.51
3006 12437 3.650942 TCATTGGGTAGGTCTTGAACACT 59.349 43.478 0.00 0.00 0.00 3.55
3102 12533 3.243569 CCTTCCTCATGTACATCTCGACC 60.244 52.174 5.07 0.00 0.00 4.79
3313 12744 8.807118 AGGGGAGATTTCTAACTTTTCATTTTC 58.193 33.333 0.00 0.00 0.00 2.29
3318 12749 6.010219 CCAAGGGGAGATTTCTAACTTTTCA 58.990 40.000 0.00 0.00 35.59 2.69
3319 12750 6.246163 TCCAAGGGGAGATTTCTAACTTTTC 58.754 40.000 0.00 0.00 38.64 2.29
3391 12827 5.124776 CACAAAACAAAGACCCACTAGTTCA 59.875 40.000 0.00 0.00 0.00 3.18
3396 12832 5.336849 CCAAACACAAAACAAAGACCCACTA 60.337 40.000 0.00 0.00 0.00 2.74
3398 12834 3.682377 CCAAACACAAAACAAAGACCCAC 59.318 43.478 0.00 0.00 0.00 4.61
3573 13010 1.864711 GAAAGCAAGTCGTACTGCACA 59.135 47.619 7.48 0.00 0.00 4.57
3580 13017 0.311790 ACCGTCGAAAGCAAGTCGTA 59.688 50.000 0.00 0.00 39.52 3.43
3585 13022 1.497991 TTCTCACCGTCGAAAGCAAG 58.502 50.000 0.00 0.00 0.00 4.01
3618 13072 6.598064 CAGGTAGGTGAAAATCGGTCTAAAAT 59.402 38.462 0.00 0.00 0.00 1.82
3645 13108 1.413812 CTCCCTTTGGCTGTTGCTTTT 59.586 47.619 0.00 0.00 39.59 2.27
3661 13125 3.011517 TGGCTGGCCTTCTCTCCC 61.012 66.667 13.05 0.00 36.94 4.30
3749 13230 6.049790 GGGCAAAACAAATAACTGTTAACCA 58.950 36.000 4.11 0.00 38.59 3.67
3761 13242 3.807553 CAAGACCAAGGGCAAAACAAAT 58.192 40.909 0.00 0.00 0.00 2.32
3771 13252 3.198635 TCTTCTCTATGCAAGACCAAGGG 59.801 47.826 0.00 0.00 0.00 3.95
3841 13323 9.784531 CCTTACATTTGTGAATAGAGTCCATAT 57.215 33.333 0.00 0.00 0.00 1.78
3842 13324 8.768397 ACCTTACATTTGTGAATAGAGTCCATA 58.232 33.333 0.00 0.00 0.00 2.74
3843 13325 7.633789 ACCTTACATTTGTGAATAGAGTCCAT 58.366 34.615 0.00 0.00 0.00 3.41
3844 13326 7.016153 ACCTTACATTTGTGAATAGAGTCCA 57.984 36.000 0.00 0.00 0.00 4.02
3845 13327 7.331791 AGACCTTACATTTGTGAATAGAGTCC 58.668 38.462 0.00 0.00 0.00 3.85
3846 13328 8.779354 AAGACCTTACATTTGTGAATAGAGTC 57.221 34.615 0.00 0.00 0.00 3.36
3847 13329 9.574516 AAAAGACCTTACATTTGTGAATAGAGT 57.425 29.630 0.00 0.00 0.00 3.24
3850 13332 9.410556 CCAAAAAGACCTTACATTTGTGAATAG 57.589 33.333 0.00 0.00 30.89 1.73
3851 13333 9.137459 TCCAAAAAGACCTTACATTTGTGAATA 57.863 29.630 0.00 0.00 30.89 1.75
3852 13334 8.017418 TCCAAAAAGACCTTACATTTGTGAAT 57.983 30.769 0.00 0.00 30.89 2.57
3853 13335 7.411486 TCCAAAAAGACCTTACATTTGTGAA 57.589 32.000 0.00 0.00 30.89 3.18
3854 13336 7.595819 ATCCAAAAAGACCTTACATTTGTGA 57.404 32.000 0.00 0.00 30.89 3.58
3855 13337 8.661352 AAATCCAAAAAGACCTTACATTTGTG 57.339 30.769 0.00 0.00 30.89 3.33
3856 13338 8.482128 TGAAATCCAAAAAGACCTTACATTTGT 58.518 29.630 0.00 0.00 30.89 2.83
3857 13339 8.885494 TGAAATCCAAAAAGACCTTACATTTG 57.115 30.769 0.00 0.00 0.00 2.32
3862 13344 9.586435 CCATATTGAAATCCAAAAAGACCTTAC 57.414 33.333 0.00 0.00 38.43 2.34
3863 13345 9.540538 TCCATATTGAAATCCAAAAAGACCTTA 57.459 29.630 0.00 0.00 38.43 2.69
3864 13346 8.314021 GTCCATATTGAAATCCAAAAAGACCTT 58.686 33.333 0.00 0.00 38.43 3.50
3865 13347 7.675619 AGTCCATATTGAAATCCAAAAAGACCT 59.324 33.333 0.00 0.00 38.43 3.85
3866 13348 7.840931 AGTCCATATTGAAATCCAAAAAGACC 58.159 34.615 0.00 0.00 38.43 3.85
3867 13349 9.788960 GTAGTCCATATTGAAATCCAAAAAGAC 57.211 33.333 0.00 0.00 38.43 3.01
3868 13350 9.527157 TGTAGTCCATATTGAAATCCAAAAAGA 57.473 29.630 0.00 0.00 38.43 2.52
3873 13355 9.519191 CCATATGTAGTCCATATTGAAATCCAA 57.481 33.333 1.24 0.00 42.87 3.53
3874 13356 8.889445 TCCATATGTAGTCCATATTGAAATCCA 58.111 33.333 1.24 0.00 42.87 3.41
3875 13357 9.167311 GTCCATATGTAGTCCATATTGAAATCC 57.833 37.037 1.24 0.00 42.87 3.01
3876 13358 9.950496 AGTCCATATGTAGTCCATATTGAAATC 57.050 33.333 1.24 0.00 42.87 2.17
3877 13359 9.730705 CAGTCCATATGTAGTCCATATTGAAAT 57.269 33.333 1.24 0.00 42.87 2.17
3878 13360 8.933653 TCAGTCCATATGTAGTCCATATTGAAA 58.066 33.333 1.24 0.00 42.87 2.69
3879 13361 8.491045 TCAGTCCATATGTAGTCCATATTGAA 57.509 34.615 1.24 0.00 42.87 2.69
3880 13362 8.491045 TTCAGTCCATATGTAGTCCATATTGA 57.509 34.615 1.24 0.00 42.87 2.57
3881 13363 9.730705 ATTTCAGTCCATATGTAGTCCATATTG 57.269 33.333 1.24 0.00 42.87 1.90
3882 13364 9.730705 CATTTCAGTCCATATGTAGTCCATATT 57.269 33.333 1.24 0.00 42.87 1.28
3911 13454 6.378582 AGGCATATTTTAGTGTGTTTGTTCG 58.621 36.000 0.00 0.00 0.00 3.95
3965 13816 6.016527 CCCTCTGTACGCTAATGTAAGATGTA 60.017 42.308 0.00 0.00 0.00 2.29
4086 13937 1.899814 AGGACAGGTTTCTGCACGATA 59.100 47.619 0.00 0.00 44.59 2.92
4087 13938 0.687354 AGGACAGGTTTCTGCACGAT 59.313 50.000 0.00 0.00 44.59 3.73
4089 13940 0.249868 TGAGGACAGGTTTCTGCACG 60.250 55.000 0.00 0.00 44.59 5.34
4106 13957 3.156714 ACCATCGGTGCCACTTGA 58.843 55.556 0.00 0.00 32.98 3.02
4119 13970 4.537135 AACGAAGCCGATATATCACCAT 57.463 40.909 13.11 0.00 39.50 3.55
4122 13973 3.493129 TGCAAACGAAGCCGATATATCAC 59.507 43.478 13.11 4.30 39.50 3.06
4131 13982 1.933181 TGATATCTGCAAACGAAGCCG 59.067 47.619 3.98 0.00 42.50 5.52
4144 13995 7.281774 CACAAGTATTTGACAGCCTTGATATCT 59.718 37.037 4.81 0.00 37.73 1.98
4148 13999 5.316167 TCACAAGTATTTGACAGCCTTGAT 58.684 37.500 4.81 0.00 37.73 2.57
4174 14025 4.336280 GCCAAAATAGACCAAGAACTCCT 58.664 43.478 0.00 0.00 0.00 3.69
4183 14034 1.846007 AATGCGGCCAAAATAGACCA 58.154 45.000 2.24 0.00 0.00 4.02
4184 14035 2.959507 AAATGCGGCCAAAATAGACC 57.040 45.000 2.24 0.00 0.00 3.85
4214 14070 8.669243 GGAAAACTACACATAAATCTTCTCCAG 58.331 37.037 0.00 0.00 0.00 3.86


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

AutoCloner maintained by Alex Coulton.