Multiple sequence alignment - TraesCS1D01G319400

Loading Multiple Alignment...

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 TraesCS1D01G319400 chr1D 100.000 3325 0 0 1 3325 413576655 413579979 0.000000e+00 6141
1 TraesCS1D01G319400 chr1D 93.204 103 1 6 3225 3325 127550360 127550458 2.670000e-31 147
2 TraesCS1D01G319400 chr1A 89.918 1349 95 27 1924 3251 510379414 510380742 0.000000e+00 1700
3 TraesCS1D01G319400 chr1A 88.425 1365 120 30 2 1341 510377457 510378808 0.000000e+00 1611
4 TraesCS1D01G319400 chr1A 93.305 239 6 5 1684 1921 510379150 510379379 8.830000e-91 344
5 TraesCS1D01G319400 chr1B 89.060 1234 92 28 1924 3127 557943233 557944453 0.000000e+00 1491
6 TraesCS1D01G319400 chr1B 92.266 737 31 12 613 1344 557941875 557942590 0.000000e+00 1022
7 TraesCS1D01G319400 chr1B 92.034 590 24 11 1350 1927 557942628 557943206 0.000000e+00 808
8 TraesCS1D01G319400 chr1B 94.737 95 3 2 3126 3219 557944799 557944892 2.670000e-31 147
9 TraesCS1D01G319400 chr7D 97.701 87 0 2 3240 3325 46404857 46404772 7.430000e-32 148
10 TraesCS1D01G319400 chr7D 94.681 94 3 2 3233 3325 609074569 609074661 9.610000e-31 145
11 TraesCS1D01G319400 chr7D 95.604 91 1 3 3236 3325 99299100 99299012 3.460000e-30 143
12 TraesCS1D01G319400 chr7D 90.385 104 6 3 3222 3325 160133862 160133961 2.080000e-27 134
13 TraesCS1D01G319400 chr5D 98.795 83 0 1 3243 3325 66615570 66615489 2.670000e-31 147
14 TraesCS1D01G319400 chr5D 92.929 99 4 3 3228 3325 44898155 44898251 1.240000e-29 141
15 TraesCS1D01G319400 chr2D 92.708 96 5 2 3229 3324 543314288 543314381 1.610000e-28 137
16 TraesCS1D01G319400 chr3D 89.623 106 7 3 3223 3325 589916544 589916440 7.480000e-27 132


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 TraesCS1D01G319400 chr1D 413576655 413579979 3324 False 6141.000000 6141 100.000000 1 3325 1 chr1D.!!$F2 3324
1 TraesCS1D01G319400 chr1A 510377457 510380742 3285 False 1218.333333 1700 90.549333 2 3251 3 chr1A.!!$F1 3249
2 TraesCS1D01G319400 chr1B 557941875 557944892 3017 False 867.000000 1491 92.024250 613 3219 4 chr1B.!!$F1 2606

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
840 870 0.456653 CTTTCCGCAAAGGCCAATCG 60.457 55.0 5.01 2.25 40.77 3.34 F
1285 1315 0.520827 CGAGAACGACTGCGAGTACC 60.521 60.0 0.00 0.00 42.66 3.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2315 2468 0.176680 TCCGATTCTCTCAGGCTTGC 59.823 55.0 0.0 0.0 0.0 4.01 R
3256 3794 0.468029 CCTGTGACCAAAGCCCTGTT 60.468 55.0 0.0 0.0 0.0 3.16 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
168 174 5.236047 CGACCAAAAATTGAAAATTGGAGCA 59.764 36.000 10.14 0.00 44.01 4.26
170 176 7.520292 CGACCAAAAATTGAAAATTGGAGCATT 60.520 33.333 10.14 0.00 44.01 3.56
345 363 4.577875 TGGAACAATGCCCATTCATTTTC 58.422 39.130 0.00 0.00 34.68 2.29
346 364 3.940852 GGAACAATGCCCATTCATTTTCC 59.059 43.478 11.09 11.09 36.99 3.13
356 374 5.241285 GCCCATTCATTTTCCAAAAACACAT 59.759 36.000 0.00 0.00 0.00 3.21
357 375 6.238981 GCCCATTCATTTTCCAAAAACACATT 60.239 34.615 0.00 0.00 0.00 2.71
393 411 7.763985 TGAAAGAAGGGAACAATTTTTGAAGAC 59.236 33.333 0.00 0.00 0.00 3.01
398 416 7.181569 AGGGAACAATTTTTGAAGACTTGAA 57.818 32.000 0.00 0.00 0.00 2.69
399 417 7.267857 AGGGAACAATTTTTGAAGACTTGAAG 58.732 34.615 0.00 0.00 0.00 3.02
400 418 7.124147 AGGGAACAATTTTTGAAGACTTGAAGA 59.876 33.333 0.00 0.00 0.00 2.87
401 419 7.928167 GGGAACAATTTTTGAAGACTTGAAGAT 59.072 33.333 0.00 0.00 0.00 2.40
406 424 9.925268 CAATTTTTGAAGACTTGAAGATTTTGG 57.075 29.630 0.00 0.00 0.00 3.28
407 425 9.889128 AATTTTTGAAGACTTGAAGATTTTGGA 57.111 25.926 0.00 0.00 0.00 3.53
411 429 9.889128 TTTGAAGACTTGAAGATTTTGGAAAAT 57.111 25.926 0.00 0.00 41.06 1.82
502 520 4.649674 AGGAAAGAAAAGGAAAAGGACCAC 59.350 41.667 0.00 0.00 0.00 4.16
503 521 4.404394 GGAAAGAAAAGGAAAAGGACCACA 59.596 41.667 0.00 0.00 0.00 4.17
511 529 4.860022 AGGAAAAGGACCACAATATCCTG 58.140 43.478 0.00 0.00 44.97 3.86
520 538 2.418628 CCACAATATCCTGCGAACGTTT 59.581 45.455 0.46 0.00 0.00 3.60
530 548 1.772063 GCGAACGTTTGCTGTGAGGT 61.772 55.000 29.32 0.00 34.69 3.85
531 549 0.655733 CGAACGTTTGCTGTGAGGTT 59.344 50.000 0.46 0.00 0.00 3.50
534 552 3.242478 CGAACGTTTGCTGTGAGGTTTTA 60.242 43.478 0.46 0.00 0.00 1.52
541 559 6.359617 CGTTTGCTGTGAGGTTTTAGTATTTG 59.640 38.462 0.00 0.00 0.00 2.32
560 578 8.751335 AGTATTTGCAAACGTTTTAGACAATTG 58.249 29.630 15.41 3.24 0.00 2.32
562 580 5.940603 TGCAAACGTTTTAGACAATTGTG 57.059 34.783 17.58 1.77 0.00 3.33
565 583 6.366332 TGCAAACGTTTTAGACAATTGTGTTT 59.634 30.769 17.58 14.43 38.41 2.83
588 606 5.640147 TGGGGAATCACACTCACTTTATTT 58.360 37.500 0.00 0.00 0.00 1.40
643 661 6.439487 TGGGTCATGTGGGTTTATAAATGAT 58.561 36.000 0.31 0.00 0.00 2.45
652 680 9.443323 TGTGGGTTTATAAATGATATATGACGG 57.557 33.333 0.31 0.00 0.00 4.79
743 773 3.677976 GCAATGCAAAGAAAGATCCAGGG 60.678 47.826 0.00 0.00 0.00 4.45
769 799 1.244019 AAAGGCGGGAATCACACAGC 61.244 55.000 0.00 0.00 0.00 4.40
775 805 1.293924 GGGAATCACACAGCAGATCG 58.706 55.000 0.00 0.00 0.00 3.69
793 823 2.282745 AAGCAGAGCCAGCCAACC 60.283 61.111 0.00 0.00 0.00 3.77
840 870 0.456653 CTTTCCGCAAAGGCCAATCG 60.457 55.000 5.01 2.25 40.77 3.34
841 871 0.891449 TTTCCGCAAAGGCCAATCGA 60.891 50.000 5.01 0.00 40.77 3.59
960 990 2.689034 GACCCCCTCAGTCCCCTG 60.689 72.222 0.00 0.00 40.25 4.45
986 1016 2.190578 GCCTTCGATCCCCACCAG 59.809 66.667 0.00 0.00 0.00 4.00
1285 1315 0.520827 CGAGAACGACTGCGAGTACC 60.521 60.000 0.00 0.00 42.66 3.34
1318 1348 1.306312 ATACCAGGTACGTGCCCCA 60.306 57.895 19.90 2.27 0.00 4.96
1319 1349 0.910566 ATACCAGGTACGTGCCCCAA 60.911 55.000 19.90 3.03 0.00 4.12
1320 1350 0.910566 TACCAGGTACGTGCCCCAAT 60.911 55.000 19.90 5.35 0.00 3.16
1322 1352 1.451387 CAGGTACGTGCCCCAATCC 60.451 63.158 19.90 0.00 0.00 3.01
1324 1354 2.124445 GTACGTGCCCCAATCCCC 60.124 66.667 0.00 0.00 0.00 4.81
1325 1355 2.611172 TACGTGCCCCAATCCCCA 60.611 61.111 0.00 0.00 0.00 4.96
1337 1374 2.374830 AATCCCCAGCTCGCTCGATG 62.375 60.000 0.00 0.00 0.00 3.84
1341 1378 1.664017 CCAGCTCGCTCGATGGATG 60.664 63.158 6.14 0.00 34.60 3.51
1349 1387 3.732212 TCGCTCGATGGATGATTGATTT 58.268 40.909 0.00 0.00 0.00 2.17
1350 1388 3.742882 TCGCTCGATGGATGATTGATTTC 59.257 43.478 0.00 0.00 0.00 2.17
1355 1393 6.347240 GCTCGATGGATGATTGATTTCAGTAC 60.347 42.308 0.00 0.00 0.00 2.73
1371 1437 9.109393 GATTTCAGTACCACATAAAAGATGCTA 57.891 33.333 0.00 0.00 0.00 3.49
1375 1441 7.764443 TCAGTACCACATAAAAGATGCTAGTTC 59.236 37.037 0.00 0.00 0.00 3.01
1399 1465 2.032178 GCTTCACAATACAAGATCGGCC 59.968 50.000 0.00 0.00 0.00 6.13
1407 1473 1.445410 CAAGATCGGCCGTGTTCGA 60.445 57.895 27.15 4.32 39.71 3.71
1410 1476 1.028330 AGATCGGCCGTGTTCGACTA 61.028 55.000 27.15 1.58 38.25 2.59
1412 1478 1.265095 GATCGGCCGTGTTCGACTATA 59.735 52.381 27.15 0.03 38.25 1.31
1417 1483 1.587034 GCCGTGTTCGACTATAGTTGC 59.413 52.381 14.49 3.46 39.71 4.17
1420 1486 2.852413 CGTGTTCGACTATAGTTGCAGG 59.148 50.000 14.49 9.74 39.71 4.85
1452 1521 7.710766 ACTTGAGTAACAAAAGTACAGTAGC 57.289 36.000 0.00 0.00 38.08 3.58
1495 1564 3.632145 TCAAGCTTCAAACTGAAACCTCC 59.368 43.478 0.00 0.00 35.73 4.30
1509 1585 1.293498 CCTCCGTCCCAAGTGACAG 59.707 63.158 0.00 0.00 34.88 3.51
1546 1623 2.488545 AGCATAGATTCGCCGTAGTAGG 59.511 50.000 0.00 0.00 0.00 3.18
1570 1647 0.952280 CATGCATGATGTGGCCTCTC 59.048 55.000 22.59 0.73 0.00 3.20
1684 1761 2.492484 AGTAAGTTACCGTGCTCCTCTG 59.508 50.000 9.46 0.00 0.00 3.35
1736 1845 6.264292 ACCTTTGCATTTCGCCACATATATTA 59.736 34.615 0.00 0.00 41.33 0.98
1771 1880 4.394300 ACAAGATTGCAACTTGCTAGCTAG 59.606 41.667 27.23 22.32 43.33 3.42
1775 1884 5.454471 AGATTGCAACTTGCTAGCTAGCTAT 60.454 40.000 38.07 24.12 42.44 2.97
1776 1885 7.234885 AGATTGCAACTTGCTAGCTAGCTATC 61.235 42.308 38.07 24.95 42.44 2.08
1799 1911 2.564553 CTAGAGGGGTGTGCTCGTGC 62.565 65.000 1.71 1.71 40.20 5.34
1818 1930 1.873863 GTGCTTTCCCCGTTGCTAC 59.126 57.895 0.00 0.00 0.00 3.58
1838 1950 2.312436 CCTTTGCTTTTGCCGCAGC 61.312 57.895 0.00 0.00 46.87 5.25
1942 2087 4.673298 TGCGGAAAAGCGAGCGGA 62.673 61.111 0.00 0.00 40.67 5.54
2015 2162 7.274904 GCACCGTTATCATATCGTATTGTACAT 59.725 37.037 0.00 0.00 0.00 2.29
2078 2231 3.118149 TGACATGATCATCAGGTGGAAGG 60.118 47.826 10.27 0.00 41.88 3.46
2087 2240 0.671781 CAGGTGGAAGGAAGTGCGAG 60.672 60.000 0.00 0.00 0.00 5.03
2096 2249 1.374758 GAAGTGCGAGGTGGAGGTG 60.375 63.158 0.00 0.00 0.00 4.00
2264 2417 2.578981 GCCTACTTCGACGACGGC 60.579 66.667 7.55 8.33 40.21 5.68
2337 2490 1.561643 AGCCTGAGAGAATCGGAACA 58.438 50.000 0.00 0.00 42.67 3.18
2347 2500 0.456221 AATCGGAACATCTCGACGCT 59.544 50.000 0.00 0.00 38.25 5.07
2395 2555 0.968405 ATGCATTTGCCGGTGAAAGT 59.032 45.000 1.90 0.00 41.18 2.66
2396 2556 0.031857 TGCATTTGCCGGTGAAAGTG 59.968 50.000 1.90 4.13 41.18 3.16
2500 2660 0.320771 GGCTGAGACGAAAAGGAGCA 60.321 55.000 0.00 0.00 0.00 4.26
2502 2662 1.873591 GCTGAGACGAAAAGGAGCAAA 59.126 47.619 0.00 0.00 0.00 3.68
2510 2674 3.756963 ACGAAAAGGAGCAAAGATTACCC 59.243 43.478 0.00 0.00 0.00 3.69
2517 2681 6.521527 AGGAGCAAAGATTACCCATCTATT 57.478 37.500 0.00 0.00 41.93 1.73
2518 2682 6.302269 AGGAGCAAAGATTACCCATCTATTG 58.698 40.000 0.00 0.00 41.93 1.90
2519 2683 5.048434 GGAGCAAAGATTACCCATCTATTGC 60.048 44.000 16.04 16.04 45.18 3.56
2520 2684 5.448654 AGCAAAGATTACCCATCTATTGCA 58.551 37.500 20.96 0.00 46.03 4.08
2523 2687 6.016024 GCAAAGATTACCCATCTATTGCATGA 60.016 38.462 17.50 0.00 44.78 3.07
2524 2688 7.309621 GCAAAGATTACCCATCTATTGCATGAT 60.310 37.037 17.50 0.00 44.78 2.45
2525 2689 7.698506 AAGATTACCCATCTATTGCATGATG 57.301 36.000 14.24 14.24 41.93 3.07
2534 2698 7.338449 CCCATCTATTGCATGATGATGATGTTA 59.662 37.037 19.74 0.00 41.69 2.41
2538 2702 8.780249 TCTATTGCATGATGATGATGTTACAAG 58.220 33.333 0.00 0.00 0.00 3.16
2541 2705 6.117488 TGCATGATGATGATGTTACAAGTCT 58.883 36.000 0.00 0.00 0.00 3.24
2542 2706 6.037830 TGCATGATGATGATGTTACAAGTCTG 59.962 38.462 0.00 0.00 0.00 3.51
2586 2772 3.433306 TGGCTAATTAACCAGCAGTGT 57.567 42.857 3.37 0.00 39.63 3.55
2587 2773 3.081061 TGGCTAATTAACCAGCAGTGTG 58.919 45.455 3.37 0.00 39.63 3.82
2588 2774 3.081804 GGCTAATTAACCAGCAGTGTGT 58.918 45.455 11.19 0.00 39.63 3.72
2589 2775 3.506067 GGCTAATTAACCAGCAGTGTGTT 59.494 43.478 11.19 0.00 39.63 3.32
2590 2776 4.475944 GCTAATTAACCAGCAGTGTGTTG 58.524 43.478 5.47 0.00 37.73 3.33
2591 2777 3.369546 AATTAACCAGCAGTGTGTTGC 57.630 42.857 0.00 0.00 44.41 4.17
2592 2778 1.756430 TTAACCAGCAGTGTGTTGCA 58.244 45.000 0.52 0.00 46.47 4.08
2593 2779 1.756430 TAACCAGCAGTGTGTTGCAA 58.244 45.000 0.00 0.00 46.47 4.08
2594 2780 0.457035 AACCAGCAGTGTGTTGCAAG 59.543 50.000 0.00 0.00 46.47 4.01
2595 2781 1.299620 CCAGCAGTGTGTTGCAAGC 60.300 57.895 0.00 0.00 46.47 4.01
2596 2782 1.434287 CAGCAGTGTGTTGCAAGCA 59.566 52.632 0.00 0.00 46.47 3.91
2597 2783 0.868602 CAGCAGTGTGTTGCAAGCAC 60.869 55.000 20.35 20.35 46.47 4.40
2598 2784 1.940758 GCAGTGTGTTGCAAGCACG 60.941 57.895 21.18 17.80 43.53 5.34
2599 2785 1.720894 CAGTGTGTTGCAAGCACGA 59.279 52.632 21.18 11.55 39.53 4.35
2600 2786 0.098552 CAGTGTGTTGCAAGCACGAA 59.901 50.000 21.18 7.77 39.53 3.85
2601 2787 0.808125 AGTGTGTTGCAAGCACGAAA 59.192 45.000 21.18 7.24 39.53 3.46
2602 2788 1.191096 GTGTGTTGCAAGCACGAAAG 58.809 50.000 19.95 0.00 39.53 2.62
2603 2789 0.525242 TGTGTTGCAAGCACGAAAGC 60.525 50.000 19.95 0.00 39.53 3.51
2604 2790 1.298264 TGTTGCAAGCACGAAAGCG 60.298 52.632 0.00 0.00 44.79 4.68
2639 2825 4.873129 CGTCGACCGGATGGGCTG 62.873 72.222 9.46 0.00 43.41 4.85
2653 2839 2.393768 GGCTGCGGCATCGATATGG 61.394 63.158 21.31 0.00 40.87 2.74
2740 2926 0.866427 CACGATGCATCTCCATCAGC 59.134 55.000 23.73 0.00 41.27 4.26
2752 2938 0.873312 CCATCAGCCGTCAGTCATCG 60.873 60.000 0.00 0.00 0.00 3.84
2776 2962 1.700186 CTAGCCCCTTTATCCCCAGTC 59.300 57.143 0.00 0.00 0.00 3.51
2787 2973 2.665000 CCCAGTCGGCACATGAGT 59.335 61.111 0.00 0.00 0.00 3.41
2847 3033 4.906664 AGATCCTCAGGTGATTATTCTGCT 59.093 41.667 0.00 0.00 0.00 4.24
2852 3038 5.396101 CCTCAGGTGATTATTCTGCTGAGAA 60.396 44.000 1.80 0.00 42.53 2.87
2861 3047 0.601046 TCTGCTGAGAAGCACGTTGG 60.601 55.000 0.00 0.00 40.23 3.77
2875 3061 2.221749 CACGTTGGCCAGATGATATTCG 59.778 50.000 5.11 3.96 0.00 3.34
2902 3089 3.897819 GGGCGACGATTTGCTTTAG 57.102 52.632 0.00 0.00 31.91 1.85
2930 3117 7.721286 TGTTGTAAAATAATGCCCTGTTTTG 57.279 32.000 0.00 0.00 0.00 2.44
2932 3119 8.421784 TGTTGTAAAATAATGCCCTGTTTTGTA 58.578 29.630 0.00 0.00 0.00 2.41
2936 3126 9.646427 GTAAAATAATGCCCTGTTTTGTATGAA 57.354 29.630 0.00 0.00 0.00 2.57
2945 3135 7.282224 TGCCCTGTTTTGTATGAATATACTCAC 59.718 37.037 0.00 0.00 39.90 3.51
2946 3136 7.282224 GCCCTGTTTTGTATGAATATACTCACA 59.718 37.037 0.00 0.00 39.90 3.58
2961 3151 0.602638 TCACAAGACCGGTGCATCAC 60.603 55.000 14.63 0.00 36.22 3.06
2962 3152 0.884259 CACAAGACCGGTGCATCACA 60.884 55.000 14.63 0.00 35.86 3.58
3005 3195 2.379972 ACTCAGGTCCCTCAACTATCG 58.620 52.381 0.00 0.00 0.00 2.92
3037 3227 7.221450 CCAAATTTGGTCCCTCGACTATAATA 58.779 38.462 26.34 0.00 43.43 0.98
3043 3234 6.192773 TGGTCCCTCGACTATAATAATAGGG 58.807 44.000 0.00 0.00 43.03 3.53
3074 3265 5.571784 TGCATGGAAAAATGTTTGCAAAA 57.428 30.435 14.67 5.00 46.51 2.44
3075 3266 5.579718 TGCATGGAAAAATGTTTGCAAAAG 58.420 33.333 14.67 1.91 46.51 2.27
3095 3286 9.807649 GCAAAAGAAGATAATGTGATGGTTTAT 57.192 29.630 0.00 0.00 0.00 1.40
3219 3757 3.433306 TGGTCTCATCGTTTTGGGAAT 57.567 42.857 0.00 0.00 0.00 3.01
3221 3759 4.258543 TGGTCTCATCGTTTTGGGAATAC 58.741 43.478 0.00 0.00 0.00 1.89
3246 3784 4.686191 ACAAAAGGTTGATGCCAAATCA 57.314 36.364 0.00 0.00 38.20 2.57
3247 3785 4.379652 ACAAAAGGTTGATGCCAAATCAC 58.620 39.130 0.00 0.00 38.20 3.06
3248 3786 4.101430 ACAAAAGGTTGATGCCAAATCACT 59.899 37.500 0.00 0.00 38.20 3.41
3249 3787 5.304101 ACAAAAGGTTGATGCCAAATCACTA 59.696 36.000 0.00 0.00 38.20 2.74
3250 3788 5.649782 AAAGGTTGATGCCAAATCACTAG 57.350 39.130 0.00 0.00 33.49 2.57
3251 3789 4.307032 AGGTTGATGCCAAATCACTAGT 57.693 40.909 0.00 0.00 33.49 2.57
3252 3790 5.435686 AGGTTGATGCCAAATCACTAGTA 57.564 39.130 0.00 0.00 33.49 1.82
3253 3791 5.431765 AGGTTGATGCCAAATCACTAGTAG 58.568 41.667 0.00 0.00 33.49 2.57
3254 3792 5.189736 AGGTTGATGCCAAATCACTAGTAGA 59.810 40.000 3.59 0.00 33.49 2.59
3255 3793 5.880332 GGTTGATGCCAAATCACTAGTAGAA 59.120 40.000 3.59 0.00 33.49 2.10
3256 3794 6.374333 GGTTGATGCCAAATCACTAGTAGAAA 59.626 38.462 3.59 0.00 33.49 2.52
3257 3795 7.094377 GGTTGATGCCAAATCACTAGTAGAAAA 60.094 37.037 3.59 0.00 33.49 2.29
3258 3796 7.377766 TGATGCCAAATCACTAGTAGAAAAC 57.622 36.000 3.59 0.00 0.00 2.43
3259 3797 6.939730 TGATGCCAAATCACTAGTAGAAAACA 59.060 34.615 3.59 0.00 0.00 2.83
3260 3798 6.801539 TGCCAAATCACTAGTAGAAAACAG 57.198 37.500 3.59 0.00 0.00 3.16
3261 3799 5.705441 TGCCAAATCACTAGTAGAAAACAGG 59.295 40.000 3.59 0.60 0.00 4.00
3262 3800 5.123979 GCCAAATCACTAGTAGAAAACAGGG 59.876 44.000 3.59 0.00 0.00 4.45
3263 3801 5.123979 CCAAATCACTAGTAGAAAACAGGGC 59.876 44.000 3.59 0.00 0.00 5.19
3264 3802 5.763876 AATCACTAGTAGAAAACAGGGCT 57.236 39.130 3.59 0.00 0.00 5.19
3265 3803 5.763876 ATCACTAGTAGAAAACAGGGCTT 57.236 39.130 3.59 0.00 0.00 4.35
3266 3804 5.562298 TCACTAGTAGAAAACAGGGCTTT 57.438 39.130 3.59 0.00 0.00 3.51
3267 3805 5.305585 TCACTAGTAGAAAACAGGGCTTTG 58.694 41.667 3.59 0.00 0.00 2.77
3268 3806 4.455877 CACTAGTAGAAAACAGGGCTTTGG 59.544 45.833 3.59 0.00 0.00 3.28
3269 3807 3.595190 AGTAGAAAACAGGGCTTTGGT 57.405 42.857 0.00 0.00 0.00 3.67
3270 3808 3.487372 AGTAGAAAACAGGGCTTTGGTC 58.513 45.455 0.00 0.00 0.00 4.02
3271 3809 2.452600 AGAAAACAGGGCTTTGGTCA 57.547 45.000 0.00 0.00 0.00 4.02
3272 3810 2.031870 AGAAAACAGGGCTTTGGTCAC 58.968 47.619 0.00 0.00 0.00 3.67
3273 3811 1.754226 GAAAACAGGGCTTTGGTCACA 59.246 47.619 0.00 0.00 0.00 3.58
3274 3812 1.402787 AAACAGGGCTTTGGTCACAG 58.597 50.000 0.00 0.00 0.00 3.66
3275 3813 0.468029 AACAGGGCTTTGGTCACAGG 60.468 55.000 0.00 0.00 0.00 4.00
3276 3814 1.604593 CAGGGCTTTGGTCACAGGG 60.605 63.158 0.00 0.00 0.00 4.45
3277 3815 2.991540 GGGCTTTGGTCACAGGGC 60.992 66.667 0.00 0.00 0.00 5.19
3278 3816 2.203480 GGCTTTGGTCACAGGGCA 60.203 61.111 0.00 0.00 0.00 5.36
3279 3817 1.832167 GGCTTTGGTCACAGGGCAA 60.832 57.895 0.00 0.00 0.00 4.52
3280 3818 1.187567 GGCTTTGGTCACAGGGCAAT 61.188 55.000 0.00 0.00 0.00 3.56
3281 3819 1.544724 GCTTTGGTCACAGGGCAATA 58.455 50.000 0.00 0.00 0.00 1.90
3282 3820 2.102578 GCTTTGGTCACAGGGCAATAT 58.897 47.619 0.00 0.00 0.00 1.28
3283 3821 2.497273 GCTTTGGTCACAGGGCAATATT 59.503 45.455 0.00 0.00 0.00 1.28
3284 3822 3.055891 GCTTTGGTCACAGGGCAATATTT 60.056 43.478 0.00 0.00 0.00 1.40
3285 3823 4.747810 CTTTGGTCACAGGGCAATATTTC 58.252 43.478 0.00 0.00 0.00 2.17
3286 3824 3.448093 TGGTCACAGGGCAATATTTCA 57.552 42.857 0.00 0.00 0.00 2.69
3287 3825 3.088532 TGGTCACAGGGCAATATTTCAC 58.911 45.455 0.00 0.00 0.00 3.18
3288 3826 3.088532 GGTCACAGGGCAATATTTCACA 58.911 45.455 0.00 0.00 0.00 3.58
3289 3827 3.701040 GGTCACAGGGCAATATTTCACAT 59.299 43.478 0.00 0.00 0.00 3.21
3290 3828 4.160252 GGTCACAGGGCAATATTTCACATT 59.840 41.667 0.00 0.00 0.00 2.71
3291 3829 5.359576 GGTCACAGGGCAATATTTCACATTA 59.640 40.000 0.00 0.00 0.00 1.90
3292 3830 6.460123 GGTCACAGGGCAATATTTCACATTAG 60.460 42.308 0.00 0.00 0.00 1.73
3293 3831 6.095440 GTCACAGGGCAATATTTCACATTAGT 59.905 38.462 0.00 0.00 0.00 2.24
3294 3832 6.318648 TCACAGGGCAATATTTCACATTAGTC 59.681 38.462 0.00 0.00 0.00 2.59
3295 3833 5.594317 ACAGGGCAATATTTCACATTAGTCC 59.406 40.000 0.00 0.00 0.00 3.85
3296 3834 5.010012 CAGGGCAATATTTCACATTAGTCCC 59.990 44.000 0.00 0.00 0.00 4.46
3297 3835 4.023193 GGGCAATATTTCACATTAGTCCCG 60.023 45.833 0.00 0.00 0.00 5.14
3298 3836 4.023193 GGCAATATTTCACATTAGTCCCGG 60.023 45.833 0.00 0.00 0.00 5.73
3299 3837 4.578928 GCAATATTTCACATTAGTCCCGGT 59.421 41.667 0.00 0.00 0.00 5.28
3300 3838 5.067283 GCAATATTTCACATTAGTCCCGGTT 59.933 40.000 0.00 0.00 0.00 4.44
3301 3839 6.725246 CAATATTTCACATTAGTCCCGGTTC 58.275 40.000 0.00 0.00 0.00 3.62
3302 3840 3.773418 TTTCACATTAGTCCCGGTTCA 57.227 42.857 0.00 0.00 0.00 3.18
3303 3841 3.328382 TTCACATTAGTCCCGGTTCAG 57.672 47.619 0.00 0.00 0.00 3.02
3304 3842 2.253610 TCACATTAGTCCCGGTTCAGT 58.746 47.619 0.00 0.00 0.00 3.41
3305 3843 2.232941 TCACATTAGTCCCGGTTCAGTC 59.767 50.000 0.00 0.00 0.00 3.51
3306 3844 2.028476 CACATTAGTCCCGGTTCAGTCA 60.028 50.000 0.00 0.00 0.00 3.41
3307 3845 2.028385 ACATTAGTCCCGGTTCAGTCAC 60.028 50.000 0.00 0.00 0.00 3.67
3308 3846 0.599558 TTAGTCCCGGTTCAGTCACG 59.400 55.000 0.00 0.00 0.00 4.35
3309 3847 0.250858 TAGTCCCGGTTCAGTCACGA 60.251 55.000 0.00 0.00 0.00 4.35
3310 3848 1.111116 AGTCCCGGTTCAGTCACGAA 61.111 55.000 0.00 0.00 0.00 3.85
3311 3849 0.942884 GTCCCGGTTCAGTCACGAAC 60.943 60.000 0.00 4.51 43.75 3.95
3315 3853 3.946907 GTTCAGTCACGAACCGGG 58.053 61.111 6.32 0.00 39.52 5.73
3316 3854 1.364901 GTTCAGTCACGAACCGGGA 59.635 57.895 6.32 0.00 39.52 5.14
3323 3861 1.259609 TCACGAACCGGGACTAATGT 58.740 50.000 6.32 0.00 32.99 2.71
3324 3862 1.067425 TCACGAACCGGGACTAATGTG 60.067 52.381 6.32 4.66 32.99 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
143 149 5.465056 GCTCCAATTTTCAATTTTTGGTCGA 59.535 36.000 0.00 0.00 39.67 4.20
144 150 5.236047 TGCTCCAATTTTCAATTTTTGGTCG 59.764 36.000 0.00 0.00 39.67 4.79
147 153 8.874744 AAAATGCTCCAATTTTCAATTTTTGG 57.125 26.923 0.00 0.00 35.33 3.28
332 350 4.578105 TGTGTTTTTGGAAAATGAATGGGC 59.422 37.500 0.00 0.00 0.00 5.36
334 352 9.583765 AAAAATGTGTTTTTGGAAAATGAATGG 57.416 25.926 0.00 0.00 43.82 3.16
478 496 5.128827 GTGGTCCTTTTCCTTTTCTTTCCTT 59.871 40.000 0.00 0.00 0.00 3.36
479 497 4.649674 GTGGTCCTTTTCCTTTTCTTTCCT 59.350 41.667 0.00 0.00 0.00 3.36
490 508 3.381590 GCAGGATATTGTGGTCCTTTTCC 59.618 47.826 0.00 0.00 42.09 3.13
502 520 2.095853 AGCAAACGTTCGCAGGATATTG 59.904 45.455 14.59 0.00 0.00 1.90
503 521 2.095853 CAGCAAACGTTCGCAGGATATT 59.904 45.455 14.59 0.00 0.00 1.28
510 528 1.641140 CTCACAGCAAACGTTCGCA 59.359 52.632 14.59 0.00 0.00 5.10
511 529 1.082756 CCTCACAGCAAACGTTCGC 60.083 57.895 2.15 2.15 0.00 4.70
520 538 4.824537 TGCAAATACTAAAACCTCACAGCA 59.175 37.500 0.00 0.00 0.00 4.41
530 548 9.784680 TGTCTAAAACGTTTGCAAATACTAAAA 57.215 25.926 16.21 0.00 0.00 1.52
531 549 9.784680 TTGTCTAAAACGTTTGCAAATACTAAA 57.215 25.926 16.21 0.00 0.00 1.85
534 552 8.751335 CAATTGTCTAAAACGTTTGCAAATACT 58.249 29.630 16.21 0.00 0.00 2.12
541 559 5.942325 ACACAATTGTCTAAAACGTTTGC 57.058 34.783 15.46 6.28 0.00 3.68
555 573 4.057432 GTGTGATTCCCCAAACACAATTG 58.943 43.478 3.24 3.24 43.21 2.32
560 578 2.293399 GTGAGTGTGATTCCCCAAACAC 59.707 50.000 0.00 0.00 42.55 3.32
562 580 2.863809 AGTGAGTGTGATTCCCCAAAC 58.136 47.619 0.00 0.00 0.00 2.93
565 583 4.927267 ATAAAGTGAGTGTGATTCCCCA 57.073 40.909 0.00 0.00 0.00 4.96
605 623 6.295802 CCACATGACCCAAATGTAATTCCTTT 60.296 38.462 0.00 0.00 33.67 3.11
643 661 0.175989 TGCCACAACGCCGTCATATA 59.824 50.000 0.00 0.00 0.00 0.86
721 751 3.518590 CCTGGATCTTTCTTTGCATTGC 58.481 45.455 0.46 0.46 0.00 3.56
723 753 3.102204 CCCCTGGATCTTTCTTTGCATT 58.898 45.455 0.00 0.00 0.00 3.56
725 755 1.710244 TCCCCTGGATCTTTCTTTGCA 59.290 47.619 0.00 0.00 0.00 4.08
727 757 4.307032 TCTTCCCCTGGATCTTTCTTTG 57.693 45.455 0.00 0.00 0.00 2.77
731 761 4.464244 CCTTTTTCTTCCCCTGGATCTTTC 59.536 45.833 0.00 0.00 0.00 2.62
743 773 2.094700 GTGATTCCCGCCTTTTTCTTCC 60.095 50.000 0.00 0.00 0.00 3.46
769 799 1.152989 GCTGGCTCTGCTTCGATCTG 61.153 60.000 0.00 0.00 0.00 2.90
775 805 2.338785 GGTTGGCTGGCTCTGCTTC 61.339 63.158 2.00 0.00 0.00 3.86
840 870 2.430367 GGTGGTGGTGGTGGAGTC 59.570 66.667 0.00 0.00 0.00 3.36
841 871 3.556306 CGGTGGTGGTGGTGGAGT 61.556 66.667 0.00 0.00 0.00 3.85
960 990 4.496336 ATCGAAGGCAGGCAGGGC 62.496 66.667 0.00 0.00 0.00 5.19
1318 1348 2.136878 ATCGAGCGAGCTGGGGATT 61.137 57.895 0.84 0.00 0.00 3.01
1319 1349 2.522923 ATCGAGCGAGCTGGGGAT 60.523 61.111 0.84 0.00 0.00 3.85
1320 1350 3.531207 CATCGAGCGAGCTGGGGA 61.531 66.667 0.84 0.00 0.00 4.81
1322 1352 2.865598 ATCCATCGAGCGAGCTGGG 61.866 63.158 0.84 0.00 0.00 4.45
1324 1354 0.038435 ATCATCCATCGAGCGAGCTG 60.038 55.000 0.84 0.00 0.00 4.24
1325 1355 0.678395 AATCATCCATCGAGCGAGCT 59.322 50.000 0.00 0.00 0.00 4.09
1337 1374 6.949352 ATGTGGTACTGAAATCAATCATCC 57.051 37.500 0.00 0.00 0.00 3.51
1349 1387 7.182817 ACTAGCATCTTTTATGTGGTACTGA 57.817 36.000 0.00 0.00 0.00 3.41
1350 1388 7.549134 TGAACTAGCATCTTTTATGTGGTACTG 59.451 37.037 0.00 0.00 0.00 2.74
1355 1393 5.220931 GCCTGAACTAGCATCTTTTATGTGG 60.221 44.000 0.00 0.00 0.00 4.17
1371 1437 4.973168 TCTTGTATTGTGAAGCCTGAACT 58.027 39.130 0.00 0.00 0.00 3.01
1375 1441 3.310774 CCGATCTTGTATTGTGAAGCCTG 59.689 47.826 0.00 0.00 0.00 4.85
1399 1465 2.852413 CCTGCAACTATAGTCGAACACG 59.148 50.000 5.70 0.00 0.00 4.49
1407 1473 6.607004 AGTTAAGTCACCTGCAACTATAGT 57.393 37.500 0.00 0.00 29.51 2.12
1410 1476 5.865085 TCAAGTTAAGTCACCTGCAACTAT 58.135 37.500 0.00 0.00 30.54 2.12
1412 1478 4.130118 CTCAAGTTAAGTCACCTGCAACT 58.870 43.478 0.00 0.00 31.47 3.16
1417 1483 7.548196 TTTGTTACTCAAGTTAAGTCACCTG 57.452 36.000 0.00 0.00 37.35 4.00
1420 1486 9.911980 GTACTTTTGTTACTCAAGTTAAGTCAC 57.088 33.333 5.36 0.00 36.57 3.67
1452 1521 7.375280 GCTTGAACGAAAATCTGATCATATGTG 59.625 37.037 1.90 0.00 0.00 3.21
1495 1564 2.609737 GGTACTTCTGTCACTTGGGACG 60.610 54.545 0.00 0.00 40.72 4.79
1546 1623 1.497991 GCCACATCATGCATGCATTC 58.502 50.000 30.32 9.76 35.65 2.67
1570 1647 3.062763 CTGCACTGAACTTGGTACAGAG 58.937 50.000 0.00 0.00 42.39 3.35
1736 1845 7.945134 AGTTGCAATCTTGTAAGAACATCTTT 58.055 30.769 0.59 0.00 37.89 2.52
1771 1880 2.564947 CACACCCCTCTAGATGGATAGC 59.435 54.545 15.13 0.00 0.00 2.97
1775 1884 0.339859 AGCACACCCCTCTAGATGGA 59.660 55.000 15.13 0.00 0.00 3.41
1776 1885 0.755686 GAGCACACCCCTCTAGATGG 59.244 60.000 7.07 7.07 0.00 3.51
1799 1911 1.669760 TAGCAACGGGGAAAGCACG 60.670 57.895 0.00 0.00 0.00 5.34
1818 1930 2.357396 GCGGCAAAAGCAAAGGGG 60.357 61.111 0.00 0.00 34.19 4.79
1838 1950 2.283298 GTGACCATGACCATAGTGCTG 58.717 52.381 0.00 0.00 0.00 4.41
1839 1951 1.134699 CGTGACCATGACCATAGTGCT 60.135 52.381 0.00 0.00 0.00 4.40
1840 1952 1.290203 CGTGACCATGACCATAGTGC 58.710 55.000 0.00 0.00 0.00 4.40
1942 2087 1.068333 GCAATCGTGTGGCACAATCTT 60.068 47.619 23.90 12.53 44.16 2.40
2015 2162 5.596772 TGCTAGATACTGCACAAGTACCATA 59.403 40.000 0.00 0.00 44.20 2.74
2078 2231 1.374758 CACCTCCACCTCGCACTTC 60.375 63.158 0.00 0.00 0.00 3.01
2315 2468 0.176680 TCCGATTCTCTCAGGCTTGC 59.823 55.000 0.00 0.00 0.00 4.01
2337 2490 1.515088 CAGTTGCGAGCGTCGAGAT 60.515 57.895 10.82 0.00 43.74 2.75
2347 2500 1.554617 TCTGATCCAATCCAGTTGCGA 59.445 47.619 0.00 0.00 36.46 5.10
2395 2555 8.488668 TCATCACATCAGAAGGAGAATAATTCA 58.511 33.333 0.00 0.00 0.00 2.57
2396 2556 8.899427 TCATCACATCAGAAGGAGAATAATTC 57.101 34.615 0.00 0.00 0.00 2.17
2500 2660 7.946219 TCATCATGCAATAGATGGGTAATCTTT 59.054 33.333 20.27 0.00 43.52 2.52
2510 2674 8.726988 TGTAACATCATCATCATGCAATAGATG 58.273 33.333 16.61 16.61 42.25 2.90
2517 2681 6.037830 CAGACTTGTAACATCATCATCATGCA 59.962 38.462 0.00 0.00 0.00 3.96
2518 2682 6.259387 TCAGACTTGTAACATCATCATCATGC 59.741 38.462 0.00 0.00 0.00 4.06
2519 2683 7.781548 TCAGACTTGTAACATCATCATCATG 57.218 36.000 0.00 0.00 0.00 3.07
2520 2684 7.991460 ACATCAGACTTGTAACATCATCATCAT 59.009 33.333 0.00 0.00 0.00 2.45
2523 2687 9.842775 ATTACATCAGACTTGTAACATCATCAT 57.157 29.630 2.55 0.00 41.08 2.45
2534 2698 9.376075 CTGAAGAACATATTACATCAGACTTGT 57.624 33.333 0.00 0.00 35.91 3.16
2568 2754 4.475944 CAACACACTGCTGGTTAATTAGC 58.524 43.478 6.89 6.89 40.29 3.09
2577 2763 1.299620 GCTTGCAACACACTGCTGG 60.300 57.895 0.00 0.00 43.07 4.85
2586 2772 1.298264 CGCTTTCGTGCTTGCAACA 60.298 52.632 0.00 0.00 0.00 3.33
2587 2773 3.514546 CGCTTTCGTGCTTGCAAC 58.485 55.556 0.00 0.00 0.00 4.17
2609 2795 1.082561 TCGACGACCGAAACTGACG 60.083 57.895 0.00 0.00 45.43 4.35
2631 2817 2.786539 TATCGATGCCGCAGCCCATC 62.787 60.000 8.54 9.62 38.69 3.51
2639 2825 2.094700 TCTAGAACCATATCGATGCCGC 60.095 50.000 8.54 0.00 35.37 6.53
2640 2826 3.850122 TCTAGAACCATATCGATGCCG 57.150 47.619 8.54 0.00 37.07 5.69
2653 2839 8.982723 TGCCCATATATTCCTCTAATCTAGAAC 58.017 37.037 0.00 0.00 33.75 3.01
2675 2861 2.088178 CAAAAGTCGCGCATTGCCC 61.088 57.895 8.75 0.00 42.08 5.36
2740 2926 2.076622 CTAGGGGCGATGACTGACGG 62.077 65.000 0.00 0.00 0.00 4.79
2752 2938 1.768349 GGATAAAGGGGCTAGGGGC 59.232 63.158 0.00 0.00 40.90 5.80
2776 2962 1.068281 AGCTCTGATACTCATGTGCCG 59.932 52.381 0.00 0.00 0.00 5.69
2787 2973 2.493675 AGCTTTCGTCACAGCTCTGATA 59.506 45.455 3.60 0.00 43.12 2.15
2847 3033 1.597854 CTGGCCAACGTGCTTCTCA 60.598 57.895 7.01 0.00 0.00 3.27
2852 3038 0.541392 TATCATCTGGCCAACGTGCT 59.459 50.000 7.01 0.00 0.00 4.40
2861 3047 5.288543 GAAACCATCGAATATCATCTGGC 57.711 43.478 0.00 0.00 0.00 4.85
2875 3061 2.125832 TCGTCGCCCGAAACCATC 60.126 61.111 0.00 0.00 44.03 3.51
2884 3070 1.365699 TCTAAAGCAAATCGTCGCCC 58.634 50.000 0.00 0.00 0.00 6.13
2886 3072 4.403453 ACAAATCTAAAGCAAATCGTCGC 58.597 39.130 0.00 0.00 0.00 5.19
2902 3089 8.546597 AACAGGGCATTATTTTACAACAAATC 57.453 30.769 0.00 0.00 0.00 2.17
2916 3103 9.860650 AGTATATTCATACAAAACAGGGCATTA 57.139 29.630 0.00 0.00 39.69 1.90
2919 3106 7.282224 GTGAGTATATTCATACAAAACAGGGCA 59.718 37.037 0.83 0.00 39.69 5.36
2930 3117 6.641314 CACCGGTCTTGTGAGTATATTCATAC 59.359 42.308 2.59 0.00 37.83 2.39
2932 3119 5.601662 CACCGGTCTTGTGAGTATATTCAT 58.398 41.667 2.59 0.00 35.74 2.57
2936 3126 2.764010 TGCACCGGTCTTGTGAGTATAT 59.236 45.455 2.59 0.00 35.74 0.86
2937 3127 2.172679 TGCACCGGTCTTGTGAGTATA 58.827 47.619 2.59 0.00 35.74 1.47
2945 3135 1.167851 ATTGTGATGCACCGGTCTTG 58.832 50.000 2.59 0.00 32.73 3.02
2946 3136 1.909700 AATTGTGATGCACCGGTCTT 58.090 45.000 2.59 0.00 32.73 3.01
3028 3218 9.833917 GCAACTAATCCCCCTATTATTATAGTC 57.166 37.037 0.00 0.00 33.29 2.59
3037 3227 3.726859 TCCATGCAACTAATCCCCCTATT 59.273 43.478 0.00 0.00 0.00 1.73
3043 3234 5.733676 ACATTTTTCCATGCAACTAATCCC 58.266 37.500 0.00 0.00 0.00 3.85
3074 3265 8.701908 ATGCATAAACCATCACATTATCTTCT 57.298 30.769 0.00 0.00 0.00 2.85
3084 3275 9.846248 GAATATCCTTAATGCATAAACCATCAC 57.154 33.333 0.00 0.00 0.00 3.06
3129 3320 5.538433 ACCTTAACTGCAAATTTCTTGGCTA 59.462 36.000 0.00 0.00 32.07 3.93
3135 3672 8.465273 AAGAAGTACCTTAACTGCAAATTTCT 57.535 30.769 0.00 0.00 0.00 2.52
3161 3698 5.469760 CCATAATGTTCTTGTGTGTGACAGA 59.530 40.000 0.00 0.00 35.44 3.41
3219 3757 4.580868 TGGCATCAACCTTTTGTATCGTA 58.419 39.130 0.00 0.00 34.02 3.43
3221 3759 4.433186 TTGGCATCAACCTTTTGTATCG 57.567 40.909 0.00 0.00 34.02 2.92
3224 3762 5.304101 AGTGATTTGGCATCAACCTTTTGTA 59.696 36.000 0.00 0.00 34.02 2.41
3246 3784 4.104261 ACCAAAGCCCTGTTTTCTACTAGT 59.896 41.667 0.00 0.00 0.00 2.57
3247 3785 4.652822 ACCAAAGCCCTGTTTTCTACTAG 58.347 43.478 0.00 0.00 0.00 2.57
3248 3786 4.103469 TGACCAAAGCCCTGTTTTCTACTA 59.897 41.667 0.00 0.00 0.00 1.82
3249 3787 3.117663 TGACCAAAGCCCTGTTTTCTACT 60.118 43.478 0.00 0.00 0.00 2.57
3250 3788 3.004419 GTGACCAAAGCCCTGTTTTCTAC 59.996 47.826 0.00 0.00 0.00 2.59
3251 3789 3.219281 GTGACCAAAGCCCTGTTTTCTA 58.781 45.455 0.00 0.00 0.00 2.10
3252 3790 2.031870 GTGACCAAAGCCCTGTTTTCT 58.968 47.619 0.00 0.00 0.00 2.52
3253 3791 1.754226 TGTGACCAAAGCCCTGTTTTC 59.246 47.619 0.00 0.00 0.00 2.29
3254 3792 1.756538 CTGTGACCAAAGCCCTGTTTT 59.243 47.619 0.00 0.00 0.00 2.43
3255 3793 1.402787 CTGTGACCAAAGCCCTGTTT 58.597 50.000 0.00 0.00 0.00 2.83
3256 3794 0.468029 CCTGTGACCAAAGCCCTGTT 60.468 55.000 0.00 0.00 0.00 3.16
3257 3795 1.151450 CCTGTGACCAAAGCCCTGT 59.849 57.895 0.00 0.00 0.00 4.00
3258 3796 1.604593 CCCTGTGACCAAAGCCCTG 60.605 63.158 0.00 0.00 0.00 4.45
3259 3797 2.846532 CCCTGTGACCAAAGCCCT 59.153 61.111 0.00 0.00 0.00 5.19
3260 3798 2.991540 GCCCTGTGACCAAAGCCC 60.992 66.667 0.00 0.00 0.00 5.19
3261 3799 1.187567 ATTGCCCTGTGACCAAAGCC 61.188 55.000 0.00 0.00 0.00 4.35
3262 3800 1.544724 TATTGCCCTGTGACCAAAGC 58.455 50.000 0.00 0.00 0.00 3.51
3263 3801 4.220382 TGAAATATTGCCCTGTGACCAAAG 59.780 41.667 0.00 0.00 0.00 2.77
3264 3802 4.021544 GTGAAATATTGCCCTGTGACCAAA 60.022 41.667 0.00 0.00 0.00 3.28
3265 3803 3.509575 GTGAAATATTGCCCTGTGACCAA 59.490 43.478 0.00 0.00 0.00 3.67
3266 3804 3.088532 GTGAAATATTGCCCTGTGACCA 58.911 45.455 0.00 0.00 0.00 4.02
3267 3805 3.088532 TGTGAAATATTGCCCTGTGACC 58.911 45.455 0.00 0.00 0.00 4.02
3268 3806 4.989279 ATGTGAAATATTGCCCTGTGAC 57.011 40.909 0.00 0.00 0.00 3.67
3269 3807 6.186957 ACTAATGTGAAATATTGCCCTGTGA 58.813 36.000 0.00 0.00 0.00 3.58
3270 3808 6.455360 ACTAATGTGAAATATTGCCCTGTG 57.545 37.500 0.00 0.00 0.00 3.66
3271 3809 5.594317 GGACTAATGTGAAATATTGCCCTGT 59.406 40.000 0.00 0.00 0.00 4.00
3272 3810 5.010012 GGGACTAATGTGAAATATTGCCCTG 59.990 44.000 0.00 0.00 34.32 4.45
3273 3811 5.140454 GGGACTAATGTGAAATATTGCCCT 58.860 41.667 0.00 0.00 34.32 5.19
3274 3812 4.023193 CGGGACTAATGTGAAATATTGCCC 60.023 45.833 0.00 0.00 34.03 5.36
3275 3813 4.023193 CCGGGACTAATGTGAAATATTGCC 60.023 45.833 0.00 0.00 0.00 4.52
3276 3814 4.578928 ACCGGGACTAATGTGAAATATTGC 59.421 41.667 6.32 0.00 0.00 3.56
3277 3815 6.317642 TGAACCGGGACTAATGTGAAATATTG 59.682 38.462 6.32 0.00 0.00 1.90
3278 3816 6.419791 TGAACCGGGACTAATGTGAAATATT 58.580 36.000 6.32 0.00 0.00 1.28
3279 3817 5.996644 TGAACCGGGACTAATGTGAAATAT 58.003 37.500 6.32 0.00 0.00 1.28
3280 3818 5.046159 ACTGAACCGGGACTAATGTGAAATA 60.046 40.000 6.32 0.00 0.00 1.40
3281 3819 4.261801 CTGAACCGGGACTAATGTGAAAT 58.738 43.478 6.32 0.00 0.00 2.17
3282 3820 3.071892 ACTGAACCGGGACTAATGTGAAA 59.928 43.478 6.32 0.00 0.00 2.69
3283 3821 2.635915 ACTGAACCGGGACTAATGTGAA 59.364 45.455 6.32 0.00 0.00 3.18
3284 3822 2.232941 GACTGAACCGGGACTAATGTGA 59.767 50.000 6.32 0.00 0.00 3.58
3285 3823 2.028476 TGACTGAACCGGGACTAATGTG 60.028 50.000 6.32 0.00 0.00 3.21
3286 3824 2.028385 GTGACTGAACCGGGACTAATGT 60.028 50.000 6.32 0.00 0.00 2.71
3287 3825 2.618053 GTGACTGAACCGGGACTAATG 58.382 52.381 6.32 0.00 0.00 1.90
3288 3826 1.203994 CGTGACTGAACCGGGACTAAT 59.796 52.381 6.32 0.00 0.00 1.73
3289 3827 0.599558 CGTGACTGAACCGGGACTAA 59.400 55.000 6.32 0.00 0.00 2.24
3290 3828 0.250858 TCGTGACTGAACCGGGACTA 60.251 55.000 6.32 0.00 0.00 2.59
3291 3829 1.111116 TTCGTGACTGAACCGGGACT 61.111 55.000 6.32 0.00 0.00 3.85
3292 3830 0.942884 GTTCGTGACTGAACCGGGAC 60.943 60.000 6.32 0.00 41.88 4.46
3293 3831 1.364901 GTTCGTGACTGAACCGGGA 59.635 57.895 6.32 0.00 41.88 5.14
3294 3832 3.946907 GTTCGTGACTGAACCGGG 58.053 61.111 6.32 0.00 41.88 5.73
3298 3836 0.942884 GTCCCGGTTCGTGACTGAAC 60.943 60.000 0.00 10.38 45.91 3.18
3299 3837 1.111116 AGTCCCGGTTCGTGACTGAA 61.111 55.000 9.22 0.00 42.28 3.02
3300 3838 0.250858 TAGTCCCGGTTCGTGACTGA 60.251 55.000 17.52 2.93 43.49 3.41
3301 3839 0.599558 TTAGTCCCGGTTCGTGACTG 59.400 55.000 17.52 0.00 43.49 3.51
3302 3840 1.203994 CATTAGTCCCGGTTCGTGACT 59.796 52.381 13.76 13.76 45.32 3.41
3303 3841 1.067354 ACATTAGTCCCGGTTCGTGAC 60.067 52.381 0.00 0.00 34.71 3.67
3304 3842 1.067425 CACATTAGTCCCGGTTCGTGA 60.067 52.381 0.00 0.00 0.00 4.35
3305 3843 1.355971 CACATTAGTCCCGGTTCGTG 58.644 55.000 0.00 0.00 0.00 4.35
3306 3844 3.826637 CACATTAGTCCCGGTTCGT 57.173 52.632 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.