Multiple sequence alignment - TraesCS7D01G217900

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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 TraesCS7D01G217900 chr7D 100.000 4398 0 0 1 4398 178604684 178609081 0.000000e+00 8122.0
1 TraesCS7D01G217900 chr7A 91.867 2988 154 49 1450 4398 182613214 182616151 0.000000e+00 4089.0
2 TraesCS7D01G217900 chr7A 92.878 688 30 7 693 1376 182612404 182613076 0.000000e+00 981.0
3 TraesCS7D01G217900 chr7A 94.017 351 12 5 12 360 182609327 182609670 1.400000e-144 523.0
4 TraesCS7D01G217900 chr7A 93.277 119 3 3 593 707 182611999 182612116 2.100000e-38 171.0
5 TraesCS7D01G217900 chr7A 100.000 32 0 0 1385 1416 182613068 182613099 4.750000e-05 60.2
6 TraesCS7D01G217900 chr7B 90.316 2344 174 35 1420 3730 144658630 144660953 0.000000e+00 3022.0
7 TraesCS7D01G217900 chr7B 92.824 641 25 10 784 1420 144657975 144658598 0.000000e+00 909.0
8 TraesCS7D01G217900 chr7B 89.077 531 37 7 3870 4398 144661037 144661548 1.330000e-179 640.0
9 TraesCS7D01G217900 chr7B 95.833 336 10 1 12 347 144655875 144656206 1.390000e-149 540.0
10 TraesCS7D01G217900 chr7B 91.892 74 5 1 3773 3845 144660968 144661041 7.780000e-18 102.0


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 TraesCS7D01G217900 chr7D 178604684 178609081 4397 False 8122.00 8122 100.0000 1 4398 1 chr7D.!!$F1 4397
1 TraesCS7D01G217900 chr7A 182609327 182616151 6824 False 1164.84 4089 94.4078 12 4398 5 chr7A.!!$F1 4386
2 TraesCS7D01G217900 chr7B 144655875 144661548 5673 False 1042.60 3022 91.9884 12 4398 5 chr7B.!!$F1 4386

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
596 925 0.098025 CAATTCGCCACGCCGTTATT 59.902 50.000 0.00 0.00 0.00 1.40 F
861 4874 0.245539 CTCCAGCTGGCCACATTTTG 59.754 55.000 28.91 0.00 34.44 2.44 F
1416 5448 1.135046 ATTGCGAGATCGATGAAGCG 58.865 50.000 0.54 1.88 43.02 4.68 F
1942 6063 1.134175 GCTGATAGCTATCCGGCTCTC 59.866 57.143 27.08 5.60 42.97 3.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1632 5752 1.002544 CCCTCTTGAGACCAGTCCAAC 59.997 57.143 0.0 0.0 0.00 3.77 R
1714 5835 1.589414 AGCTCTGAAACCCCTAGCAT 58.411 50.000 0.0 0.0 35.63 3.79 R
3315 7457 1.243342 TTTGCCATCAACCGCCTCTG 61.243 55.000 0.0 0.0 30.75 3.35 R
3740 7888 0.394899 GCCATGTTCCCTCTTCCCTG 60.395 60.000 0.0 0.0 0.00 4.45 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
174 175 3.304659 CCCTGCAATAATCCGCATTACAC 60.305 47.826 0.00 0.00 37.54 2.90
343 344 4.092383 ACCACACGCACGACTAAATTAATC 59.908 41.667 0.00 0.00 0.00 1.75
352 353 6.623743 GCACGACTAAATTAATCGACATGTTC 59.376 38.462 10.88 0.00 39.16 3.18
362 363 1.937359 CGACATGTTCGTTGCAAGAC 58.063 50.000 0.00 0.00 43.24 3.01
364 365 0.586319 ACATGTTCGTTGCAAGACGG 59.414 50.000 10.80 4.79 42.98 4.79
366 367 1.136252 CATGTTCGTTGCAAGACGGAG 60.136 52.381 10.80 0.00 42.98 4.63
381 382 0.937304 CGGAGCCGGTTGACAATATG 59.063 55.000 1.90 0.00 35.56 1.78
394 652 7.029563 GGTTGACAATATGTGTTTCAGGAATC 58.970 38.462 0.00 0.00 41.96 2.52
416 674 3.619233 AAATTCGTGCAAGTACACACC 57.381 42.857 0.00 0.00 40.73 4.16
419 685 0.531090 TCGTGCAAGTACACACCCAC 60.531 55.000 0.00 0.00 40.73 4.61
425 691 2.679930 GCAAGTACACACCCACCCTATC 60.680 54.545 0.00 0.00 0.00 2.08
426 692 2.569853 CAAGTACACACCCACCCTATCA 59.430 50.000 0.00 0.00 0.00 2.15
427 693 3.130734 AGTACACACCCACCCTATCAT 57.869 47.619 0.00 0.00 0.00 2.45
439 705 6.670027 ACCCACCCTATCATTATGAGTATCTC 59.330 42.308 0.29 0.00 34.92 2.75
441 711 7.147759 CCCACCCTATCATTATGAGTATCTCAG 60.148 44.444 0.29 0.00 44.08 3.35
443 713 8.685427 CACCCTATCATTATGAGTATCTCAGAG 58.315 40.741 0.29 0.00 44.08 3.35
451 721 7.531857 TTATGAGTATCTCAGAGATTGGGTC 57.468 40.000 18.38 10.24 44.08 4.46
454 724 2.166907 ATCTCAGAGATTGGGTCGGT 57.833 50.000 7.15 0.00 28.69 4.69
456 726 2.376109 TCTCAGAGATTGGGTCGGTAC 58.624 52.381 0.00 0.00 0.00 3.34
465 735 4.640201 AGATTGGGTCGGTACATCATTTTG 59.360 41.667 0.00 0.00 0.00 2.44
466 736 3.704800 TGGGTCGGTACATCATTTTGA 57.295 42.857 0.00 0.00 0.00 2.69
467 737 3.605634 TGGGTCGGTACATCATTTTGAG 58.394 45.455 0.00 0.00 0.00 3.02
470 740 4.511826 GGGTCGGTACATCATTTTGAGATC 59.488 45.833 0.00 0.00 0.00 2.75
473 743 5.041287 TCGGTACATCATTTTGAGATCGAC 58.959 41.667 0.00 0.00 0.00 4.20
481 751 8.230486 ACATCATTTTGAGATCGACAAAGTTAC 58.770 33.333 16.18 0.00 38.25 2.50
489 759 5.100259 AGATCGACAAAGTTACCACATACG 58.900 41.667 0.00 0.00 0.00 3.06
493 763 4.322804 CGACAAAGTTACCACATACGTCTC 59.677 45.833 0.00 0.00 0.00 3.36
496 766 5.175859 CAAAGTTACCACATACGTCTCCAT 58.824 41.667 0.00 0.00 0.00 3.41
501 771 2.957006 ACCACATACGTCTCCATAGTCC 59.043 50.000 0.00 0.00 0.00 3.85
508 778 1.065701 CGTCTCCATAGTCCACGGAAG 59.934 57.143 0.00 0.00 0.00 3.46
510 780 0.249073 CTCCATAGTCCACGGAAGCG 60.249 60.000 0.00 0.00 0.00 4.68
511 781 1.883084 CCATAGTCCACGGAAGCGC 60.883 63.158 0.00 0.00 0.00 5.92
512 782 1.883084 CATAGTCCACGGAAGCGCC 60.883 63.158 2.29 0.00 0.00 6.53
514 784 2.017559 ATAGTCCACGGAAGCGCCTC 62.018 60.000 2.29 0.00 0.00 4.70
518 788 4.821589 CACGGAAGCGCCTCCTCC 62.822 72.222 22.30 13.47 32.82 4.30
521 791 4.475135 GGAAGCGCCTCCTCCCAC 62.475 72.222 18.09 0.00 32.21 4.61
526 796 2.266055 CGCCTCCTCCCACTGAAC 59.734 66.667 0.00 0.00 0.00 3.18
528 798 2.982130 CCTCCTCCCACTGAACGG 59.018 66.667 0.00 0.00 0.00 4.44
535 805 1.276421 CTCCCACTGAACGGTCATCTT 59.724 52.381 2.20 0.00 31.85 2.40
543 813 6.142817 CACTGAACGGTCATCTTTAAAAAGG 58.857 40.000 2.20 0.00 36.67 3.11
544 814 5.116069 TGAACGGTCATCTTTAAAAAGGC 57.884 39.130 0.00 0.00 36.67 4.35
545 815 4.825085 TGAACGGTCATCTTTAAAAAGGCT 59.175 37.500 0.00 0.00 36.67 4.58
546 816 4.766404 ACGGTCATCTTTAAAAAGGCTG 57.234 40.909 2.77 2.16 36.67 4.85
547 817 4.394729 ACGGTCATCTTTAAAAAGGCTGA 58.605 39.130 2.77 4.20 36.67 4.26
548 818 4.215613 ACGGTCATCTTTAAAAAGGCTGAC 59.784 41.667 19.74 19.74 42.18 3.51
550 820 5.106157 CGGTCATCTTTAAAAAGGCTGACAT 60.106 40.000 24.34 4.74 43.27 3.06
554 824 9.860898 GTCATCTTTAAAAAGGCTGACATAAAT 57.139 29.630 21.37 0.12 42.30 1.40
558 828 9.912634 TCTTTAAAAAGGCTGACATAAATCAAG 57.087 29.630 2.77 0.00 36.67 3.02
563 833 9.612066 AAAAAGGCTGACATAAATCAAGAAAAA 57.388 25.926 0.00 0.00 0.00 1.94
564 834 9.783081 AAAAGGCTGACATAAATCAAGAAAAAT 57.217 25.926 0.00 0.00 0.00 1.82
565 835 8.767478 AAGGCTGACATAAATCAAGAAAAATG 57.233 30.769 0.00 0.00 0.00 2.32
566 836 6.815142 AGGCTGACATAAATCAAGAAAAATGC 59.185 34.615 0.00 0.00 0.00 3.56
567 837 6.237648 GGCTGACATAAATCAAGAAAAATGCG 60.238 38.462 0.00 0.00 0.00 4.73
569 839 7.062138 GCTGACATAAATCAAGAAAAATGCGAA 59.938 33.333 0.00 0.00 0.00 4.70
570 840 8.451687 TGACATAAATCAAGAAAAATGCGAAG 57.548 30.769 0.00 0.00 0.00 3.79
586 915 1.999735 CGAAGTAAGCTCAATTCGCCA 59.000 47.619 6.51 0.00 38.20 5.69
595 924 0.741574 TCAATTCGCCACGCCGTTAT 60.742 50.000 0.00 0.00 0.00 1.89
596 925 0.098025 CAATTCGCCACGCCGTTATT 59.902 50.000 0.00 0.00 0.00 1.40
598 927 0.741574 ATTCGCCACGCCGTTATTGA 60.742 50.000 0.00 0.00 0.00 2.57
599 928 0.741574 TTCGCCACGCCGTTATTGAT 60.742 50.000 0.00 0.00 0.00 2.57
600 929 0.741574 TCGCCACGCCGTTATTGATT 60.742 50.000 0.00 0.00 0.00 2.57
700 2837 4.201724 GGCATCAGTCACAACTCGTAAATC 60.202 45.833 0.00 0.00 31.71 2.17
740 4753 3.006537 GCCACCGCCTAATCTCTATACAA 59.993 47.826 0.00 0.00 0.00 2.41
744 4757 4.900054 ACCGCCTAATCTCTATACAAAGGT 59.100 41.667 0.00 0.00 0.00 3.50
747 4760 7.070322 ACCGCCTAATCTCTATACAAAGGTTTA 59.930 37.037 0.00 0.00 0.00 2.01
748 4761 7.599245 CCGCCTAATCTCTATACAAAGGTTTAG 59.401 40.741 0.00 0.00 31.97 1.85
820 4833 5.463392 GCAATCTTCAGGAAAAAGTCAAACC 59.537 40.000 0.00 0.00 0.00 3.27
859 4872 1.304713 CCTCCAGCTGGCCACATTT 60.305 57.895 28.91 0.00 34.44 2.32
860 4873 0.901580 CCTCCAGCTGGCCACATTTT 60.902 55.000 28.91 0.00 34.44 1.82
861 4874 0.245539 CTCCAGCTGGCCACATTTTG 59.754 55.000 28.91 0.00 34.44 2.44
1348 5364 1.755200 AGCAACCCTCTTCCCCTTTA 58.245 50.000 0.00 0.00 0.00 1.85
1355 5371 3.181387 ACCCTCTTCCCCTTTACTACCTT 60.181 47.826 0.00 0.00 0.00 3.50
1363 5379 4.720273 TCCCCTTTACTACCTTCTGAATCC 59.280 45.833 0.00 0.00 0.00 3.01
1368 5384 7.112779 CCTTTACTACCTTCTGAATCCAACAT 58.887 38.462 0.00 0.00 0.00 2.71
1369 5385 7.611855 CCTTTACTACCTTCTGAATCCAACATT 59.388 37.037 0.00 0.00 0.00 2.71
1370 5386 8.934023 TTTACTACCTTCTGAATCCAACATTT 57.066 30.769 0.00 0.00 0.00 2.32
1371 5387 8.561738 TTACTACCTTCTGAATCCAACATTTC 57.438 34.615 0.00 0.00 0.00 2.17
1372 5388 6.784031 ACTACCTTCTGAATCCAACATTTCT 58.216 36.000 0.00 0.00 0.00 2.52
1373 5389 6.881602 ACTACCTTCTGAATCCAACATTTCTC 59.118 38.462 0.00 0.00 0.00 2.87
1374 5390 5.012893 ACCTTCTGAATCCAACATTTCTCC 58.987 41.667 0.00 0.00 0.00 3.71
1375 5391 5.222213 ACCTTCTGAATCCAACATTTCTCCT 60.222 40.000 0.00 0.00 0.00 3.69
1376 5392 6.012508 ACCTTCTGAATCCAACATTTCTCCTA 60.013 38.462 0.00 0.00 0.00 2.94
1377 5393 7.059156 CCTTCTGAATCCAACATTTCTCCTAT 58.941 38.462 0.00 0.00 0.00 2.57
1378 5394 8.213679 CCTTCTGAATCCAACATTTCTCCTATA 58.786 37.037 0.00 0.00 0.00 1.31
1379 5395 9.618890 CTTCTGAATCCAACATTTCTCCTATAA 57.381 33.333 0.00 0.00 0.00 0.98
1416 5448 1.135046 ATTGCGAGATCGATGAAGCG 58.865 50.000 0.54 1.88 43.02 4.68
1440 5504 6.183359 CGATCAAAACAGTAACGATTTTGCAG 60.183 38.462 9.81 2.95 41.16 4.41
1454 5567 5.445407 CGATTTTGCAGCATGAATGAAAAGG 60.445 40.000 8.77 0.00 39.69 3.11
1528 5641 3.302870 CCGAAACAGTTGGTAAGAACACG 60.303 47.826 0.00 0.00 0.00 4.49
1541 5654 5.525012 GGTAAGAACACGGTAGAAACAAGTT 59.475 40.000 0.00 0.00 0.00 2.66
1586 5706 2.928116 GGTCCTAGCAACGTTCACATAC 59.072 50.000 0.00 0.00 0.00 2.39
1681 5802 6.095377 GGCTTGTATGATTGGAACTTTCAAG 58.905 40.000 0.00 0.00 34.73 3.02
1714 5835 3.569210 CCACCACACCTGGCTGGA 61.569 66.667 18.12 0.00 42.08 3.86
1773 5894 1.301874 AAAAATCGGCCCGTCGTGA 60.302 52.632 1.63 0.00 0.00 4.35
1778 5899 4.124351 CGGCCCGTCGTGAAGCTA 62.124 66.667 0.00 0.00 0.00 3.32
1798 5919 6.334202 AGCTACAATCGAGGAAGTTCTAAAG 58.666 40.000 2.25 0.00 0.00 1.85
1935 6056 7.391554 TGGTTAATTTGATGCTGATAGCTATCC 59.608 37.037 27.08 15.28 42.97 2.59
1938 6059 1.205655 TGATGCTGATAGCTATCCGGC 59.794 52.381 27.08 27.35 42.97 6.13
1942 6063 1.134175 GCTGATAGCTATCCGGCTCTC 59.866 57.143 27.08 5.60 42.97 3.20
1962 6083 6.460399 GCTCTCGCTTAAAAGGAGATTAGAGA 60.460 42.308 0.00 0.00 34.28 3.10
1963 6084 6.797454 TCTCGCTTAAAAGGAGATTAGAGAC 58.203 40.000 6.75 0.00 31.70 3.36
1964 6085 6.377429 TCTCGCTTAAAAGGAGATTAGAGACA 59.623 38.462 6.75 0.00 31.70 3.41
1967 6088 7.068839 TCGCTTAAAAGGAGATTAGAGACATCT 59.931 37.037 0.00 0.00 39.75 2.90
1968 6089 7.381139 CGCTTAAAAGGAGATTAGAGACATCTC 59.619 40.741 0.26 0.26 44.21 2.75
1987 6119 4.023291 TCTCCAGTGTTTTTCTTTTGCCT 58.977 39.130 0.00 0.00 0.00 4.75
2026 6158 3.532641 AGCCACAAAAGGGAGAGAATT 57.467 42.857 0.00 0.00 0.00 2.17
2086 6218 5.123820 GTGCTTGTGCTAGGTATCATTTTCA 59.876 40.000 0.00 0.00 40.48 2.69
2154 6286 7.606858 TCTCAGCTATCAGATCAAACTTTTG 57.393 36.000 0.00 0.00 39.48 2.44
2404 6544 6.037172 AGGCTTTCAACAGCTATTTATACACG 59.963 38.462 0.00 0.00 39.97 4.49
2541 6682 9.537192 TGGTTTAATAGTTATGTCCTGAATACG 57.463 33.333 0.00 0.00 0.00 3.06
2544 6685 9.976511 TTTAATAGTTATGTCCTGAATACGAGG 57.023 33.333 0.00 0.00 0.00 4.63
2556 6697 6.155565 TCCTGAATACGAGGGTTTTCTGAATA 59.844 38.462 0.00 0.00 36.13 1.75
2583 6724 7.807977 ATCATTTGACTACTGAACAACAACT 57.192 32.000 0.00 0.00 0.00 3.16
2586 6727 9.168451 TCATTTGACTACTGAACAACAACTAAA 57.832 29.630 0.00 0.00 0.00 1.85
2616 6758 7.728532 AGTTAAAAGGTGTCTATGGTTTTGGAT 59.271 33.333 0.00 0.00 0.00 3.41
2632 6774 6.150976 GGTTTTGGATGAATCTGACACATGTA 59.849 38.462 0.00 0.00 0.00 2.29
2636 6778 5.061853 GGATGAATCTGACACATGTAGCAT 58.938 41.667 0.00 0.00 0.00 3.79
2637 6779 5.530171 GGATGAATCTGACACATGTAGCATT 59.470 40.000 0.00 0.00 0.00 3.56
2762 6904 3.485463 AAATTTCTGGACCACTGTCGA 57.515 42.857 0.00 0.00 42.73 4.20
3072 7214 7.959109 GGATTTCAACTATTTGCTTCAATTTGC 59.041 33.333 0.00 0.00 32.17 3.68
3158 7300 4.809958 CAGGACAGATACAGAAGAATGCAG 59.190 45.833 0.00 0.00 0.00 4.41
3264 7406 5.536916 CACCTTCCCCTGTAAATAACAACAA 59.463 40.000 0.00 0.00 37.74 2.83
3453 7595 1.123077 ATGCGCCATCTTCAGGTAGA 58.877 50.000 4.18 0.00 0.00 2.59
3577 7723 3.990959 ATCTCTGTGGGGTTCTTTCTC 57.009 47.619 0.00 0.00 0.00 2.87
3579 7725 2.900546 TCTCTGTGGGGTTCTTTCTCTC 59.099 50.000 0.00 0.00 0.00 3.20
3581 7727 2.900546 TCTGTGGGGTTCTTTCTCTCTC 59.099 50.000 0.00 0.00 0.00 3.20
3584 7730 3.716872 TGTGGGGTTCTTTCTCTCTCTTT 59.283 43.478 0.00 0.00 0.00 2.52
3622 7769 4.941873 AGCCTTGTACTTAATTGTAGTGGC 59.058 41.667 10.89 10.89 35.47 5.01
3666 7814 6.035843 AGGCAATTGCAATTAGAAACATACG 58.964 36.000 30.32 9.07 44.36 3.06
3674 7822 8.083462 TGCAATTAGAAACATACGGATGATAC 57.917 34.615 16.36 4.67 36.48 2.24
3683 7831 2.140065 ACGGATGATACAGATGCACG 57.860 50.000 0.00 0.00 0.00 5.34
3684 7832 0.786581 CGGATGATACAGATGCACGC 59.213 55.000 0.00 0.00 0.00 5.34
3685 7833 1.869342 CGGATGATACAGATGCACGCA 60.869 52.381 0.00 0.00 0.00 5.24
3720 7868 5.685511 ACTTCATAAACATTTCGCACAACAC 59.314 36.000 0.00 0.00 0.00 3.32
3736 7884 2.370281 ACACGCATAACTGGACAGAG 57.630 50.000 6.29 0.00 0.00 3.35
3737 7885 1.066858 ACACGCATAACTGGACAGAGG 60.067 52.381 6.29 0.00 0.00 3.69
3738 7886 1.204704 CACGCATAACTGGACAGAGGA 59.795 52.381 6.29 0.00 0.00 3.71
3739 7887 1.899814 ACGCATAACTGGACAGAGGAA 59.100 47.619 6.29 0.00 0.00 3.36
3740 7888 2.271800 CGCATAACTGGACAGAGGAAC 58.728 52.381 6.29 0.00 0.00 3.62
3741 7889 2.353704 CGCATAACTGGACAGAGGAACA 60.354 50.000 6.29 0.00 0.00 3.18
3742 7890 3.265791 GCATAACTGGACAGAGGAACAG 58.734 50.000 6.29 0.00 37.01 3.16
3743 7891 3.866651 CATAACTGGACAGAGGAACAGG 58.133 50.000 6.29 0.00 35.34 4.00
3744 7892 1.059913 AACTGGACAGAGGAACAGGG 58.940 55.000 6.29 0.00 35.34 4.45
3745 7893 0.191064 ACTGGACAGAGGAACAGGGA 59.809 55.000 6.29 0.00 35.34 4.20
3746 7894 1.352083 CTGGACAGAGGAACAGGGAA 58.648 55.000 0.00 0.00 0.00 3.97
3747 7895 1.277557 CTGGACAGAGGAACAGGGAAG 59.722 57.143 0.00 0.00 0.00 3.46
3748 7896 1.132849 TGGACAGAGGAACAGGGAAGA 60.133 52.381 0.00 0.00 0.00 2.87
3749 7897 1.552792 GGACAGAGGAACAGGGAAGAG 59.447 57.143 0.00 0.00 0.00 2.85
3750 7898 1.552792 GACAGAGGAACAGGGAAGAGG 59.447 57.143 0.00 0.00 0.00 3.69
3754 7902 1.279558 GAGGAACAGGGAAGAGGGAAC 59.720 57.143 0.00 0.00 0.00 3.62
3759 7907 0.394899 CAGGGAAGAGGGAACATGGC 60.395 60.000 0.00 0.00 0.00 4.40
3764 7912 2.293170 GAAGAGGGAACATGGCTAAGC 58.707 52.381 0.00 0.00 0.00 3.09
3766 7914 1.065126 AGAGGGAACATGGCTAAGCAC 60.065 52.381 0.00 0.00 0.00 4.40
3770 7918 1.474077 GGAACATGGCTAAGCACAAGG 59.526 52.381 0.00 0.00 0.00 3.61
3776 7924 1.974957 TGGCTAAGCACAAGGTGTAGA 59.025 47.619 0.00 0.00 35.75 2.59
3791 7939 8.812972 ACAAGGTGTAGACAATCAATTAGTAGA 58.187 33.333 0.00 0.00 0.00 2.59
3831 7979 5.769967 GCATCTGTGCTATATTTAGGACG 57.230 43.478 9.59 5.69 46.57 4.79
3909 8059 4.371786 AGCTGACATACACATGATTACCG 58.628 43.478 0.00 0.00 35.96 4.02
3936 8086 7.365741 ACTTCAATCAAACACTATTTCAGCAG 58.634 34.615 0.00 0.00 0.00 4.24
3938 8088 5.769662 TCAATCAAACACTATTTCAGCAGGT 59.230 36.000 0.00 0.00 0.00 4.00
3940 8090 4.973168 TCAAACACTATTTCAGCAGGTCT 58.027 39.130 0.00 0.00 0.00 3.85
4054 8205 1.218196 TCCCAACAAAACAAGGCCCTA 59.782 47.619 0.00 0.00 0.00 3.53
4066 8217 1.371558 GGCCCTATAAGGTGCCTCG 59.628 63.158 14.62 0.00 43.84 4.63
4075 8226 2.045926 GGTGCCTCGGTTGCTGAT 60.046 61.111 0.00 0.00 0.00 2.90
4087 8238 7.431249 CCTCGGTTGCTGATAGTAATAACTTA 58.569 38.462 0.00 0.00 37.15 2.24
4095 8246 9.256477 TGCTGATAGTAATAACTTATTTCACGG 57.744 33.333 0.00 0.00 37.15 4.94
4133 8285 4.410492 AAACTGAGCTTAATTCTGCACG 57.590 40.909 0.00 0.00 0.00 5.34
4134 8286 2.350522 ACTGAGCTTAATTCTGCACGG 58.649 47.619 0.00 6.40 33.49 4.94
4160 8313 5.435557 CACGAGATTTCAACTCACAAAGAC 58.564 41.667 0.00 0.00 34.47 3.01
4280 8433 4.459337 ACGACTCATCTGTCAGACACATAA 59.541 41.667 4.21 0.00 36.82 1.90
4321 8474 9.421806 CAACTTCTAATTATGCAAACAAATGGA 57.578 29.630 0.00 0.00 0.00 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
57 58 3.633116 CGTCGGGGTCAAAGGGGT 61.633 66.667 0.00 0.00 0.00 4.95
59 60 4.323477 TGCGTCGGGGTCAAAGGG 62.323 66.667 0.00 0.00 0.00 3.95
60 61 2.742372 CTGCGTCGGGGTCAAAGG 60.742 66.667 0.00 0.00 0.00 3.11
352 353 3.777925 CGGCTCCGTCTTGCAACG 61.778 66.667 3.92 3.92 42.24 4.10
353 354 3.423154 CCGGCTCCGTCTTGCAAC 61.423 66.667 7.59 0.00 37.81 4.17
354 355 3.469863 AACCGGCTCCGTCTTGCAA 62.470 57.895 0.00 0.00 37.81 4.08
356 357 3.423154 CAACCGGCTCCGTCTTGC 61.423 66.667 0.00 0.00 37.81 4.01
358 359 2.035237 TTGTCAACCGGCTCCGTCTT 62.035 55.000 0.00 0.00 37.81 3.01
359 360 1.827399 ATTGTCAACCGGCTCCGTCT 61.827 55.000 0.00 0.00 37.81 4.18
360 361 0.108520 TATTGTCAACCGGCTCCGTC 60.109 55.000 0.00 0.00 37.81 4.79
362 363 0.937304 CATATTGTCAACCGGCTCCG 59.063 55.000 0.00 0.48 39.44 4.63
364 365 2.356135 ACACATATTGTCAACCGGCTC 58.644 47.619 0.00 0.00 29.79 4.70
366 367 3.057876 TGAAACACATATTGTCAACCGGC 60.058 43.478 0.00 0.00 37.51 6.13
381 382 5.107875 GCACGAATTTTGATTCCTGAAACAC 60.108 40.000 0.00 0.00 0.00 3.32
394 652 3.728718 GGTGTGTACTTGCACGAATTTTG 59.271 43.478 0.00 0.00 41.94 2.44
408 666 3.926058 AATGATAGGGTGGGTGTGTAC 57.074 47.619 0.00 0.00 0.00 2.90
416 674 7.617329 TCTGAGATACTCATAATGATAGGGTGG 59.383 40.741 1.92 0.00 39.92 4.61
419 685 9.645128 ATCTCTGAGATACTCATAATGATAGGG 57.355 37.037 18.24 0.00 39.92 3.53
425 691 7.905265 ACCCAATCTCTGAGATACTCATAATG 58.095 38.462 19.82 11.61 39.92 1.90
426 692 7.093988 CGACCCAATCTCTGAGATACTCATAAT 60.094 40.741 19.82 0.00 39.92 1.28
427 693 6.207614 CGACCCAATCTCTGAGATACTCATAA 59.792 42.308 19.82 0.00 39.92 1.90
439 705 2.430694 TGATGTACCGACCCAATCTCTG 59.569 50.000 0.00 0.00 0.00 3.35
441 711 3.753294 ATGATGTACCGACCCAATCTC 57.247 47.619 0.00 0.00 0.00 2.75
443 713 4.638421 TCAAAATGATGTACCGACCCAATC 59.362 41.667 0.00 0.00 0.00 2.67
448 718 4.209288 CGATCTCAAAATGATGTACCGACC 59.791 45.833 0.00 0.00 0.00 4.79
451 721 4.803613 TGTCGATCTCAAAATGATGTACCG 59.196 41.667 0.00 0.00 0.00 4.02
454 724 7.905604 ACTTTGTCGATCTCAAAATGATGTA 57.094 32.000 11.88 0.00 34.96 2.29
456 726 7.693951 GGTAACTTTGTCGATCTCAAAATGATG 59.306 37.037 11.88 5.33 34.96 3.07
465 735 5.229469 CGTATGTGGTAACTTTGTCGATCTC 59.771 44.000 0.00 0.00 37.61 2.75
466 736 5.100259 CGTATGTGGTAACTTTGTCGATCT 58.900 41.667 0.00 0.00 37.61 2.75
467 737 4.860907 ACGTATGTGGTAACTTTGTCGATC 59.139 41.667 0.00 0.00 37.61 3.69
470 740 4.232221 AGACGTATGTGGTAACTTTGTCG 58.768 43.478 0.00 0.00 37.61 4.35
473 743 4.562082 TGGAGACGTATGTGGTAACTTTG 58.438 43.478 0.00 0.00 37.61 2.77
481 751 2.956333 TGGACTATGGAGACGTATGTGG 59.044 50.000 0.00 0.00 0.00 4.17
489 759 1.202428 GCTTCCGTGGACTATGGAGAC 60.202 57.143 0.00 0.00 45.11 3.36
493 763 1.883084 GCGCTTCCGTGGACTATGG 60.883 63.158 0.00 0.00 36.67 2.74
496 766 2.678934 AGGCGCTTCCGTGGACTA 60.679 61.111 7.64 0.00 40.77 2.59
501 771 4.821589 GGAGGAGGCGCTTCCGTG 62.822 72.222 30.21 0.00 42.29 4.94
508 778 3.706373 TTCAGTGGGAGGAGGCGC 61.706 66.667 0.00 0.00 0.00 6.53
510 780 2.266055 CGTTCAGTGGGAGGAGGC 59.734 66.667 0.00 0.00 0.00 4.70
511 781 1.889530 GACCGTTCAGTGGGAGGAGG 61.890 65.000 5.84 0.00 0.00 4.30
512 782 1.185618 TGACCGTTCAGTGGGAGGAG 61.186 60.000 5.84 0.00 0.00 3.69
514 784 0.108138 GATGACCGTTCAGTGGGAGG 60.108 60.000 0.00 0.00 34.35 4.30
518 788 5.682943 TTTTAAAGATGACCGTTCAGTGG 57.317 39.130 0.00 0.00 34.35 4.00
521 791 5.048713 AGCCTTTTTAAAGATGACCGTTCAG 60.049 40.000 3.84 0.00 38.28 3.02
526 796 4.215399 TGTCAGCCTTTTTAAAGATGACCG 59.785 41.667 23.08 4.75 43.82 4.79
528 798 9.860898 ATTTATGTCAGCCTTTTTAAAGATGAC 57.139 29.630 21.21 21.21 44.21 3.06
543 813 6.527722 TCGCATTTTTCTTGATTTATGTCAGC 59.472 34.615 0.00 0.00 0.00 4.26
544 814 8.451687 TTCGCATTTTTCTTGATTTATGTCAG 57.548 30.769 0.00 0.00 0.00 3.51
545 815 8.081633 ACTTCGCATTTTTCTTGATTTATGTCA 58.918 29.630 0.00 0.00 0.00 3.58
546 816 8.452989 ACTTCGCATTTTTCTTGATTTATGTC 57.547 30.769 0.00 0.00 0.00 3.06
547 817 9.906660 TTACTTCGCATTTTTCTTGATTTATGT 57.093 25.926 0.00 0.00 0.00 2.29
550 820 8.296713 AGCTTACTTCGCATTTTTCTTGATTTA 58.703 29.630 0.00 0.00 0.00 1.40
554 824 5.238432 TGAGCTTACTTCGCATTTTTCTTGA 59.762 36.000 0.00 0.00 0.00 3.02
555 825 5.451908 TGAGCTTACTTCGCATTTTTCTTG 58.548 37.500 0.00 0.00 0.00 3.02
557 827 5.689383 TTGAGCTTACTTCGCATTTTTCT 57.311 34.783 0.00 0.00 0.00 2.52
558 828 6.237045 CGAATTGAGCTTACTTCGCATTTTTC 60.237 38.462 16.04 0.00 34.78 2.29
560 830 5.088739 CGAATTGAGCTTACTTCGCATTTT 58.911 37.500 16.04 0.00 34.78 1.82
561 831 4.651994 CGAATTGAGCTTACTTCGCATTT 58.348 39.130 16.04 0.00 34.78 2.32
563 833 3.933155 CGAATTGAGCTTACTTCGCAT 57.067 42.857 16.04 0.00 34.78 4.73
566 836 1.999735 TGGCGAATTGAGCTTACTTCG 59.000 47.619 21.65 21.65 42.41 3.79
567 837 2.222819 CGTGGCGAATTGAGCTTACTTC 60.223 50.000 0.00 0.00 34.52 3.01
569 839 1.359848 CGTGGCGAATTGAGCTTACT 58.640 50.000 0.00 0.00 34.52 2.24
570 840 0.247695 GCGTGGCGAATTGAGCTTAC 60.248 55.000 0.00 2.79 34.52 2.34
586 915 2.339418 TCAACGAATCAATAACGGCGT 58.661 42.857 6.77 6.77 0.00 5.68
595 924 7.978975 AGAAAAGGTCAAAAATCAACGAATCAA 59.021 29.630 0.00 0.00 0.00 2.57
596 925 7.488322 AGAAAAGGTCAAAAATCAACGAATCA 58.512 30.769 0.00 0.00 0.00 2.57
598 927 9.981114 AATAGAAAAGGTCAAAAATCAACGAAT 57.019 25.926 0.00 0.00 0.00 3.34
599 928 9.458374 GAATAGAAAAGGTCAAAAATCAACGAA 57.542 29.630 0.00 0.00 0.00 3.85
600 929 8.625651 TGAATAGAAAAGGTCAAAAATCAACGA 58.374 29.630 0.00 0.00 0.00 3.85
700 2837 4.520492 GGTGGCATATTCTGATACCTTTGG 59.480 45.833 0.00 0.00 32.57 3.28
820 4833 4.039245 AGGGGATCGTGTGTATATGTTCTG 59.961 45.833 0.00 0.00 0.00 3.02
859 4872 1.295792 GTGTGCTCTGTTTCGTCCAA 58.704 50.000 0.00 0.00 0.00 3.53
860 4873 0.176910 TGTGTGCTCTGTTTCGTCCA 59.823 50.000 0.00 0.00 0.00 4.02
861 4874 1.295792 TTGTGTGCTCTGTTTCGTCC 58.704 50.000 0.00 0.00 0.00 4.79
1011 5024 2.846652 GCGATGATCGTCCCGGACT 61.847 63.158 16.83 0.00 42.81 3.85
1191 5204 4.690719 TTGCCCACCGCCACGTAG 62.691 66.667 0.00 0.00 36.24 3.51
1259 5272 1.677966 TAGACGAAGCTCCGTGGCT 60.678 57.895 0.12 0.00 43.49 4.75
1263 5276 1.367599 CGAGGTAGACGAAGCTCCGT 61.368 60.000 0.00 0.00 46.43 4.69
1348 5364 6.784031 AGAAATGTTGGATTCAGAAGGTAGT 58.216 36.000 0.00 0.00 0.00 2.73
1370 5386 9.998106 GCTAAGGTGAACAAATATTATAGGAGA 57.002 33.333 0.00 0.00 0.00 3.71
1371 5387 9.778741 TGCTAAGGTGAACAAATATTATAGGAG 57.221 33.333 0.00 0.00 0.00 3.69
1376 5392 7.862372 CGCAATGCTAAGGTGAACAAATATTAT 59.138 33.333 2.94 0.00 0.00 1.28
1377 5393 7.066404 TCGCAATGCTAAGGTGAACAAATATTA 59.934 33.333 2.94 0.00 0.00 0.98
1378 5394 6.035843 CGCAATGCTAAGGTGAACAAATATT 58.964 36.000 2.94 0.00 0.00 1.28
1379 5395 5.356751 TCGCAATGCTAAGGTGAACAAATAT 59.643 36.000 2.94 0.00 0.00 1.28
1380 5396 4.697828 TCGCAATGCTAAGGTGAACAAATA 59.302 37.500 2.94 0.00 0.00 1.40
1381 5397 3.505680 TCGCAATGCTAAGGTGAACAAAT 59.494 39.130 2.94 0.00 0.00 2.32
1382 5398 2.881513 TCGCAATGCTAAGGTGAACAAA 59.118 40.909 2.94 0.00 0.00 2.83
1383 5399 2.483877 CTCGCAATGCTAAGGTGAACAA 59.516 45.455 2.94 0.00 0.00 2.83
1416 5448 6.398935 GCTGCAAAATCGTTACTGTTTTGATC 60.399 38.462 18.94 8.39 42.47 2.92
1421 5485 4.300189 TGCTGCAAAATCGTTACTGTTT 57.700 36.364 0.00 0.00 0.00 2.83
1440 5504 9.476202 AGTAACTTTTTACCTTTTCATTCATGC 57.524 29.630 0.00 0.00 38.79 4.06
1467 5580 8.926710 CGATCTTGATGTTAAACTTTGACTACT 58.073 33.333 0.00 0.00 0.00 2.57
1479 5592 3.520290 AGCCGTCGATCTTGATGTTAA 57.480 42.857 0.00 0.00 0.00 2.01
1481 5594 3.187700 GTTAGCCGTCGATCTTGATGTT 58.812 45.455 0.00 0.00 0.00 2.71
1484 5597 3.735237 ATGTTAGCCGTCGATCTTGAT 57.265 42.857 0.00 0.00 0.00 2.57
1486 5599 2.540101 GGAATGTTAGCCGTCGATCTTG 59.460 50.000 0.00 0.00 0.00 3.02
1528 5641 4.885325 TCCAAGACCAAACTTGTTTCTACC 59.115 41.667 0.00 0.00 43.72 3.18
1570 5690 3.743911 CCTTGTGTATGTGAACGTTGCTA 59.256 43.478 5.00 0.00 0.00 3.49
1586 5706 1.186917 TTGCCAGCCAATCCCTTGTG 61.187 55.000 0.00 0.00 0.00 3.33
1632 5752 1.002544 CCCTCTTGAGACCAGTCCAAC 59.997 57.143 0.00 0.00 0.00 3.77
1714 5835 1.589414 AGCTCTGAAACCCCTAGCAT 58.411 50.000 0.00 0.00 35.63 3.79
1759 5880 4.814294 GCTTCACGACGGGCCGAT 62.814 66.667 35.78 17.45 0.00 4.18
1771 5892 4.220821 AGAACTTCCTCGATTGTAGCTTCA 59.779 41.667 0.00 0.00 0.00 3.02
1773 5894 4.810191 AGAACTTCCTCGATTGTAGCTT 57.190 40.909 0.00 0.00 0.00 3.74
1778 5899 5.855045 ACACTTTAGAACTTCCTCGATTGT 58.145 37.500 0.00 0.00 0.00 2.71
1798 5919 2.744202 CCTAGGTCAGCATCAACAACAC 59.256 50.000 0.00 0.00 0.00 3.32
1847 5968 7.691050 GTCAGTATAATTAACACCGAAAAGTGC 59.309 37.037 0.00 0.00 41.67 4.40
1938 6059 6.915843 GTCTCTAATCTCCTTTTAAGCGAGAG 59.084 42.308 12.79 0.00 36.49 3.20
1942 6063 7.206687 AGATGTCTCTAATCTCCTTTTAAGCG 58.793 38.462 0.00 0.00 27.78 4.68
1962 6083 5.351458 GCAAAAGAAAAACACTGGAGATGT 58.649 37.500 0.00 0.00 0.00 3.06
1963 6084 4.746611 GGCAAAAGAAAAACACTGGAGATG 59.253 41.667 0.00 0.00 0.00 2.90
1964 6085 4.651045 AGGCAAAAGAAAAACACTGGAGAT 59.349 37.500 0.00 0.00 0.00 2.75
1967 6088 5.420739 ACTTAGGCAAAAGAAAAACACTGGA 59.579 36.000 6.62 0.00 0.00 3.86
1968 6089 5.660460 ACTTAGGCAAAAGAAAAACACTGG 58.340 37.500 6.62 0.00 0.00 4.00
1970 6091 7.399245 TGTACTTAGGCAAAAGAAAAACACT 57.601 32.000 6.62 0.00 0.00 3.55
1971 6092 7.704899 ACATGTACTTAGGCAAAAGAAAAACAC 59.295 33.333 0.00 0.00 0.00 3.32
1972 6093 7.777095 ACATGTACTTAGGCAAAAGAAAAACA 58.223 30.769 0.00 5.80 0.00 2.83
1973 6094 7.381408 GGACATGTACTTAGGCAAAAGAAAAAC 59.619 37.037 0.00 1.37 0.00 2.43
1987 6119 6.126911 TGTGGCTATCATTGGACATGTACTTA 60.127 38.462 10.05 0.00 0.00 2.24
2026 6158 7.011499 TCTACAAGGTCTACCAAAAGCATTA 57.989 36.000 1.26 0.00 38.89 1.90
2160 6292 4.348863 ACTCCACATATCATTCAGCCTC 57.651 45.455 0.00 0.00 0.00 4.70
2404 6544 9.752961 AAGGTGTAATGGTTTACAAACAAATAC 57.247 29.630 7.12 4.29 46.91 1.89
2540 6681 9.669353 CAAATGATTATATTCAGAAAACCCTCG 57.331 33.333 3.88 0.00 0.00 4.63
2600 6742 6.599244 GTCAGATTCATCCAAAACCATAGACA 59.401 38.462 0.00 0.00 0.00 3.41
2605 6747 5.078949 TGTGTCAGATTCATCCAAAACCAT 58.921 37.500 0.00 0.00 0.00 3.55
2607 6749 5.047802 ACATGTGTCAGATTCATCCAAAACC 60.048 40.000 0.00 0.00 0.00 3.27
2608 6750 6.017400 ACATGTGTCAGATTCATCCAAAAC 57.983 37.500 0.00 0.00 0.00 2.43
2609 6751 6.127925 GCTACATGTGTCAGATTCATCCAAAA 60.128 38.462 9.11 0.00 0.00 2.44
2612 6754 4.080975 TGCTACATGTGTCAGATTCATCCA 60.081 41.667 9.11 0.00 0.00 3.41
2613 6755 4.445453 TGCTACATGTGTCAGATTCATCC 58.555 43.478 9.11 0.00 0.00 3.51
2616 6758 8.510243 AATTAATGCTACATGTGTCAGATTCA 57.490 30.769 9.11 0.00 0.00 2.57
2762 6904 3.068165 GCAGCCAGTTTACCTGAAAGTTT 59.932 43.478 0.00 0.00 44.49 2.66
3158 7300 2.162608 TCTTGACTTCGCAGTAGAGAGC 59.837 50.000 0.00 0.00 31.22 4.09
3223 7365 1.969064 TGAAAATGGTGGCGTCGGG 60.969 57.895 0.00 0.00 0.00 5.14
3264 7406 2.362503 TCGGGGTGCGAGATCTGT 60.363 61.111 0.00 0.00 0.00 3.41
3315 7457 1.243342 TTTGCCATCAACCGCCTCTG 61.243 55.000 0.00 0.00 30.75 3.35
3322 7464 4.757594 TGCTATCATTTTTGCCATCAACC 58.242 39.130 0.00 0.00 30.75 3.77
3494 7636 5.160607 ACACCATGGATCGAGAAGTTTAA 57.839 39.130 21.47 0.00 0.00 1.52
3534 7676 1.337823 GCTGAAAAGCTCCAGGTACGA 60.338 52.381 11.21 0.00 0.00 3.43
3540 7682 4.512198 CAGAGATATGCTGAAAAGCTCCAG 59.488 45.833 6.41 6.41 35.39 3.86
3588 7734 8.644374 ATTAAGTACAAGGCTCATTACCAAAA 57.356 30.769 0.00 0.00 0.00 2.44
3592 7738 7.625828 ACAATTAAGTACAAGGCTCATTACC 57.374 36.000 0.00 0.00 0.00 2.85
3643 7790 5.231991 CCGTATGTTTCTAATTGCAATTGCC 59.768 40.000 30.43 15.29 41.18 4.52
3656 7804 5.928839 GCATCTGTATCATCCGTATGTTTCT 59.071 40.000 0.00 0.00 34.50 2.52
3666 7814 1.869774 TGCGTGCATCTGTATCATCC 58.130 50.000 0.00 0.00 0.00 3.51
3711 7859 0.452618 CCAGTTATGCGTGTTGTGCG 60.453 55.000 0.00 0.00 34.24 5.34
3720 7868 2.271800 GTTCCTCTGTCCAGTTATGCG 58.728 52.381 0.00 0.00 0.00 4.73
3736 7884 1.064825 TGTTCCCTCTTCCCTGTTCC 58.935 55.000 0.00 0.00 0.00 3.62
3737 7885 2.619074 CCATGTTCCCTCTTCCCTGTTC 60.619 54.545 0.00 0.00 0.00 3.18
3738 7886 1.355720 CCATGTTCCCTCTTCCCTGTT 59.644 52.381 0.00 0.00 0.00 3.16
3739 7887 0.995024 CCATGTTCCCTCTTCCCTGT 59.005 55.000 0.00 0.00 0.00 4.00
3740 7888 0.394899 GCCATGTTCCCTCTTCCCTG 60.395 60.000 0.00 0.00 0.00 4.45
3741 7889 0.551131 AGCCATGTTCCCTCTTCCCT 60.551 55.000 0.00 0.00 0.00 4.20
3742 7890 1.213296 TAGCCATGTTCCCTCTTCCC 58.787 55.000 0.00 0.00 0.00 3.97
3743 7891 2.924421 CTTAGCCATGTTCCCTCTTCC 58.076 52.381 0.00 0.00 0.00 3.46
3744 7892 2.293170 GCTTAGCCATGTTCCCTCTTC 58.707 52.381 0.00 0.00 0.00 2.87
3745 7893 1.635487 TGCTTAGCCATGTTCCCTCTT 59.365 47.619 0.29 0.00 0.00 2.85
3746 7894 1.065126 GTGCTTAGCCATGTTCCCTCT 60.065 52.381 0.29 0.00 0.00 3.69
3747 7895 1.340017 TGTGCTTAGCCATGTTCCCTC 60.340 52.381 0.29 0.00 0.00 4.30
3748 7896 0.698238 TGTGCTTAGCCATGTTCCCT 59.302 50.000 0.29 0.00 0.00 4.20
3749 7897 1.474077 CTTGTGCTTAGCCATGTTCCC 59.526 52.381 0.29 0.00 0.00 3.97
3750 7898 1.474077 CCTTGTGCTTAGCCATGTTCC 59.526 52.381 0.29 0.00 0.00 3.62
3754 7902 1.538047 ACACCTTGTGCTTAGCCATG 58.462 50.000 0.29 2.08 36.98 3.66
3759 7907 5.237815 TGATTGTCTACACCTTGTGCTTAG 58.762 41.667 0.00 0.00 36.98 2.18
3764 7912 7.672983 ACTAATTGATTGTCTACACCTTGTG 57.327 36.000 0.00 0.00 39.75 3.33
3766 7914 9.653287 TTCTACTAATTGATTGTCTACACCTTG 57.347 33.333 0.00 0.00 0.00 3.61
3791 7939 5.768662 CAGATGCTCCCTATCAACAATGATT 59.231 40.000 0.00 0.00 43.89 2.57
3794 7942 4.275196 CACAGATGCTCCCTATCAACAATG 59.725 45.833 0.00 0.00 0.00 2.82
3831 7979 2.383368 AGTTGCTGAGCTCACTGATC 57.617 50.000 13.74 2.83 0.00 2.92
3909 8059 8.289618 TGCTGAAATAGTGTTTGATTGAAGTAC 58.710 33.333 0.00 0.00 0.00 2.73
3936 8086 1.197721 CACATTCAGGCGACAAAGACC 59.802 52.381 0.00 0.00 0.00 3.85
3938 8088 2.542020 TCACATTCAGGCGACAAAGA 57.458 45.000 0.00 0.00 0.00 2.52
3940 8090 3.145286 TGAATCACATTCAGGCGACAAA 58.855 40.909 0.00 0.00 43.84 2.83
3983 8133 0.603707 CTGTTGCTCACACCGATGGT 60.604 55.000 0.00 0.00 35.62 3.55
3989 8139 1.009675 CGTTGCTGTTGCTCACACC 60.010 57.895 0.00 0.00 40.48 4.16
4054 8205 0.392998 CAGCAACCGAGGCACCTTAT 60.393 55.000 0.00 0.00 0.00 1.73
4075 8226 7.042950 TGCTGCCGTGAAATAAGTTATTACTA 58.957 34.615 8.54 0.00 33.17 1.82
4133 8285 0.095417 GAGTTGAAATCTCGTGCGCC 59.905 55.000 4.18 0.00 0.00 6.53
4134 8286 0.790207 TGAGTTGAAATCTCGTGCGC 59.210 50.000 0.00 0.00 34.99 6.09
4160 8313 3.807622 TCCACAAGTTTTGAAGTCGCTAG 59.192 43.478 0.00 0.00 0.00 3.42
4194 8347 7.424803 TGTAGTGAACAAATTGGATGTTTCAG 58.575 34.615 0.00 0.00 40.90 3.02
4209 8362 8.220755 AGCTATTTTCTGTTTTGTAGTGAACA 57.779 30.769 0.00 0.00 35.88 3.18
4280 8433 3.821033 AGAAGTTGTAGGCTTTTCGCATT 59.179 39.130 0.00 0.00 41.67 3.56


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

AutoCloner maintained by Alex Coulton.