Multiple sequence alignment - TraesCS7D01G225300

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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 TraesCS7D01G225300 chr7D 100.000 7539 0 0 1 7539 185172080 185164542 0.000000e+00 13923.0
1 TraesCS7D01G225300 chr7D 82.857 595 71 11 3431 4021 58660275 58659708 8.730000e-139 505.0
2 TraesCS7D01G225300 chr7A 94.320 4120 140 40 2887 6981 192877324 192873274 0.000000e+00 6226.0
3 TraesCS7D01G225300 chr7A 89.266 2739 223 31 1 2706 192880021 192877321 0.000000e+00 3363.0
4 TraesCS7D01G225300 chr7A 88.889 450 18 12 7122 7539 192872819 192872370 6.700000e-145 525.0
5 TraesCS7D01G225300 chr7A 99.020 102 0 1 7038 7138 192873249 192873148 1.670000e-41 182.0
6 TraesCS7D01G225300 chr7A 90.789 76 3 2 7079 7153 192873277 192873205 1.730000e-16 99.0
7 TraesCS7D01G225300 chr7B 97.281 2906 51 4 2628 5533 327433531 327430654 0.000000e+00 4903.0
8 TraesCS7D01G225300 chr7B 93.092 1520 59 15 6064 7539 327429999 327428482 0.000000e+00 2183.0
9 TraesCS7D01G225300 chr7B 92.498 1453 79 16 1034 2468 327434973 327433533 0.000000e+00 2052.0
10 TraesCS7D01G225300 chr7B 97.446 509 5 2 5558 6065 327430659 327430158 0.000000e+00 861.0
11 TraesCS7D01G225300 chr7B 83.086 674 94 8 3 656 327450924 327450251 5.040000e-166 595.0
12 TraesCS7D01G225300 chr7B 89.532 363 23 6 640 992 327435605 327435248 5.370000e-121 446.0
13 TraesCS7D01G225300 chrUn 84.820 751 105 4 3276 4021 274026454 274025708 0.000000e+00 747.0
14 TraesCS7D01G225300 chrUn 79.457 516 63 13 3516 4023 314414488 314414968 7.300000e-85 326.0
15 TraesCS7D01G225300 chr5B 84.843 574 79 6 3413 3980 328212909 328212338 8.490000e-159 571.0
16 TraesCS7D01G225300 chr3B 85.057 348 50 2 3413 3759 43692240 43692586 3.350000e-93 353.0
17 TraesCS7D01G225300 chr3B 73.740 377 81 14 47 405 747473072 747472696 1.710000e-26 132.0
18 TraesCS7D01G225300 chr3B 73.186 317 67 12 80 378 744426552 744426868 1.730000e-16 99.0
19 TraesCS7D01G225300 chr5D 77.091 275 54 6 48 317 109564169 109563899 4.710000e-32 150.0
20 TraesCS7D01G225300 chr6B 88.462 52 5 1 600 650 638851003 638851054 2.270000e-05 62.1


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 TraesCS7D01G225300 chr7D 185164542 185172080 7538 True 13923 13923 100.0000 1 7539 1 chr7D.!!$R2 7538
1 TraesCS7D01G225300 chr7D 58659708 58660275 567 True 505 505 82.8570 3431 4021 1 chr7D.!!$R1 590
2 TraesCS7D01G225300 chr7A 192872370 192880021 7651 True 2079 6226 92.4568 1 7539 5 chr7A.!!$R1 7538
3 TraesCS7D01G225300 chr7B 327428482 327435605 7123 True 2089 4903 93.9698 640 7539 5 chr7B.!!$R2 6899
4 TraesCS7D01G225300 chr7B 327450251 327450924 673 True 595 595 83.0860 3 656 1 chr7B.!!$R1 653
5 TraesCS7D01G225300 chrUn 274025708 274026454 746 True 747 747 84.8200 3276 4021 1 chrUn.!!$R1 745
6 TraesCS7D01G225300 chr5B 328212338 328212909 571 True 571 571 84.8430 3413 3980 1 chr5B.!!$R1 567


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
170 179 0.032813 CATTCCCCAGAACCAGGCAT 60.033 55.000 0.00 0.00 33.97 4.40 F
1671 1954 0.466739 GGATCATGGTGGCAGCATCA 60.467 55.000 27.90 18.01 33.46 3.07 F
1944 2229 2.159382 TGGGAGTCAAATTTCTTCCGC 58.841 47.619 0.90 0.00 32.26 5.54 F
2228 2518 2.939298 CCTCAACCCCAACCCCAA 59.061 61.111 0.00 0.00 0.00 4.12 F
2798 3089 3.118592 TGCATGTCGGTACCATGTTATCA 60.119 43.478 13.54 0.00 41.38 2.15 F
4701 4998 1.065701 CACTCCCCTCTTCGTATGTCG 59.934 57.143 0.00 0.00 41.41 4.35 F
4783 5080 0.325933 TCACTGTGGGAAGAGCATGG 59.674 55.000 8.11 0.00 0.00 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2154 2444 0.181587 TTCAGCGGTGGACTTGGAAA 59.818 50.000 15.67 0.0 0.00 3.13 R
2516 2806 2.621070 AGGAGCTAGACCAGGTTCAAA 58.379 47.619 0.00 0.0 34.30 2.69 R
3126 3417 3.314635 GCAGATTCGAAGGAATGCATCTT 59.685 43.478 16.90 0.0 42.86 2.40 R
4071 4368 4.456911 ACAGCACATGGAAGTAACTCAATG 59.543 41.667 0.00 0.0 0.00 2.82 R
4783 5080 0.182299 AGCCAGCTTAGATTGGGAGC 59.818 55.000 5.58 0.0 34.96 4.70 R
6203 6673 1.177401 GTAAAAAGGCCCAGGCTCAG 58.823 55.000 8.89 0.0 37.50 3.35 R
6721 7191 4.213564 ACTCCACAGGAAATAGCTCAAG 57.786 45.455 0.00 0.0 0.00 3.02 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
25 26 5.520376 AAGACCTCCAAATTGTCAGTTTG 57.480 39.130 12.58 12.58 36.55 2.93
29 30 6.263168 AGACCTCCAAATTGTCAGTTTGTAAG 59.737 38.462 16.79 13.52 35.35 2.34
31 32 5.301805 CCTCCAAATTGTCAGTTTGTAAGGT 59.698 40.000 20.35 0.00 35.27 3.50
32 33 6.385649 TCCAAATTGTCAGTTTGTAAGGTC 57.614 37.500 16.79 0.00 35.35 3.85
56 57 0.108709 TTGAATCATGCCCTTTGCGC 60.109 50.000 0.00 0.00 45.60 6.09
68 69 3.109847 TTTGCGCAAGGGAAAGACT 57.890 47.368 23.68 0.00 31.78 3.24
70 71 1.172180 TTGCGCAAGGGAAAGACTGG 61.172 55.000 21.02 0.00 38.28 4.00
122 123 5.233050 CGACATTCACACACCAATCTATCTC 59.767 44.000 0.00 0.00 0.00 2.75
123 124 5.431765 ACATTCACACACCAATCTATCTCC 58.568 41.667 0.00 0.00 0.00 3.71
127 128 2.505819 ACACACCAATCTATCTCCCCAC 59.494 50.000 0.00 0.00 0.00 4.61
128 129 2.127708 ACACCAATCTATCTCCCCACC 58.872 52.381 0.00 0.00 0.00 4.61
146 151 3.880040 CCCCCAAATGAATTTGCCC 57.120 52.632 9.77 0.00 44.32 5.36
154 159 5.005094 CCAAATGAATTTGCCCTTGTCATT 58.995 37.500 9.77 0.00 44.32 2.57
157 162 2.566724 TGAATTTGCCCTTGTCATTCCC 59.433 45.455 0.00 0.00 0.00 3.97
165 170 1.075374 CCTTGTCATTCCCCAGAACCA 59.925 52.381 0.00 0.00 33.97 3.67
166 171 2.440409 CTTGTCATTCCCCAGAACCAG 58.560 52.381 0.00 0.00 33.97 4.00
167 172 0.698238 TGTCATTCCCCAGAACCAGG 59.302 55.000 0.00 0.00 33.97 4.45
170 179 0.032813 CATTCCCCAGAACCAGGCAT 60.033 55.000 0.00 0.00 33.97 4.40
186 195 1.406903 GCATTGCCCCTAAGCAGATT 58.593 50.000 0.00 0.00 45.13 2.40
225 234 8.419076 ACATCAACATTAAGTTTGACAAAACC 57.581 30.769 1.27 0.00 45.75 3.27
309 318 8.440833 ACAAAATTAGTTGTAAGCGTACAGATC 58.559 33.333 12.27 7.80 41.25 2.75
324 334 3.736094 ACAGATCCCCATAGAAACCTGA 58.264 45.455 0.00 0.00 0.00 3.86
335 345 6.014242 CCCATAGAAACCTGATATGCACTCTA 60.014 42.308 0.00 0.00 0.00 2.43
372 385 2.525368 AGTTTATGCCTTTCCCACCAC 58.475 47.619 0.00 0.00 0.00 4.16
378 391 3.182887 TGCCTTTCCCACCACAAATAT 57.817 42.857 0.00 0.00 0.00 1.28
389 402 4.096382 CCACCACAAATATCAGGCAGTAAC 59.904 45.833 0.00 0.00 0.00 2.50
391 404 4.188462 CCACAAATATCAGGCAGTAACGA 58.812 43.478 0.00 0.00 0.00 3.85
404 417 4.424626 GCAGTAACGACAATCATCTCTCA 58.575 43.478 0.00 0.00 0.00 3.27
417 430 7.597743 ACAATCATCTCTCAAGCATTTGAAAAC 59.402 33.333 0.00 0.00 42.48 2.43
425 438 3.192541 AGCATTTGAAAACCCCAACAC 57.807 42.857 0.00 0.00 0.00 3.32
427 440 2.740256 GCATTTGAAAACCCCAACACGT 60.740 45.455 0.00 0.00 0.00 4.49
452 465 7.862512 ACAAAATTTGATCTGGCAAAAGAAA 57.137 28.000 13.19 0.00 40.72 2.52
463 476 4.086457 TGGCAAAAGAAATAGGAACTCCC 58.914 43.478 0.00 0.00 41.75 4.30
465 478 4.711846 GGCAAAAGAAATAGGAACTCCCAT 59.288 41.667 0.00 0.00 41.75 4.00
467 480 6.551227 GGCAAAAGAAATAGGAACTCCCATAT 59.449 38.462 0.00 0.00 41.75 1.78
468 481 7.724061 GGCAAAAGAAATAGGAACTCCCATATA 59.276 37.037 0.00 0.00 41.75 0.86
472 485 7.469537 AGAAATAGGAACTCCCATATAGTCG 57.530 40.000 0.00 0.00 41.75 4.18
476 490 3.568853 AGGAACTCCCATATAGTCGTTCG 59.431 47.826 0.00 0.00 37.41 3.95
478 492 4.037208 GGAACTCCCATATAGTCGTTCGAA 59.963 45.833 0.00 0.00 33.47 3.71
483 497 3.987868 CCCATATAGTCGTTCGAACATGG 59.012 47.826 25.29 25.29 33.08 3.66
491 505 3.001939 GTCGTTCGAACATGGTCAACTTT 59.998 43.478 26.71 0.00 0.00 2.66
647 669 7.840931 TGTCTCACATGTGTTAGATGTAGATT 58.159 34.615 24.63 0.00 31.78 2.40
682 705 3.708403 ATCGGATGACATGCATACCAT 57.292 42.857 11.43 11.43 37.34 3.55
694 717 2.025510 TGCATACCATCATCACCAACCA 60.026 45.455 0.00 0.00 0.00 3.67
704 727 5.290493 TCATCACCAACCACATCTATACC 57.710 43.478 0.00 0.00 0.00 2.73
705 728 4.968719 TCATCACCAACCACATCTATACCT 59.031 41.667 0.00 0.00 0.00 3.08
706 729 5.428457 TCATCACCAACCACATCTATACCTT 59.572 40.000 0.00 0.00 0.00 3.50
707 730 5.353394 TCACCAACCACATCTATACCTTC 57.647 43.478 0.00 0.00 0.00 3.46
708 731 4.163458 TCACCAACCACATCTATACCTTCC 59.837 45.833 0.00 0.00 0.00 3.46
755 779 4.794648 GCTGCCACGCCCATACCA 62.795 66.667 0.00 0.00 0.00 3.25
815 839 4.487019 GCTGTCCGATCTATTTAGTAGCC 58.513 47.826 0.00 0.00 0.00 3.93
856 887 3.784338 CAGAACCTTCTCTGATCTCTGC 58.216 50.000 0.00 0.00 44.82 4.26
989 1029 2.066999 CCTTCTAGAAGCGCCCCCT 61.067 63.158 24.58 0.66 37.11 4.79
990 1030 1.443828 CTTCTAGAAGCGCCCCCTC 59.556 63.158 19.23 0.00 0.00 4.30
992 1032 2.764128 CTAGAAGCGCCCCCTCCA 60.764 66.667 2.29 0.00 0.00 3.86
993 1033 3.081409 TAGAAGCGCCCCCTCCAC 61.081 66.667 2.29 0.00 0.00 4.02
1346 1620 0.613260 TGACACCCTCCCTTGATTCG 59.387 55.000 0.00 0.00 0.00 3.34
1387 1661 1.568504 TAAGCCTGTTCGGTGGATCT 58.431 50.000 0.00 0.00 34.25 2.75
1390 1664 0.535335 GCCTGTTCGGTGGATCTACA 59.465 55.000 11.67 0.00 34.25 2.74
1391 1665 1.139058 GCCTGTTCGGTGGATCTACAT 59.861 52.381 11.67 0.00 34.25 2.29
1478 1752 5.039480 GCAGCAAGCCACACATAATATAG 57.961 43.478 0.00 0.00 37.23 1.31
1479 1753 4.516698 GCAGCAAGCCACACATAATATAGT 59.483 41.667 0.00 0.00 37.23 2.12
1624 1906 1.377333 GGGTGAAGGAAGAAGGCGG 60.377 63.158 0.00 0.00 0.00 6.13
1648 1930 0.676151 CAGCACAGAAGGAGAAGGCC 60.676 60.000 0.00 0.00 0.00 5.19
1654 1936 1.686110 GAAGGAGAAGGCCGAGGGA 60.686 63.158 0.00 0.00 0.00 4.20
1655 1937 1.003573 AAGGAGAAGGCCGAGGGAT 59.996 57.895 0.00 0.00 0.00 3.85
1656 1938 1.051556 AAGGAGAAGGCCGAGGGATC 61.052 60.000 0.00 0.00 0.00 3.36
1657 1939 1.762460 GGAGAAGGCCGAGGGATCA 60.762 63.158 0.00 0.00 0.00 2.92
1667 1950 1.527844 GAGGGATCATGGTGGCAGC 60.528 63.158 10.30 10.30 0.00 5.25
1671 1954 0.466739 GGATCATGGTGGCAGCATCA 60.467 55.000 27.90 18.01 33.46 3.07
1762 2045 4.519730 GGTACTTGAGGATACAGCGTATCT 59.480 45.833 20.37 11.50 41.41 1.98
1787 2070 7.976712 TCCATATCCAATGACAGATGTGAATA 58.023 34.615 0.00 0.00 34.55 1.75
1789 2072 8.727910 CCATATCCAATGACAGATGTGAATAAG 58.272 37.037 0.00 0.00 34.55 1.73
1795 2078 7.912250 CCAATGACAGATGTGAATAAGTTTAGC 59.088 37.037 0.00 0.00 0.00 3.09
1822 2105 3.646611 TGTGTTGCATCAACCATCAAG 57.353 42.857 0.00 0.00 42.96 3.02
1833 2116 6.128742 GCATCAACCATCAAGTGACAAAAATC 60.129 38.462 0.00 0.00 0.00 2.17
1898 2183 6.164876 CACAATATGGCCAGTTCAATTTTCA 58.835 36.000 13.05 0.00 0.00 2.69
1914 2199 8.681486 TCAATTTTCATAGTGGTCATGATAGG 57.319 34.615 0.00 0.00 32.63 2.57
1928 2213 5.885912 GTCATGATAGGTTTTAGCTTTGGGA 59.114 40.000 0.00 0.00 0.00 4.37
1942 2227 4.281941 AGCTTTGGGAGTCAAATTTCTTCC 59.718 41.667 0.00 0.00 43.57 3.46
1944 2229 2.159382 TGGGAGTCAAATTTCTTCCGC 58.841 47.619 0.90 0.00 32.26 5.54
1949 2234 4.156739 GGAGTCAAATTTCTTCCGCTTCAT 59.843 41.667 0.00 0.00 0.00 2.57
1997 2287 7.891183 AATCTAGTTCGATATATTGGTGCAC 57.109 36.000 8.80 8.80 0.00 4.57
2100 2390 4.036498 CGAATCTCTAGTACGTCCAACCAT 59.964 45.833 0.00 0.00 0.00 3.55
2105 2395 8.701908 ATCTCTAGTACGTCCAACCATTAATA 57.298 34.615 0.00 0.00 0.00 0.98
2110 2400 6.293698 AGTACGTCCAACCATTAATATTCCC 58.706 40.000 0.00 0.00 0.00 3.97
2120 2410 6.498538 ACCATTAATATTCCCCAGACAACAA 58.501 36.000 0.00 0.00 0.00 2.83
2133 2423 3.088532 AGACAACAACCTCAAGTGCAAA 58.911 40.909 0.00 0.00 0.00 3.68
2134 2424 3.701040 AGACAACAACCTCAAGTGCAAAT 59.299 39.130 0.00 0.00 0.00 2.32
2228 2518 2.939298 CCTCAACCCCAACCCCAA 59.061 61.111 0.00 0.00 0.00 4.12
2390 2680 8.635765 AGCTGTTAATTGTCCTAATTTCAGAA 57.364 30.769 14.89 0.00 0.00 3.02
2495 2785 6.627087 AATGTTCCTCCTATTCTCAAGACA 57.373 37.500 0.00 0.00 0.00 3.41
2516 2806 3.824414 GCTGGTGCTTATGTTTAACGT 57.176 42.857 0.00 0.00 36.03 3.99
2539 2829 3.995636 TGAACCTGGTCTAGCTCCTAAT 58.004 45.455 0.00 0.00 0.00 1.73
2544 2834 4.971924 ACCTGGTCTAGCTCCTAATTTCAT 59.028 41.667 0.00 0.00 0.00 2.57
2551 2841 8.348507 GGTCTAGCTCCTAATTTCATTCAAATG 58.651 37.037 0.00 0.00 34.69 2.32
2616 2906 6.875972 TCCTTAAGAAGCTCATCCTTTACT 57.124 37.500 3.36 0.00 0.00 2.24
2798 3089 3.118592 TGCATGTCGGTACCATGTTATCA 60.119 43.478 13.54 0.00 41.38 2.15
2799 3090 3.247648 GCATGTCGGTACCATGTTATCAC 59.752 47.826 13.54 0.00 41.38 3.06
2800 3091 4.438148 CATGTCGGTACCATGTTATCACA 58.562 43.478 13.54 1.51 35.94 3.58
2801 3092 4.538746 TGTCGGTACCATGTTATCACAA 57.461 40.909 13.54 0.00 36.16 3.33
2802 3093 5.092554 TGTCGGTACCATGTTATCACAAT 57.907 39.130 13.54 0.00 36.16 2.71
2803 3094 5.492895 TGTCGGTACCATGTTATCACAATT 58.507 37.500 13.54 0.00 36.16 2.32
2804 3095 5.352846 TGTCGGTACCATGTTATCACAATTG 59.647 40.000 13.54 3.24 36.16 2.32
2805 3096 5.353123 GTCGGTACCATGTTATCACAATTGT 59.647 40.000 13.54 4.92 36.16 2.71
2806 3097 5.352846 TCGGTACCATGTTATCACAATTGTG 59.647 40.000 29.01 29.01 46.91 3.33
2807 3098 5.123186 CGGTACCATGTTATCACAATTGTGT 59.877 40.000 31.99 22.83 45.76 3.72
2808 3099 6.551736 GGTACCATGTTATCACAATTGTGTC 58.448 40.000 31.99 21.71 45.76 3.67
2809 3100 6.150307 GGTACCATGTTATCACAATTGTGTCA 59.850 38.462 31.99 25.29 45.76 3.58
2810 3101 6.839124 ACCATGTTATCACAATTGTGTCAT 57.161 33.333 31.99 26.06 45.76 3.06
2811 3102 6.623486 ACCATGTTATCACAATTGTGTCATG 58.377 36.000 31.35 31.35 45.76 3.07
2812 3103 6.209192 ACCATGTTATCACAATTGTGTCATGT 59.791 34.615 32.84 26.32 45.76 3.21
2813 3104 7.092079 CCATGTTATCACAATTGTGTCATGTT 58.908 34.615 32.84 20.81 45.76 2.71
2814 3105 7.599621 CCATGTTATCACAATTGTGTCATGTTT 59.400 33.333 32.84 19.90 45.76 2.83
2815 3106 7.927305 TGTTATCACAATTGTGTCATGTTTG 57.073 32.000 31.99 9.18 45.76 2.93
2816 3107 7.710896 TGTTATCACAATTGTGTCATGTTTGA 58.289 30.769 31.99 14.42 45.76 2.69
2817 3108 8.193438 TGTTATCACAATTGTGTCATGTTTGAA 58.807 29.630 31.99 13.76 45.76 2.69
2818 3109 8.479280 GTTATCACAATTGTGTCATGTTTGAAC 58.521 33.333 31.99 17.84 45.76 3.18
2819 3110 5.958955 TCACAATTGTGTCATGTTTGAACA 58.041 33.333 31.99 10.46 45.76 3.18
2820 3111 6.393171 TCACAATTGTGTCATGTTTGAACAA 58.607 32.000 31.99 10.05 45.76 2.83
2841 3132 7.716799 ACAAAAGTATCAATTGGAATGCCTA 57.283 32.000 5.42 0.00 34.31 3.93
3073 3364 4.881157 AAATGGCAGGGGTAGATAAACT 57.119 40.909 0.00 0.00 0.00 2.66
3111 3402 4.137116 TCACACCATGCTATTCTGGTAC 57.863 45.455 0.00 0.00 43.91 3.34
3126 3417 7.972832 ATTCTGGTACGTTTGATTTTGAGTA 57.027 32.000 0.00 0.00 0.00 2.59
3157 3448 3.196469 TCCTTCGAATCTGCTGACTCAAT 59.804 43.478 0.00 0.00 0.00 2.57
3159 3450 4.744137 CCTTCGAATCTGCTGACTCAATAG 59.256 45.833 0.00 0.00 0.00 1.73
3163 3454 5.536538 TCGAATCTGCTGACTCAATAGGTAT 59.463 40.000 2.96 0.00 0.00 2.73
4119 4416 8.946085 GTGAATTCAGTAAATGATTCCACACTA 58.054 33.333 8.80 0.00 37.89 2.74
4701 4998 1.065701 CACTCCCCTCTTCGTATGTCG 59.934 57.143 0.00 0.00 41.41 4.35
4783 5080 0.325933 TCACTGTGGGAAGAGCATGG 59.674 55.000 8.11 0.00 0.00 3.66
5155 5452 3.511540 TCAGGTGGTCAGTTCAGATAGTG 59.488 47.826 0.00 0.00 0.00 2.74
5393 5690 1.126948 TGAGTGGCATCTGTGGGACA 61.127 55.000 0.00 0.00 0.00 4.02
5409 5706 3.026694 GGGACAAATCATTAAGCCAGCT 58.973 45.455 0.00 0.00 0.00 4.24
5450 5751 7.657354 GCTGATTTTGGTTTGTTTCTCCTTATT 59.343 33.333 0.00 0.00 0.00 1.40
5451 5752 9.196552 CTGATTTTGGTTTGTTTCTCCTTATTC 57.803 33.333 0.00 0.00 0.00 1.75
5452 5753 8.147704 TGATTTTGGTTTGTTTCTCCTTATTCC 58.852 33.333 0.00 0.00 0.00 3.01
5453 5754 7.669089 TTTTGGTTTGTTTCTCCTTATTCCT 57.331 32.000 0.00 0.00 0.00 3.36
5454 5755 7.669089 TTTGGTTTGTTTCTCCTTATTCCTT 57.331 32.000 0.00 0.00 0.00 3.36
5455 5756 8.770010 TTTGGTTTGTTTCTCCTTATTCCTTA 57.230 30.769 0.00 0.00 0.00 2.69
5456 5757 8.950007 TTGGTTTGTTTCTCCTTATTCCTTAT 57.050 30.769 0.00 0.00 0.00 1.73
5515 5816 6.998074 TCAGCTAATTGGAGAAGAAAGTTTCA 59.002 34.615 17.65 0.00 0.00 2.69
6155 6620 1.178534 CCATCGCCACCAACACCTTT 61.179 55.000 0.00 0.00 0.00 3.11
6203 6673 6.576662 TCCTCGATCCATTGAGTATCTTAC 57.423 41.667 3.56 0.00 36.72 2.34
6243 6713 1.227205 CCCTGCTCAGAGATGCGAC 60.227 63.158 0.00 0.00 0.00 5.19
6251 6721 1.102154 CAGAGATGCGACTGGAGTCT 58.898 55.000 5.30 0.00 42.66 3.24
6322 6792 5.612725 TGAAGCCATTTTCTGAAACCTTT 57.387 34.783 1.58 0.00 0.00 3.11
6377 6847 6.773976 ACTGGTTATTAATGATGGGTGTTG 57.226 37.500 0.00 0.00 0.00 3.33
6531 7001 6.032956 TGTTAGTGTTGATAGTTCGATGGT 57.967 37.500 0.00 0.00 0.00 3.55
6587 7057 0.317160 ACATTGCCGTTCGTCTCTCA 59.683 50.000 0.00 0.00 0.00 3.27
6649 7119 4.337555 GCTGAAGTGAGGTTCATATGCATT 59.662 41.667 3.54 0.00 35.88 3.56
6721 7191 2.293170 GCCTCCTTGCTTCCTATCAAC 58.707 52.381 0.00 0.00 0.00 3.18
6738 7209 6.259608 CCTATCAACTTGAGCTATTTCCTGTG 59.740 42.308 0.00 0.00 0.00 3.66
6739 7210 4.326826 TCAACTTGAGCTATTTCCTGTGG 58.673 43.478 0.00 0.00 0.00 4.17
6740 7211 4.041567 TCAACTTGAGCTATTTCCTGTGGA 59.958 41.667 0.00 0.00 0.00 4.02
6771 7245 7.382898 TGCAAAATTTAGACCCTTGATTTACC 58.617 34.615 0.00 0.00 0.00 2.85
6886 7374 6.575572 CGTTATGAGCAACTCTAGAATAGTCG 59.424 42.308 0.00 0.00 40.38 4.18
7181 8044 5.067413 ACATGCAAAGAATCATCCATGAGAC 59.933 40.000 0.00 0.00 40.64 3.36
7250 8113 4.535526 AAATGGCTGGTAATCAAACCAC 57.464 40.909 0.00 0.00 44.68 4.16
7292 8164 4.724399 TGTATCAACAACCATCACCACTT 58.276 39.130 0.00 0.00 30.91 3.16
7494 8377 7.982371 ACAGTATAGCGTATTTACACAAGAC 57.018 36.000 0.00 0.00 0.00 3.01
7502 8385 5.118203 GCGTATTTACACAAGACGTCTTCTT 59.882 40.000 27.54 14.88 46.29 2.52
7503 8386 6.346359 GCGTATTTACACAAGACGTCTTCTTT 60.346 38.462 27.54 15.98 42.37 2.52
7513 8396 2.296471 GACGTCTTCTTTGAGGACCAGA 59.704 50.000 8.70 0.00 35.64 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
25 26 4.260784 GGCATGATTCAATCGTGACCTTAC 60.261 45.833 21.78 4.29 46.43 2.34
29 30 2.763249 GGCATGATTCAATCGTGACC 57.237 50.000 21.78 17.29 46.43 4.02
31 32 2.715749 AGGGCATGATTCAATCGTGA 57.284 45.000 21.78 0.00 46.73 4.35
32 33 3.441163 CAAAGGGCATGATTCAATCGTG 58.559 45.455 14.45 14.45 46.55 4.35
56 57 4.033709 TCCTAGATCCAGTCTTTCCCTTG 58.966 47.826 0.00 0.00 38.42 3.61
68 69 3.139810 GCTCTGGCTCCTAGATCCA 57.860 57.895 0.00 0.00 35.22 3.41
91 92 0.103390 TGTGTGAATGTCGTGACGGT 59.897 50.000 4.70 0.00 0.00 4.83
128 129 1.288188 AGGGCAAATTCATTTGGGGG 58.712 50.000 13.01 0.00 45.44 5.40
133 134 5.247862 GGAATGACAAGGGCAAATTCATTT 58.752 37.500 5.47 0.00 37.10 2.32
146 151 2.440409 CTGGTTCTGGGGAATGACAAG 58.560 52.381 0.00 0.00 33.71 3.16
154 159 1.383799 CAATGCCTGGTTCTGGGGA 59.616 57.895 0.00 0.00 0.00 4.81
157 162 3.291611 GGCAATGCCTGGTTCTGG 58.708 61.111 18.47 0.00 46.69 3.86
167 172 1.406903 AATCTGCTTAGGGGCAATGC 58.593 50.000 0.00 0.00 41.94 3.56
170 179 3.168035 TCAAAATCTGCTTAGGGGCAA 57.832 42.857 0.00 0.00 41.94 4.52
224 233 2.056906 CTGGATAAGGCCTTCGGGGG 62.057 65.000 24.49 7.28 35.16 5.40
225 234 1.451936 CTGGATAAGGCCTTCGGGG 59.548 63.158 24.49 6.14 35.16 5.73
306 315 5.189180 GCATATCAGGTTTCTATGGGGATC 58.811 45.833 0.00 0.00 0.00 3.36
309 318 4.074970 GTGCATATCAGGTTTCTATGGGG 58.925 47.826 0.00 0.00 0.00 4.96
335 345 9.765795 GGCATAAACTAGTACATGAGATAGTTT 57.234 33.333 23.80 23.80 45.55 2.66
372 385 5.794687 TTGTCGTTACTGCCTGATATTTG 57.205 39.130 0.00 0.00 0.00 2.32
378 391 3.195610 AGATGATTGTCGTTACTGCCTGA 59.804 43.478 0.00 0.00 0.00 3.86
389 402 5.064325 TCAAATGCTTGAGAGATGATTGTCG 59.936 40.000 0.00 0.00 36.62 4.35
391 404 6.829229 TTCAAATGCTTGAGAGATGATTGT 57.171 33.333 0.00 0.00 42.48 2.71
404 417 3.540617 GTGTTGGGGTTTTCAAATGCTT 58.459 40.909 0.00 0.00 0.00 3.91
417 430 4.308899 TCAAATTTTGTACGTGTTGGGG 57.691 40.909 8.89 0.00 0.00 4.96
425 438 6.640499 TCTTTTGCCAGATCAAATTTTGTACG 59.360 34.615 8.89 0.00 36.04 3.67
427 440 8.954950 TTTCTTTTGCCAGATCAAATTTTGTA 57.045 26.923 8.89 0.00 36.04 2.41
452 465 5.415077 CGAACGACTATATGGGAGTTCCTAT 59.585 44.000 16.97 2.46 40.54 2.57
463 476 5.278604 TGACCATGTTCGAACGACTATATG 58.721 41.667 22.48 17.72 0.00 1.78
465 478 4.968812 TGACCATGTTCGAACGACTATA 57.031 40.909 22.48 5.02 0.00 1.31
467 480 3.005050 AGTTGACCATGTTCGAACGACTA 59.995 43.478 22.48 6.16 0.00 2.59
468 481 2.132762 GTTGACCATGTTCGAACGACT 58.867 47.619 22.48 7.82 0.00 4.18
472 485 3.042887 GCAAAGTTGACCATGTTCGAAC 58.957 45.455 21.42 21.42 0.00 3.95
476 490 2.863704 GCCTGCAAAGTTGACCATGTTC 60.864 50.000 0.00 0.00 0.00 3.18
478 492 0.675633 GCCTGCAAAGTTGACCATGT 59.324 50.000 0.00 0.00 0.00 3.21
483 497 5.880054 TTAATAGAGCCTGCAAAGTTGAC 57.120 39.130 0.00 0.00 0.00 3.18
491 505 5.932303 GGACGAATTATTAATAGAGCCTGCA 59.068 40.000 0.00 0.00 0.00 4.41
620 642 7.666623 TCTACATCTAACACATGTGAGACAAA 58.333 34.615 31.94 12.03 38.30 2.83
623 645 7.976175 TCAATCTACATCTAACACATGTGAGAC 59.024 37.037 31.94 0.00 38.30 3.36
647 669 6.152154 TGTCATCCGATACTTCTAACTGTTCA 59.848 38.462 0.00 0.00 0.00 3.18
662 684 3.008266 TGATGGTATGCATGTCATCCGAT 59.992 43.478 26.77 12.35 36.21 4.18
682 705 4.968719 AGGTATAGATGTGGTTGGTGATGA 59.031 41.667 0.00 0.00 0.00 2.92
694 717 6.064717 GCATTTGGAAGGAAGGTATAGATGT 58.935 40.000 0.00 0.00 0.00 3.06
704 727 2.757314 GAGGGAAGCATTTGGAAGGAAG 59.243 50.000 0.00 0.00 0.00 3.46
705 728 2.557452 GGAGGGAAGCATTTGGAAGGAA 60.557 50.000 0.00 0.00 0.00 3.36
706 729 1.005924 GGAGGGAAGCATTTGGAAGGA 59.994 52.381 0.00 0.00 0.00 3.36
707 730 1.478631 GGAGGGAAGCATTTGGAAGG 58.521 55.000 0.00 0.00 0.00 3.46
708 731 1.272648 TGGGAGGGAAGCATTTGGAAG 60.273 52.381 0.00 0.00 0.00 3.46
786 810 1.403814 TAGATCGGACAGCCAGGAAG 58.596 55.000 0.00 0.00 0.00 3.46
789 813 2.918712 AAATAGATCGGACAGCCAGG 57.081 50.000 0.00 0.00 0.00 4.45
815 839 1.546476 GCATCTAGACCTACGGATGGG 59.454 57.143 0.00 0.00 35.73 4.00
969 1009 1.144276 GGGGCGCTTCTAGAAGGTC 59.856 63.158 29.22 21.05 38.80 3.85
1173 1447 4.161295 TCCTTGGGCCGCATCTCG 62.161 66.667 0.00 0.00 38.08 4.04
1177 1451 4.809496 CAGCTCCTTGGGCCGCAT 62.809 66.667 0.00 0.00 0.00 4.73
1303 1577 0.863144 TTGCGCTTGGTAAGAACGAC 59.137 50.000 9.73 0.00 0.00 4.34
1306 1580 1.235724 ACCTTGCGCTTGGTAAGAAC 58.764 50.000 20.18 0.00 40.41 3.01
1346 1620 1.917872 TAGGACACAACAAATGGGCC 58.082 50.000 0.00 0.00 35.04 5.80
1387 1661 4.597404 CAGAGAGCAATGCCTCTATGTA 57.403 45.455 20.28 0.00 43.00 2.29
1390 1664 2.547299 GCAGAGAGCAATGCCTCTAT 57.453 50.000 20.28 9.93 42.06 1.98
1445 1719 1.066908 GGCTTGCTGCTGTTGTTTACA 59.933 47.619 0.00 0.00 42.39 2.41
1446 1720 1.066908 TGGCTTGCTGCTGTTGTTTAC 59.933 47.619 0.00 0.00 42.39 2.01
1447 1721 1.066908 GTGGCTTGCTGCTGTTGTTTA 59.933 47.619 0.00 0.00 42.39 2.01
1449 1723 1.321805 TGTGGCTTGCTGCTGTTGTT 61.322 50.000 0.00 0.00 42.39 2.83
1450 1724 1.753848 TGTGGCTTGCTGCTGTTGT 60.754 52.632 0.00 0.00 42.39 3.32
1451 1725 1.299620 GTGTGGCTTGCTGCTGTTG 60.300 57.895 0.00 0.00 42.39 3.33
1500 1780 6.830912 TGGCTACTAGTTCGTACTCCTAATA 58.169 40.000 0.00 0.00 35.78 0.98
1506 1786 5.451039 GCTAATGGCTACTAGTTCGTACTC 58.549 45.833 0.00 0.00 35.46 2.59
1514 1794 2.771943 TGCTTGGCTAATGGCTACTAGT 59.228 45.455 0.00 0.00 41.46 2.57
1554 1836 4.261363 CCCTTCTCTGTTTTCTGCACTTTC 60.261 45.833 0.00 0.00 0.00 2.62
1624 1906 2.033141 TCCTTCTGTGCTGGCAGC 59.967 61.111 31.91 31.91 42.82 5.25
1634 1916 1.519719 CCTCGGCCTTCTCCTTCTG 59.480 63.158 0.00 0.00 0.00 3.02
1635 1917 1.687493 CCCTCGGCCTTCTCCTTCT 60.687 63.158 0.00 0.00 0.00 2.85
1638 1920 1.458588 GATCCCTCGGCCTTCTCCT 60.459 63.158 0.00 0.00 0.00 3.69
1648 1930 1.227764 CTGCCACCATGATCCCTCG 60.228 63.158 0.00 0.00 0.00 4.63
1654 1936 1.099295 CGTGATGCTGCCACCATGAT 61.099 55.000 0.00 0.00 0.00 2.45
1655 1937 1.746239 CGTGATGCTGCCACCATGA 60.746 57.895 0.00 0.00 0.00 3.07
1656 1938 2.042259 ACGTGATGCTGCCACCATG 61.042 57.895 0.00 0.61 0.00 3.66
1657 1939 2.042259 CACGTGATGCTGCCACCAT 61.042 57.895 10.90 0.00 0.00 3.55
1667 1950 1.473965 CCCATCTTCCTCCACGTGATG 60.474 57.143 19.30 10.55 35.59 3.07
1671 1954 0.326618 ATCCCCATCTTCCTCCACGT 60.327 55.000 0.00 0.00 0.00 4.49
1735 2018 0.742505 TGTATCCTCAAGTACCGCCG 59.257 55.000 0.00 0.00 0.00 6.46
1762 2045 5.892524 TCACATCTGTCATTGGATATGGA 57.107 39.130 0.00 0.00 0.00 3.41
1787 2070 9.559732 TGATGCAACACATATATAGCTAAACTT 57.440 29.630 0.00 0.00 39.84 2.66
1789 2072 9.599322 GTTGATGCAACACATATATAGCTAAAC 57.401 33.333 0.00 0.00 43.09 2.01
1795 2078 8.326680 TGATGGTTGATGCAACACATATATAG 57.673 34.615 11.83 0.00 45.11 1.31
1801 2084 3.575256 ACTTGATGGTTGATGCAACACAT 59.425 39.130 11.83 11.58 45.11 3.21
1898 2183 7.380423 AGCTAAAACCTATCATGACCACTAT 57.620 36.000 0.00 0.00 0.00 2.12
1914 2199 7.210174 AGAAATTTGACTCCCAAAGCTAAAAC 58.790 34.615 0.00 0.00 46.72 2.43
1928 2213 5.712152 AATGAAGCGGAAGAAATTTGACT 57.288 34.783 0.00 0.00 0.00 3.41
1971 2256 9.587772 GTGCACCAATATATCGAACTAGATTAT 57.412 33.333 5.22 0.00 32.39 1.28
2016 2306 9.649167 CCAAAGAGAAATCATTAAAGATGCTTT 57.351 29.630 0.00 0.00 0.00 3.51
2041 2331 7.176690 TCCATCTATTTCACAAAAGGAAAGACC 59.823 37.037 0.00 0.00 37.64 3.85
2077 2367 3.376234 TGGTTGGACGTACTAGAGATTCG 59.624 47.826 0.00 0.00 0.00 3.34
2100 2390 6.147437 AGGTTGTTGTCTGGGGAATATTAA 57.853 37.500 0.00 0.00 0.00 1.40
2105 2395 1.780309 TGAGGTTGTTGTCTGGGGAAT 59.220 47.619 0.00 0.00 0.00 3.01
2110 2400 1.334869 GCACTTGAGGTTGTTGTCTGG 59.665 52.381 0.00 0.00 0.00 3.86
2120 2410 5.300286 GGAATATAGCATTTGCACTTGAGGT 59.700 40.000 5.20 0.00 45.16 3.85
2154 2444 0.181587 TTCAGCGGTGGACTTGGAAA 59.818 50.000 15.67 0.00 0.00 3.13
2347 2637 9.691362 TTAACAGCTTTTTCCACTTCAATATTC 57.309 29.630 0.00 0.00 0.00 1.75
2390 2680 4.081322 ACGACACATTACCTCCACTTTT 57.919 40.909 0.00 0.00 0.00 2.27
2479 2769 3.450457 ACCAGCTGTCTTGAGAATAGGAG 59.550 47.826 13.81 0.00 0.00 3.69
2516 2806 2.621070 AGGAGCTAGACCAGGTTCAAA 58.379 47.619 0.00 0.00 34.30 2.69
2654 2944 7.972277 AGCTAAAATTTAGATTGATGCACACAG 59.028 33.333 16.22 0.00 0.00 3.66
2798 3089 7.387397 ACTTTTGTTCAAACATGACACAATTGT 59.613 29.630 4.92 4.92 38.95 2.71
2799 3090 7.741198 ACTTTTGTTCAAACATGACACAATTG 58.259 30.769 3.24 3.24 38.95 2.32
2800 3091 7.903995 ACTTTTGTTCAAACATGACACAATT 57.096 28.000 0.00 0.00 38.95 2.32
2801 3092 9.248291 GATACTTTTGTTCAAACATGACACAAT 57.752 29.630 0.00 0.00 38.95 2.71
2802 3093 8.246871 TGATACTTTTGTTCAAACATGACACAA 58.753 29.630 0.00 0.00 38.95 3.33
2803 3094 7.766283 TGATACTTTTGTTCAAACATGACACA 58.234 30.769 0.00 0.00 38.95 3.72
2804 3095 8.627487 TTGATACTTTTGTTCAAACATGACAC 57.373 30.769 0.00 0.00 38.95 3.67
2805 3096 9.814899 AATTGATACTTTTGTTCAAACATGACA 57.185 25.926 0.00 0.00 38.95 3.58
2807 3098 9.258826 CCAATTGATACTTTTGTTCAAACATGA 57.741 29.630 7.12 0.00 38.95 3.07
2808 3099 9.258826 TCCAATTGATACTTTTGTTCAAACATG 57.741 29.630 7.12 0.00 38.95 3.21
2809 3100 9.829507 TTCCAATTGATACTTTTGTTCAAACAT 57.170 25.926 7.12 0.00 38.95 2.71
2810 3101 9.829507 ATTCCAATTGATACTTTTGTTCAAACA 57.170 25.926 7.12 0.00 35.13 2.83
2812 3103 8.772705 GCATTCCAATTGATACTTTTGTTCAAA 58.227 29.630 7.12 0.00 35.13 2.69
2813 3104 7.387397 GGCATTCCAATTGATACTTTTGTTCAA 59.613 33.333 7.12 0.00 35.56 2.69
2814 3105 6.873076 GGCATTCCAATTGATACTTTTGTTCA 59.127 34.615 7.12 0.00 0.00 3.18
2815 3106 7.099120 AGGCATTCCAATTGATACTTTTGTTC 58.901 34.615 7.12 0.00 33.74 3.18
2816 3107 7.008021 AGGCATTCCAATTGATACTTTTGTT 57.992 32.000 7.12 0.00 33.74 2.83
2817 3108 6.610075 AGGCATTCCAATTGATACTTTTGT 57.390 33.333 7.12 0.00 33.74 2.83
2818 3109 7.775120 AGTAGGCATTCCAATTGATACTTTTG 58.225 34.615 7.12 0.00 33.74 2.44
2819 3110 7.961326 AGTAGGCATTCCAATTGATACTTTT 57.039 32.000 7.12 0.00 33.74 2.27
2820 3111 8.275040 AGTAGTAGGCATTCCAATTGATACTTT 58.725 33.333 7.12 0.00 33.74 2.66
2841 3132 9.073475 TGGAAAATATTTTGCACTTACAGTAGT 57.927 29.630 25.71 0.00 42.35 2.73
2873 3164 7.799081 ACCAGGGTATACATCTTTAGGTTAAC 58.201 38.462 5.01 0.00 0.00 2.01
3111 3402 7.008628 GGAATGCATCTTACTCAAAATCAAACG 59.991 37.037 0.00 0.00 0.00 3.60
3126 3417 3.314635 GCAGATTCGAAGGAATGCATCTT 59.685 43.478 16.90 0.00 42.86 2.40
4071 4368 4.456911 ACAGCACATGGAAGTAACTCAATG 59.543 41.667 0.00 0.00 0.00 2.82
4138 4435 5.045869 AGGAATGTTCAGAATTTCCTCCGTA 60.046 40.000 18.35 0.00 43.45 4.02
4152 4449 6.373495 CAGATGAGTCAATGAAGGAATGTTCA 59.627 38.462 0.00 0.00 40.68 3.18
4635 4932 4.745620 TGCAAACAGGTTTAAATTTACGCC 59.254 37.500 0.00 3.50 0.00 5.68
4701 4998 5.919141 ACACACTCTACGATAAACAGTGTTC 59.081 40.000 9.40 0.00 44.14 3.18
4783 5080 0.182299 AGCCAGCTTAGATTGGGAGC 59.818 55.000 5.58 0.00 34.96 4.70
4948 5245 1.003108 GTTGGTTGTGGTTTTTGGCG 58.997 50.000 0.00 0.00 0.00 5.69
5062 5359 4.041938 ACATGGGCCACAAATTGAAGAAAT 59.958 37.500 9.28 0.00 0.00 2.17
5393 5690 5.990120 AAACTGAGCTGGCTTAATGATTT 57.010 34.783 0.00 0.00 0.00 2.17
5409 5706 7.087639 CCAAAATCAGCCGTTTATAAAACTGA 58.912 34.615 20.45 20.45 38.42 3.41
5450 5751 8.798975 AGTAGGAATCAAGGAATGTATAAGGA 57.201 34.615 0.00 0.00 0.00 3.36
5451 5752 8.651389 TGAGTAGGAATCAAGGAATGTATAAGG 58.349 37.037 0.00 0.00 0.00 2.69
5455 5756 9.927081 AAAATGAGTAGGAATCAAGGAATGTAT 57.073 29.630 0.00 0.00 0.00 2.29
5456 5757 9.177608 CAAAATGAGTAGGAATCAAGGAATGTA 57.822 33.333 0.00 0.00 0.00 2.29
6117 6582 1.408422 GCCACGAAAACAGTGATTGC 58.592 50.000 0.00 0.00 41.83 3.56
6155 6620 2.281484 GTCAGGGAGTTTGCGCCA 60.281 61.111 4.18 0.00 36.19 5.69
6203 6673 1.177401 GTAAAAAGGCCCAGGCTCAG 58.823 55.000 8.89 0.00 37.50 3.35
6243 6713 4.837896 TCACGCATAAGATAGACTCCAG 57.162 45.455 0.00 0.00 0.00 3.86
6251 6721 9.875691 AGCATAGAATATTTCACGCATAAGATA 57.124 29.630 0.00 0.00 0.00 1.98
6377 6847 4.386049 CGAGACAATACTGGAAACTGTGTC 59.614 45.833 0.00 0.00 42.98 3.67
6531 7001 8.469200 ACTGTGATTCAAAAGAATGTCAGAAAA 58.531 29.630 17.71 0.00 32.03 2.29
6721 7191 4.213564 ACTCCACAGGAAATAGCTCAAG 57.786 45.455 0.00 0.00 0.00 3.02
6738 7209 4.988540 GGGTCTAAATTTTGCAACAACTCC 59.011 41.667 0.00 0.00 0.00 3.85
6739 7210 5.842907 AGGGTCTAAATTTTGCAACAACTC 58.157 37.500 0.00 0.00 0.00 3.01
6740 7211 5.869649 AGGGTCTAAATTTTGCAACAACT 57.130 34.783 0.00 0.00 0.00 3.16
6886 7374 3.557595 GCACGCTTCATATCCTATATGGC 59.442 47.826 6.98 3.57 35.26 4.40
7181 8044 4.487714 TCCCACTCTGCAAGGTAATAAG 57.512 45.455 0.00 0.00 0.00 1.73
7250 8113 7.648908 TGATACAGTTTGCTTCATTCAAGTTTG 59.351 33.333 0.00 0.00 34.13 2.93
7292 8164 3.581265 TGCTTGGAATGCATATCCTCA 57.419 42.857 21.12 15.44 42.52 3.86
7318 8190 8.593679 TCTGTTTCCAGAGTTCTGTGATATTTA 58.406 33.333 8.23 0.00 42.80 1.40
7343 8223 5.929697 TTCTTGTGTCACATTGAGTCATC 57.070 39.130 6.48 0.00 0.00 2.92
7494 8377 2.035961 TGTCTGGTCCTCAAAGAAGACG 59.964 50.000 0.00 0.00 37.46 4.18
7502 8385 1.895798 CACTAGCTGTCTGGTCCTCAA 59.104 52.381 0.00 0.00 31.11 3.02
7503 8386 1.075536 TCACTAGCTGTCTGGTCCTCA 59.924 52.381 0.00 0.00 31.11 3.86
7513 8396 2.630098 TCTGCAGAAACTCACTAGCTGT 59.370 45.455 15.67 0.00 0.00 4.40



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

AutoCloner maintained by Alex Coulton.