Multiple sequence alignment - TraesCS2D01G595500

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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 TraesCS2D01G595500 chr2D 100.000 3975 0 0 1 3975 648637895 648633921 0.000000e+00 7341.0
1 TraesCS2D01G595500 chr2B 90.974 2249 135 27 1 2229 784719631 784717431 0.000000e+00 2966.0
2 TraesCS2D01G595500 chr2B 92.672 1624 83 10 2224 3813 784715285 784713664 0.000000e+00 2307.0
3 TraesCS2D01G595500 chr2A 94.801 1231 58 5 447 1672 775746868 775748097 0.000000e+00 1914.0
4 TraesCS2D01G595500 chr2A 91.942 1179 65 12 1565 2717 775748090 775749264 0.000000e+00 1624.0
5 TraesCS2D01G595500 chr2A 90.801 674 43 7 3152 3823 775751013 775751669 0.000000e+00 883.0
6 TraesCS2D01G595500 chr2A 93.523 386 14 3 80 464 775735088 775735463 7.460000e-157 564.0
7 TraesCS2D01G595500 chr2A 93.867 375 10 3 2793 3167 775749276 775749637 1.610000e-153 553.0
8 TraesCS2D01G595500 chr7D 85.287 401 57 2 1738 2137 392746116 392745717 2.860000e-111 412.0
9 TraesCS2D01G595500 chr7D 83.594 384 63 0 1161 1544 392746505 392746122 1.050000e-95 361.0
10 TraesCS2D01G595500 chr7D 82.426 404 65 6 1735 2135 392264106 392263706 8.180000e-92 348.0
11 TraesCS2D01G595500 chr7D 80.290 345 60 8 1793 2133 104748647 104748307 1.830000e-63 254.0
12 TraesCS2D01G595500 chr7D 86.503 163 22 0 895 1057 392746753 392746591 3.160000e-41 180.0
13 TraesCS2D01G595500 chr7D 87.879 132 16 0 926 1057 104749604 104749473 5.320000e-34 156.0
14 TraesCS2D01G595500 chr7B 85.037 401 58 2 1738 2137 388954220 388953821 1.330000e-109 407.0
15 TraesCS2D01G595500 chr7B 83.416 404 61 6 1735 2135 388597148 388596748 1.740000e-98 370.0
16 TraesCS2D01G595500 chr7B 83.854 384 62 0 1161 1544 388954609 388954226 2.260000e-97 366.0
17 TraesCS2D01G595500 chr7B 86.503 163 22 0 895 1057 388954879 388954717 3.160000e-41 180.0
18 TraesCS2D01G595500 chr7B 87.407 135 17 0 923 1057 63170251 63170385 5.320000e-34 156.0
19 TraesCS2D01G595500 chr7B 80.925 173 29 4 886 1056 388597996 388597826 2.490000e-27 134.0
20 TraesCS2D01G595500 chr7A 84.289 401 61 2 1738 2137 444792933 444792534 1.340000e-104 390.0
21 TraesCS2D01G595500 chr7A 84.115 384 61 0 1161 1544 444793322 444792939 4.850000e-99 372.0
22 TraesCS2D01G595500 chr7A 83.375 403 61 6 1735 2134 443964340 443963941 6.280000e-98 368.0
23 TraesCS2D01G595500 chr7A 85.890 163 23 0 895 1057 444793567 444793405 1.470000e-39 174.0
24 TraesCS2D01G595500 chr7A 87.879 132 16 0 926 1057 109264953 109264822 5.320000e-34 156.0
25 TraesCS2D01G595500 chr1B 82.368 397 60 7 1162 1553 59634599 59634990 1.770000e-88 337.0
26 TraesCS2D01G595500 chr1B 100.000 30 0 0 2740 2769 672971073 672971044 5.550000e-04 56.5
27 TraesCS2D01G595500 chr6B 97.222 36 1 0 2740 2775 27067357 27067392 1.190000e-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 TraesCS2D01G595500 chr2D 648633921 648637895 3974 True 7341.000000 7341 100.000000 1 3975 1 chr2D.!!$R1 3974
1 TraesCS2D01G595500 chr2B 784713664 784719631 5967 True 2636.500000 2966 91.823000 1 3813 2 chr2B.!!$R1 3812
2 TraesCS2D01G595500 chr2A 775746868 775751669 4801 False 1243.500000 1914 92.852750 447 3823 4 chr2A.!!$F2 3376
3 TraesCS2D01G595500 chr7D 392745717 392746753 1036 True 317.666667 412 85.128000 895 2137 3 chr7D.!!$R3 1242
4 TraesCS2D01G595500 chr7D 104748307 104749604 1297 True 205.000000 254 84.084500 926 2133 2 chr7D.!!$R2 1207
5 TraesCS2D01G595500 chr7B 388953821 388954879 1058 True 317.666667 407 85.131333 895 2137 3 chr7B.!!$R2 1242
6 TraesCS2D01G595500 chr7B 388596748 388597996 1248 True 252.000000 370 82.170500 886 2135 2 chr7B.!!$R1 1249
7 TraesCS2D01G595500 chr7A 444792534 444793567 1033 True 312.000000 390 84.764667 895 2137 3 chr7A.!!$R3 1242

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
292 302 0.388659 CTCAATGAGCCTCTCCCTCG 59.611 60.0 0.00 0.0 31.98 4.63 F
1270 1736 0.175073 GGAAGCGGTTCGACAGGTAT 59.825 55.0 20.14 0.0 32.92 2.73 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2031 2621 0.179181 GGATGTTGTCGTCGACGCTA 60.179 55.000 32.19 20.1 39.60 4.26 R
3099 5874 1.448540 CACACTTAGGCCGCTCCAG 60.449 63.158 0.00 0.0 37.29 3.86 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
82 88 3.063997 GTCATGAGTTGGCCTTGATTACG 59.936 47.826 3.32 0.00 0.00 3.18
86 92 1.745087 AGTTGGCCTTGATTACGCATG 59.255 47.619 3.32 0.00 0.00 4.06
155 161 7.251704 ACTTGCGTGAATATAAAGGAATCAG 57.748 36.000 0.00 0.00 0.00 2.90
204 213 3.456280 GTTGTTTTCAAGCATGGCTCAA 58.544 40.909 0.00 0.00 38.25 3.02
230 240 7.935520 TGATCAAATGTGCAGTTTAGTTAACA 58.064 30.769 8.61 0.00 39.30 2.41
254 264 3.275617 ACACACTGTTTTGCTCACCTA 57.724 42.857 0.00 0.00 0.00 3.08
261 271 4.141574 ACTGTTTTGCTCACCTACTGGTAA 60.142 41.667 0.00 0.00 46.60 2.85
292 302 0.388659 CTCAATGAGCCTCTCCCTCG 59.611 60.000 0.00 0.00 31.98 4.63
351 361 6.635030 ACACTAATTTGTGTCCTTTCTTCC 57.365 37.500 18.19 0.00 46.90 3.46
352 362 6.365520 ACACTAATTTGTGTCCTTTCTTCCT 58.634 36.000 18.19 0.00 46.90 3.36
353 363 6.833933 ACACTAATTTGTGTCCTTTCTTCCTT 59.166 34.615 18.19 0.00 46.90 3.36
354 364 7.013369 ACACTAATTTGTGTCCTTTCTTCCTTC 59.987 37.037 18.19 0.00 46.90 3.46
355 365 5.791336 AATTTGTGTCCTTTCTTCCTTCC 57.209 39.130 0.00 0.00 0.00 3.46
356 366 4.519906 TTTGTGTCCTTTCTTCCTTCCT 57.480 40.909 0.00 0.00 0.00 3.36
357 367 4.519906 TTGTGTCCTTTCTTCCTTCCTT 57.480 40.909 0.00 0.00 0.00 3.36
358 368 4.519906 TGTGTCCTTTCTTCCTTCCTTT 57.480 40.909 0.00 0.00 0.00 3.11
359 369 4.461198 TGTGTCCTTTCTTCCTTCCTTTC 58.539 43.478 0.00 0.00 0.00 2.62
360 370 4.166144 TGTGTCCTTTCTTCCTTCCTTTCT 59.834 41.667 0.00 0.00 0.00 2.52
361 371 5.133941 GTGTCCTTTCTTCCTTCCTTTCTT 58.866 41.667 0.00 0.00 0.00 2.52
362 372 5.594725 GTGTCCTTTCTTCCTTCCTTTCTTT 59.405 40.000 0.00 0.00 0.00 2.52
363 373 5.828328 TGTCCTTTCTTCCTTCCTTTCTTTC 59.172 40.000 0.00 0.00 0.00 2.62
364 374 6.065374 GTCCTTTCTTCCTTCCTTTCTTTCT 58.935 40.000 0.00 0.00 0.00 2.52
365 375 6.547880 GTCCTTTCTTCCTTCCTTTCTTTCTT 59.452 38.462 0.00 0.00 0.00 2.52
366 376 7.068839 GTCCTTTCTTCCTTCCTTTCTTTCTTT 59.931 37.037 0.00 0.00 0.00 2.52
367 377 8.279361 TCCTTTCTTCCTTCCTTTCTTTCTTTA 58.721 33.333 0.00 0.00 0.00 1.85
368 378 9.083422 CCTTTCTTCCTTCCTTTCTTTCTTTAT 57.917 33.333 0.00 0.00 0.00 1.40
417 427 8.697507 AAAAAGGCCTAAGGTCATATATGAAG 57.302 34.615 16.97 10.51 38.75 3.02
421 431 8.312669 AGGCCTAAGGTCATATATGAAGTATC 57.687 38.462 16.97 4.52 38.75 2.24
444 454 5.487488 TCACAGGTCCTTATAAACACATCCT 59.513 40.000 0.00 0.00 0.00 3.24
627 641 2.892425 CGGATGCGGACCAAGAGC 60.892 66.667 0.00 0.00 0.00 4.09
628 642 2.586792 GGATGCGGACCAAGAGCT 59.413 61.111 0.00 0.00 0.00 4.09
631 645 2.866085 GATGCGGACCAAGAGCTGCT 62.866 60.000 0.00 0.00 37.30 4.24
646 660 2.904697 CTGCTGTCAGCCATGATCTA 57.095 50.000 21.99 0.00 41.51 1.98
657 671 3.812053 AGCCATGATCTACGAAGCAAATC 59.188 43.478 0.00 0.00 0.00 2.17
686 700 5.122396 CCTTGGAGAAGAAAACACCGATAAG 59.878 44.000 0.00 0.00 0.00 1.73
758 772 6.822170 GGATCTACCTAAAAATCAAACCGACT 59.178 38.462 0.00 0.00 35.41 4.18
1008 1022 1.841302 ATGTCACAGCCATGGTCGGT 61.841 55.000 14.67 9.71 0.00 4.69
1085 1128 3.181418 ACTGTTGGAAATGGGATCACCTT 60.181 43.478 0.00 0.00 41.11 3.50
1270 1736 0.175073 GGAAGCGGTTCGACAGGTAT 59.825 55.000 20.14 0.00 32.92 2.73
1441 1907 2.821969 CAGGTGCAAGGACATAAAGCTT 59.178 45.455 0.00 0.00 0.00 3.74
1525 1991 1.528824 CATCGCCACCATCTCCCTT 59.471 57.895 0.00 0.00 0.00 3.95
1528 1994 2.679716 GCCACCATCTCCCTTGCT 59.320 61.111 0.00 0.00 0.00 3.91
1598 2064 9.403583 TGTCAAAACCATAATTAATACTCCCTC 57.596 33.333 0.00 0.00 0.00 4.30
1599 2065 8.557029 GTCAAAACCATAATTAATACTCCCTCG 58.443 37.037 0.00 0.00 0.00 4.63
1604 2171 6.212187 ACCATAATTAATACTCCCTCGGTACC 59.788 42.308 0.16 0.16 0.00 3.34
1660 2228 6.978343 TGTTTTAGATACATCCGTTTGAGG 57.022 37.500 0.00 0.00 0.00 3.86
1661 2229 6.703319 TGTTTTAGATACATCCGTTTGAGGA 58.297 36.000 0.00 0.00 45.54 3.71
1694 2272 1.540267 GGACGAAGACAGTGCTAGACA 59.460 52.381 0.00 0.00 0.00 3.41
2118 2708 0.606096 TGGTCGTCGTCCATGTCATT 59.394 50.000 7.14 0.00 0.00 2.57
2161 2751 2.997315 TCCTCCCAGCCACTCACG 60.997 66.667 0.00 0.00 0.00 4.35
2164 2754 3.947132 CTCCCAGCCACTCACGCAG 62.947 68.421 0.00 0.00 0.00 5.18
2373 5118 0.453950 CTGATGCGCTTGTCACAAGC 60.454 55.000 29.58 29.58 39.77 4.01
2381 5151 1.333258 GCTTGTCACAAGCGAACTCAC 60.333 52.381 26.29 0.00 33.20 3.51
2384 5154 1.933181 TGTCACAAGCGAACTCACTTG 59.067 47.619 6.04 6.04 46.91 3.16
2392 5162 1.871080 CGAACTCACTTGCTTCCAGT 58.129 50.000 0.00 0.00 0.00 4.00
2514 5288 1.149148 GGCTTATCGGATTCTTCGGC 58.851 55.000 0.00 0.00 0.00 5.54
2562 5336 0.105964 TCGTAAGCATTCCATCCGGG 59.894 55.000 0.00 0.00 35.59 5.73
2658 5433 0.745845 GCATCATCTGGCTCACGGTT 60.746 55.000 0.00 0.00 0.00 4.44
2692 5467 0.622136 ATTCAGCCTCTCATGGTGCA 59.378 50.000 0.00 0.00 0.00 4.57
2733 5508 8.475639 TCAACTGAATGAATAGTTAGTACTCCC 58.524 37.037 0.00 0.00 35.50 4.30
2736 5511 8.062536 ACTGAATGAATAGTTAGTACTCCCTCT 58.937 37.037 0.00 0.00 35.78 3.69
2750 5525 8.457585 AGTACTCCCTCTGTCTAGATACATAT 57.542 38.462 0.00 0.00 31.21 1.78
2955 5730 2.987437 AGATCATCATGGAGGCCAAGAT 59.013 45.455 5.01 0.00 41.80 2.40
3036 5811 3.259064 AGCAGAATTTGATGCAATGCAC 58.741 40.909 11.23 5.43 43.04 4.57
3099 5874 4.602107 ACCTTCTCCTAGTGTTACCTCTC 58.398 47.826 0.00 0.00 0.00 3.20
3107 5882 0.173708 GTGTTACCTCTCTGGAGCGG 59.826 60.000 5.22 5.22 39.17 5.52
3186 7352 5.612351 AGACTGAAGTTCTAGGTTTGTTCC 58.388 41.667 4.17 0.00 0.00 3.62
3442 7614 4.404073 TGTCACCTGCTTTTTGGTTTGTAT 59.596 37.500 0.00 0.00 33.75 2.29
3513 7685 8.717717 AGTGGATAGGTAGATGATTTGATTGAA 58.282 33.333 0.00 0.00 0.00 2.69
3555 7727 9.195411 GATTGCTGAATCTTGTTTGTTTAATCA 57.805 29.630 0.00 0.00 35.90 2.57
3650 7822 7.148457 GCTTTTTACACACACCTAATACCTCTC 60.148 40.741 0.00 0.00 0.00 3.20
3653 7825 2.100916 CACACACCTAATACCTCTCCCG 59.899 54.545 0.00 0.00 0.00 5.14
3695 7867 1.864565 TATCATCCACATTGCCGTCG 58.135 50.000 0.00 0.00 0.00 5.12
3705 7877 2.414840 ATTGCCGTCGGGTTTGTTGC 62.415 55.000 14.38 0.00 34.97 4.17
3719 7891 0.736053 TGTTGCGGTTTTCAGTGGAC 59.264 50.000 0.00 0.00 0.00 4.02
3721 7893 1.104577 TTGCGGTTTTCAGTGGACCC 61.105 55.000 0.00 0.00 0.00 4.46
3729 7901 4.070009 GTTTTCAGTGGACCCGATAAAGT 58.930 43.478 0.00 0.00 0.00 2.66
3734 7906 4.081862 TCAGTGGACCCGATAAAGTTGTAG 60.082 45.833 0.00 0.00 0.00 2.74
3750 7922 4.628074 GTTGTAGTCTCCAACTAGCAACA 58.372 43.478 16.69 2.12 41.17 3.33
3765 7937 1.654105 GCAACAAGTCGTCGGTATCAG 59.346 52.381 0.00 0.00 0.00 2.90
3766 7938 2.259618 CAACAAGTCGTCGGTATCAGG 58.740 52.381 0.00 0.00 0.00 3.86
3784 7957 3.327757 TCAGGGATGTCAGGGCATATAAC 59.672 47.826 0.00 0.00 0.00 1.89
3804 7977 2.290641 ACCGGTCAGTGAATAATTGGCA 60.291 45.455 0.00 0.00 0.00 4.92
3810 7983 6.268566 GGTCAGTGAATAATTGGCAATCTTC 58.731 40.000 14.04 18.07 0.00 2.87
3811 7984 6.127647 GGTCAGTGAATAATTGGCAATCTTCA 60.128 38.462 23.51 23.51 0.00 3.02
3812 7985 6.749118 GTCAGTGAATAATTGGCAATCTTCAC 59.251 38.462 34.06 34.06 40.32 3.18
3813 7986 5.740569 CAGTGAATAATTGGCAATCTTCACG 59.259 40.000 34.08 29.02 42.38 4.35
3814 7987 5.036737 GTGAATAATTGGCAATCTTCACGG 58.963 41.667 31.22 0.00 35.56 4.94
3815 7988 3.715628 ATAATTGGCAATCTTCACGGC 57.284 42.857 14.04 0.00 0.00 5.68
3816 7989 1.255882 AATTGGCAATCTTCACGGCA 58.744 45.000 14.04 0.00 0.00 5.69
3818 7991 0.313672 TTGGCAATCTTCACGGCAAC 59.686 50.000 0.00 0.00 39.90 4.17
3819 7992 0.821301 TGGCAATCTTCACGGCAACA 60.821 50.000 0.00 0.00 31.56 3.33
3820 7993 0.109597 GGCAATCTTCACGGCAACAG 60.110 55.000 0.00 0.00 0.00 3.16
3824 7997 2.484287 ATCTTCACGGCAACAGGGGG 62.484 60.000 0.00 0.00 0.00 5.40
3825 7998 4.966787 TTCACGGCAACAGGGGGC 62.967 66.667 0.00 0.00 0.00 5.80
3828 8001 3.334891 ACGGCAACAGGGGGCATA 61.335 61.111 0.00 0.00 0.00 3.14
3829 8002 2.195683 CGGCAACAGGGGGCATAT 59.804 61.111 0.00 0.00 0.00 1.78
3830 8003 1.349542 ACGGCAACAGGGGGCATATA 61.350 55.000 0.00 0.00 0.00 0.86
3831 8004 0.038166 CGGCAACAGGGGGCATATAT 59.962 55.000 0.00 0.00 0.00 0.86
3832 8005 1.549203 GGCAACAGGGGGCATATATG 58.451 55.000 8.45 8.45 0.00 1.78
3833 8006 1.203050 GGCAACAGGGGGCATATATGT 60.203 52.381 14.14 0.00 0.00 2.29
3834 8007 2.597455 GCAACAGGGGGCATATATGTT 58.403 47.619 14.14 0.00 34.56 2.71
3835 8008 2.965147 GCAACAGGGGGCATATATGTTT 59.035 45.455 14.14 0.00 32.01 2.83
3836 8009 3.387699 GCAACAGGGGGCATATATGTTTT 59.612 43.478 14.14 0.00 32.01 2.43
3837 8010 4.586841 GCAACAGGGGGCATATATGTTTTA 59.413 41.667 14.14 0.00 32.01 1.52
3838 8011 5.508994 GCAACAGGGGGCATATATGTTTTAC 60.509 44.000 14.14 2.28 32.01 2.01
3839 8012 5.396057 ACAGGGGGCATATATGTTTTACA 57.604 39.130 14.14 0.00 0.00 2.41
3840 8013 5.385198 ACAGGGGGCATATATGTTTTACAG 58.615 41.667 14.14 2.85 0.00 2.74
3841 8014 5.103686 ACAGGGGGCATATATGTTTTACAGT 60.104 40.000 14.14 3.41 0.00 3.55
3842 8015 5.833131 CAGGGGGCATATATGTTTTACAGTT 59.167 40.000 14.14 0.00 0.00 3.16
3843 8016 6.323739 CAGGGGGCATATATGTTTTACAGTTT 59.676 38.462 14.14 0.00 0.00 2.66
3844 8017 6.549736 AGGGGGCATATATGTTTTACAGTTTC 59.450 38.462 14.14 0.00 0.00 2.78
3845 8018 6.239204 GGGGGCATATATGTTTTACAGTTTCC 60.239 42.308 14.14 2.41 0.00 3.13
3846 8019 6.322712 GGGGCATATATGTTTTACAGTTTCCA 59.677 38.462 14.14 0.00 0.00 3.53
3847 8020 7.147811 GGGGCATATATGTTTTACAGTTTCCAA 60.148 37.037 14.14 0.00 0.00 3.53
3848 8021 7.920682 GGGCATATATGTTTTACAGTTTCCAAG 59.079 37.037 14.14 0.00 0.00 3.61
3849 8022 8.466798 GGCATATATGTTTTACAGTTTCCAAGT 58.533 33.333 14.14 0.00 0.00 3.16
3850 8023 9.289303 GCATATATGTTTTACAGTTTCCAAGTG 57.711 33.333 14.14 0.00 37.83 3.16
3854 8027 5.164954 TGTTTTACAGTTTCCAAGTGTTGC 58.835 37.500 2.39 0.00 42.19 4.17
3855 8028 4.379339 TTTACAGTTTCCAAGTGTTGCC 57.621 40.909 2.39 0.00 42.19 4.52
3856 8029 2.143876 ACAGTTTCCAAGTGTTGCCT 57.856 45.000 0.00 0.00 42.19 4.75
3857 8030 1.750778 ACAGTTTCCAAGTGTTGCCTG 59.249 47.619 0.00 0.00 42.19 4.85
3858 8031 0.746659 AGTTTCCAAGTGTTGCCTGC 59.253 50.000 0.00 0.00 0.00 4.85
3859 8032 0.459489 GTTTCCAAGTGTTGCCTGCA 59.541 50.000 0.00 0.00 0.00 4.41
3860 8033 0.459489 TTTCCAAGTGTTGCCTGCAC 59.541 50.000 0.00 0.00 37.13 4.57
3866 8039 0.381801 AGTGTTGCCTGCACTTTTCG 59.618 50.000 0.00 0.00 43.87 3.46
3867 8040 0.380378 GTGTTGCCTGCACTTTTCGA 59.620 50.000 0.00 0.00 34.30 3.71
3868 8041 1.001378 GTGTTGCCTGCACTTTTCGAT 60.001 47.619 0.00 0.00 34.30 3.59
3869 8042 2.225491 GTGTTGCCTGCACTTTTCGATA 59.775 45.455 0.00 0.00 34.30 2.92
3870 8043 2.225491 TGTTGCCTGCACTTTTCGATAC 59.775 45.455 0.00 0.00 0.00 2.24
3871 8044 1.075542 TGCCTGCACTTTTCGATACG 58.924 50.000 0.00 0.00 0.00 3.06
3872 8045 1.337354 TGCCTGCACTTTTCGATACGA 60.337 47.619 0.00 0.00 0.00 3.43
3873 8046 1.730064 GCCTGCACTTTTCGATACGAA 59.270 47.619 2.48 2.48 44.28 3.85
3874 8047 2.474032 GCCTGCACTTTTCGATACGAAC 60.474 50.000 6.09 0.00 45.64 3.95
3875 8048 2.222508 CCTGCACTTTTCGATACGAACG 60.223 50.000 6.09 4.00 45.64 3.95
3876 8049 2.659757 CTGCACTTTTCGATACGAACGA 59.340 45.455 6.09 0.00 45.64 3.85
3877 8050 3.051327 TGCACTTTTCGATACGAACGAA 58.949 40.909 6.09 10.55 45.64 3.85
3886 8059 5.723492 TCGATACGAACGAAATACAGAGA 57.277 39.130 0.14 0.00 36.84 3.10
3887 8060 5.735324 TCGATACGAACGAAATACAGAGAG 58.265 41.667 0.14 0.00 36.84 3.20
3888 8061 4.376279 CGATACGAACGAAATACAGAGAGC 59.624 45.833 0.14 0.00 0.00 4.09
3889 8062 3.570926 ACGAACGAAATACAGAGAGCA 57.429 42.857 0.14 0.00 0.00 4.26
3890 8063 3.909430 ACGAACGAAATACAGAGAGCAA 58.091 40.909 0.14 0.00 0.00 3.91
3891 8064 4.304110 ACGAACGAAATACAGAGAGCAAA 58.696 39.130 0.14 0.00 0.00 3.68
3892 8065 4.748102 ACGAACGAAATACAGAGAGCAAAA 59.252 37.500 0.14 0.00 0.00 2.44
3893 8066 5.235616 ACGAACGAAATACAGAGAGCAAAAA 59.764 36.000 0.14 0.00 0.00 1.94
3894 8067 5.785599 CGAACGAAATACAGAGAGCAAAAAG 59.214 40.000 0.00 0.00 0.00 2.27
3895 8068 6.346598 CGAACGAAATACAGAGAGCAAAAAGA 60.347 38.462 0.00 0.00 0.00 2.52
3896 8069 7.440523 AACGAAATACAGAGAGCAAAAAGAT 57.559 32.000 0.00 0.00 0.00 2.40
3897 8070 7.066374 ACGAAATACAGAGAGCAAAAAGATC 57.934 36.000 0.00 0.00 0.00 2.75
3898 8071 6.092807 ACGAAATACAGAGAGCAAAAAGATCC 59.907 38.462 0.00 0.00 31.44 3.36
3899 8072 6.092670 CGAAATACAGAGAGCAAAAAGATCCA 59.907 38.462 0.00 0.00 31.44 3.41
3900 8073 7.361201 CGAAATACAGAGAGCAAAAAGATCCAA 60.361 37.037 0.00 0.00 31.44 3.53
3901 8074 7.765695 AATACAGAGAGCAAAAAGATCCAAA 57.234 32.000 0.00 0.00 31.44 3.28
3902 8075 5.702349 ACAGAGAGCAAAAAGATCCAAAG 57.298 39.130 0.00 0.00 31.44 2.77
3903 8076 5.380043 ACAGAGAGCAAAAAGATCCAAAGA 58.620 37.500 0.00 0.00 31.44 2.52
3904 8077 5.829924 ACAGAGAGCAAAAAGATCCAAAGAA 59.170 36.000 0.00 0.00 31.44 2.52
3905 8078 6.322201 ACAGAGAGCAAAAAGATCCAAAGAAA 59.678 34.615 0.00 0.00 31.44 2.52
3906 8079 7.015001 ACAGAGAGCAAAAAGATCCAAAGAAAT 59.985 33.333 0.00 0.00 31.44 2.17
3907 8080 7.541437 CAGAGAGCAAAAAGATCCAAAGAAATC 59.459 37.037 0.00 0.00 31.44 2.17
3908 8081 7.232127 AGAGAGCAAAAAGATCCAAAGAAATCA 59.768 33.333 0.00 0.00 31.44 2.57
3909 8082 7.904205 AGAGCAAAAAGATCCAAAGAAATCAT 58.096 30.769 0.00 0.00 31.44 2.45
3910 8083 8.373220 AGAGCAAAAAGATCCAAAGAAATCATT 58.627 29.630 0.00 0.00 31.44 2.57
3911 8084 8.319143 AGCAAAAAGATCCAAAGAAATCATTG 57.681 30.769 0.00 0.00 0.00 2.82
3912 8085 7.935210 AGCAAAAAGATCCAAAGAAATCATTGT 59.065 29.630 0.00 0.00 0.00 2.71
3913 8086 8.562052 GCAAAAAGATCCAAAGAAATCATTGTT 58.438 29.630 0.00 0.00 0.00 2.83
3915 8088 8.837788 AAAAGATCCAAAGAAATCATTGTTCC 57.162 30.769 0.00 0.00 0.00 3.62
3916 8089 7.543359 AAGATCCAAAGAAATCATTGTTCCA 57.457 32.000 0.00 0.00 0.00 3.53
3917 8090 7.729124 AGATCCAAAGAAATCATTGTTCCAT 57.271 32.000 0.00 0.00 0.00 3.41
3918 8091 7.779073 AGATCCAAAGAAATCATTGTTCCATC 58.221 34.615 0.00 0.00 0.00 3.51
3919 8092 6.914654 TCCAAAGAAATCATTGTTCCATCA 57.085 33.333 0.00 0.00 0.00 3.07
3920 8093 7.300556 TCCAAAGAAATCATTGTTCCATCAA 57.699 32.000 0.00 0.00 0.00 2.57
3921 8094 7.380536 TCCAAAGAAATCATTGTTCCATCAAG 58.619 34.615 0.00 0.00 0.00 3.02
3922 8095 7.233144 TCCAAAGAAATCATTGTTCCATCAAGA 59.767 33.333 0.00 0.00 0.00 3.02
3923 8096 7.874016 CCAAAGAAATCATTGTTCCATCAAGAA 59.126 33.333 0.00 0.00 0.00 2.52
3924 8097 8.706035 CAAAGAAATCATTGTTCCATCAAGAAC 58.294 33.333 0.00 0.00 45.24 3.01
3936 8109 7.657336 GTTCCATCAAGAACAAAACTATTCCA 58.343 34.615 0.00 0.00 44.55 3.53
3937 8110 7.831691 TCCATCAAGAACAAAACTATTCCAA 57.168 32.000 0.00 0.00 0.00 3.53
3938 8111 8.243961 TCCATCAAGAACAAAACTATTCCAAA 57.756 30.769 0.00 0.00 0.00 3.28
3939 8112 8.869109 TCCATCAAGAACAAAACTATTCCAAAT 58.131 29.630 0.00 0.00 0.00 2.32
3940 8113 9.143631 CCATCAAGAACAAAACTATTCCAAATC 57.856 33.333 0.00 0.00 0.00 2.17
3941 8114 8.853345 CATCAAGAACAAAACTATTCCAAATCG 58.147 33.333 0.00 0.00 0.00 3.34
3942 8115 7.936584 TCAAGAACAAAACTATTCCAAATCGT 58.063 30.769 0.00 0.00 0.00 3.73
3943 8116 8.073768 TCAAGAACAAAACTATTCCAAATCGTC 58.926 33.333 0.00 0.00 0.00 4.20
3944 8117 7.504924 AGAACAAAACTATTCCAAATCGTCA 57.495 32.000 0.00 0.00 0.00 4.35
3945 8118 7.584987 AGAACAAAACTATTCCAAATCGTCAG 58.415 34.615 0.00 0.00 0.00 3.51
3946 8119 6.877611 ACAAAACTATTCCAAATCGTCAGT 57.122 33.333 0.00 0.00 0.00 3.41
3947 8120 7.972832 ACAAAACTATTCCAAATCGTCAGTA 57.027 32.000 0.00 0.00 0.00 2.74
3948 8121 8.385898 ACAAAACTATTCCAAATCGTCAGTAA 57.614 30.769 0.00 0.00 0.00 2.24
3949 8122 8.504005 ACAAAACTATTCCAAATCGTCAGTAAG 58.496 33.333 0.00 0.00 0.00 2.34
3950 8123 6.663944 AACTATTCCAAATCGTCAGTAAGC 57.336 37.500 0.00 0.00 0.00 3.09
3951 8124 5.116882 ACTATTCCAAATCGTCAGTAAGCC 58.883 41.667 0.00 0.00 0.00 4.35
3952 8125 3.410631 TTCCAAATCGTCAGTAAGCCA 57.589 42.857 0.00 0.00 0.00 4.75
3953 8126 2.695359 TCCAAATCGTCAGTAAGCCAC 58.305 47.619 0.00 0.00 0.00 5.01
3954 8127 1.737793 CCAAATCGTCAGTAAGCCACC 59.262 52.381 0.00 0.00 0.00 4.61
3955 8128 2.422597 CAAATCGTCAGTAAGCCACCA 58.577 47.619 0.00 0.00 0.00 4.17
3956 8129 2.386661 AATCGTCAGTAAGCCACCAG 57.613 50.000 0.00 0.00 0.00 4.00
3957 8130 1.557099 ATCGTCAGTAAGCCACCAGA 58.443 50.000 0.00 0.00 0.00 3.86
3958 8131 0.888619 TCGTCAGTAAGCCACCAGAG 59.111 55.000 0.00 0.00 0.00 3.35
3959 8132 0.108615 CGTCAGTAAGCCACCAGAGG 60.109 60.000 0.00 0.00 0.00 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
61 67 3.270027 CGTAATCAAGGCCAACTCATGA 58.730 45.455 5.01 0.00 0.00 3.07
82 88 2.860690 TAGTCGGTGTCGTCGCATGC 62.861 60.000 7.91 7.91 37.69 4.06
86 92 1.058695 CAAATTAGTCGGTGTCGTCGC 59.941 52.381 0.00 0.00 37.69 5.19
143 149 7.611855 CCCACTAAAGACAACTGATTCCTTTAT 59.388 37.037 0.00 0.00 31.47 1.40
155 161 2.160205 GAAGGGCCCACTAAAGACAAC 58.840 52.381 27.56 0.00 0.00 3.32
183 189 3.096489 TGAGCCATGCTTGAAAACAAC 57.904 42.857 0.22 0.00 39.88 3.32
204 213 8.575589 TGTTAACTAAACTGCACATTTGATCAT 58.424 29.630 7.22 0.00 38.99 2.45
248 258 9.426144 AGCAATGCTAATGTTACCAGTAGGTGA 62.426 40.741 5.69 0.00 42.97 4.02
254 264 4.588899 TGAGCAATGCTAATGTTACCAGT 58.411 39.130 8.12 0.00 39.88 4.00
273 283 0.388659 CGAGGGAGAGGCTCATTGAG 59.611 60.000 18.26 9.40 31.08 3.02
285 295 1.203523 CTCAGGACAGAAACGAGGGAG 59.796 57.143 0.00 0.00 0.00 4.30
286 296 1.257743 CTCAGGACAGAAACGAGGGA 58.742 55.000 0.00 0.00 0.00 4.20
289 299 1.889829 AGGACTCAGGACAGAAACGAG 59.110 52.381 0.00 0.00 0.00 4.18
290 300 1.613925 CAGGACTCAGGACAGAAACGA 59.386 52.381 0.00 0.00 0.00 3.85
291 301 1.613925 TCAGGACTCAGGACAGAAACG 59.386 52.381 0.00 0.00 0.00 3.60
292 302 2.630580 AGTCAGGACTCAGGACAGAAAC 59.369 50.000 0.00 0.00 36.92 2.78
403 413 7.179338 GGACCTGTGATACTTCATATATGACCT 59.821 40.741 15.10 5.83 36.36 3.85
414 424 8.038944 TGTGTTTATAAGGACCTGTGATACTTC 58.961 37.037 0.00 0.00 0.00 3.01
417 427 7.441458 GGATGTGTTTATAAGGACCTGTGATAC 59.559 40.741 0.00 0.00 0.00 2.24
421 431 5.745227 AGGATGTGTTTATAAGGACCTGTG 58.255 41.667 0.00 0.00 0.00 3.66
475 485 4.271049 TGCAAGAGAAAGAAGACTTCAACG 59.729 41.667 17.34 0.00 35.05 4.10
627 641 2.481854 GTAGATCATGGCTGACAGCAG 58.518 52.381 27.87 16.90 44.75 4.24
628 642 1.202452 CGTAGATCATGGCTGACAGCA 60.202 52.381 27.87 14.84 44.75 4.41
631 645 2.481969 GCTTCGTAGATCATGGCTGACA 60.482 50.000 0.00 0.00 35.04 3.58
657 671 3.186613 GTGTTTTCTTCTCCAAGGCTACG 59.813 47.826 0.00 0.00 0.00 3.51
686 700 2.027837 TCTACGGAGTTTTTACAGGCCC 60.028 50.000 0.00 0.00 37.78 5.80
747 761 0.178068 CGGGATCCAGTCGGTTTGAT 59.822 55.000 15.23 0.00 0.00 2.57
776 790 0.250553 GTGTGGAATTGTGTCCCCGA 60.251 55.000 0.00 0.00 36.80 5.14
861 875 4.441634 CCGTTGTTGTTACCCATTGGAAAA 60.442 41.667 3.62 0.00 34.81 2.29
872 886 4.965762 GCTAGTTTTCACCGTTGTTGTTAC 59.034 41.667 0.00 0.00 0.00 2.50
1085 1128 2.832643 ATGGATGCCAATGGAGTTGA 57.167 45.000 2.05 0.00 40.37 3.18
1270 1736 2.283604 TACTGCCCCAGCTCGTGA 60.284 61.111 0.00 0.00 40.80 4.35
1441 1907 6.656902 AGCAAAGATCATGATGAAGTAGGAA 58.343 36.000 14.30 0.00 0.00 3.36
1528 1994 3.445518 GATCGACATGAGGGCGGCA 62.446 63.158 12.47 0.00 0.00 5.69
1558 2024 7.130681 TGGTTTTGACAAATTGGTTTCCTAT 57.869 32.000 0.50 0.00 0.00 2.57
1598 2064 2.167075 AGGGTCAACTAATTCGGTACCG 59.833 50.000 28.66 28.66 41.35 4.02
1599 2065 3.736126 CGAGGGTCAACTAATTCGGTACC 60.736 52.174 0.16 0.16 0.00 3.34
1604 2171 3.119245 TCCTTCGAGGGTCAACTAATTCG 60.119 47.826 13.96 0.00 35.59 3.34
1613 2180 3.314307 AGATACATCCTTCGAGGGTCA 57.686 47.619 13.96 0.00 35.59 4.02
1616 2183 5.013547 ACATCTAGATACATCCTTCGAGGG 58.986 45.833 7.38 7.38 35.59 4.30
1660 2228 4.503370 GTCTTCGTCCGGAATTAGTTGATC 59.497 45.833 5.23 0.00 33.26 2.92
1661 2229 4.081862 TGTCTTCGTCCGGAATTAGTTGAT 60.082 41.667 5.23 0.00 33.26 2.57
1694 2272 1.676916 CGTCTCAATGTCAGTGGCCAT 60.677 52.381 9.72 0.00 0.00 4.40
2031 2621 0.179181 GGATGTTGTCGTCGACGCTA 60.179 55.000 32.19 20.10 39.60 4.26
2373 5118 1.871080 ACTGGAAGCAAGTGAGTTCG 58.129 50.000 0.00 0.00 37.60 3.95
2381 5151 8.655651 TTTTGGTTTAATTAACTGGAAGCAAG 57.344 30.769 9.94 0.00 38.45 4.01
2562 5336 5.976458 TGCTTTAATGGAATTGGAATGGAC 58.024 37.500 0.00 0.00 36.99 4.02
2658 5433 2.356741 GCTGAATACCCTGGGCTTGTAA 60.357 50.000 14.08 0.00 0.00 2.41
2729 5504 8.303156 CAAACATATGTATCTAGACAGAGGGAG 58.697 40.741 9.21 0.00 33.22 4.30
2733 5508 7.536964 CGCTCAAACATATGTATCTAGACAGAG 59.463 40.741 9.21 7.23 33.22 3.35
2736 5511 7.139392 GTCGCTCAAACATATGTATCTAGACA 58.861 38.462 9.21 0.00 0.00 3.41
2750 5525 8.128582 GGATCAATATTATTTGTCGCTCAAACA 58.871 33.333 7.52 0.00 46.77 2.83
2932 5707 1.514983 TGGCCTCCATGATGATCTGT 58.485 50.000 3.32 0.00 0.00 3.41
3036 5811 2.093658 AGTAGGTCTACGCCAACATTGG 60.094 50.000 6.27 6.27 41.16 3.16
3099 5874 1.448540 CACACTTAGGCCGCTCCAG 60.449 63.158 0.00 0.00 37.29 3.86
3186 7352 9.740239 TCAAATCAGAAGAAGAAAATTGACTTG 57.260 29.630 2.76 0.00 0.00 3.16
3442 7614 5.306937 ACATCACCCGATCAGACCATATTAA 59.693 40.000 0.00 0.00 0.00 1.40
3513 7685 4.035558 CAGCAATCACCGCAAACATATAGT 59.964 41.667 0.00 0.00 0.00 2.12
3525 7697 3.837213 AACAAGATTCAGCAATCACCG 57.163 42.857 0.19 0.00 41.03 4.94
3568 7740 5.288543 AGAGCGATTCACTCACAATTTTC 57.711 39.130 4.61 0.00 36.58 2.29
3583 7755 8.978539 GGTTTTCTTTTTGAATTAAAGAGCGAT 58.021 29.630 2.93 0.00 41.25 4.58
3584 7756 7.976734 TGGTTTTCTTTTTGAATTAAAGAGCGA 59.023 29.630 2.93 0.00 41.25 4.93
3650 7822 2.831333 CTTCTGTTCATCATCTCCGGG 58.169 52.381 0.00 0.00 0.00 5.73
3653 7825 3.118482 TCCTGCTTCTGTTCATCATCTCC 60.118 47.826 0.00 0.00 0.00 3.71
3695 7867 1.134936 ACTGAAAACCGCAACAAACCC 60.135 47.619 0.00 0.00 0.00 4.11
3705 7877 0.321298 ATCGGGTCCACTGAAAACCG 60.321 55.000 0.00 0.00 42.45 4.44
3719 7891 4.730949 TGGAGACTACAACTTTATCGGG 57.269 45.455 0.00 0.00 0.00 5.14
3729 7901 4.948341 TGTTGCTAGTTGGAGACTACAA 57.052 40.909 0.00 0.00 39.86 2.41
3734 7906 2.731976 CGACTTGTTGCTAGTTGGAGAC 59.268 50.000 0.00 0.00 0.00 3.36
3750 7922 1.681793 CATCCCTGATACCGACGACTT 59.318 52.381 0.00 0.00 0.00 3.01
3765 7937 2.615493 CGGTTATATGCCCTGACATCCC 60.615 54.545 0.00 0.00 0.00 3.85
3766 7938 2.615493 CCGGTTATATGCCCTGACATCC 60.615 54.545 0.00 0.00 0.00 3.51
3784 7957 2.364632 TGCCAATTATTCACTGACCGG 58.635 47.619 0.00 0.00 0.00 5.28
3804 7977 0.609131 CCCCTGTTGCCGTGAAGATT 60.609 55.000 0.00 0.00 0.00 2.40
3810 7983 2.909457 ATATGCCCCCTGTTGCCGTG 62.909 60.000 0.00 0.00 0.00 4.94
3811 7984 1.349542 TATATGCCCCCTGTTGCCGT 61.350 55.000 0.00 0.00 0.00 5.68
3812 7985 0.038166 ATATATGCCCCCTGTTGCCG 59.962 55.000 0.00 0.00 0.00 5.69
3813 7986 1.203050 ACATATATGCCCCCTGTTGCC 60.203 52.381 12.79 0.00 0.00 4.52
3814 7987 2.292828 ACATATATGCCCCCTGTTGC 57.707 50.000 12.79 0.00 0.00 4.17
3815 7988 5.596361 TGTAAAACATATATGCCCCCTGTTG 59.404 40.000 12.79 0.00 30.90 3.33
3816 7989 5.772004 TGTAAAACATATATGCCCCCTGTT 58.228 37.500 12.79 0.00 0.00 3.16
3818 7991 5.385198 ACTGTAAAACATATATGCCCCCTG 58.615 41.667 12.79 4.50 0.00 4.45
3819 7992 5.663158 ACTGTAAAACATATATGCCCCCT 57.337 39.130 12.79 0.00 0.00 4.79
3820 7993 6.239204 GGAAACTGTAAAACATATATGCCCCC 60.239 42.308 12.79 0.00 0.00 5.40
3824 7997 9.289303 CACTTGGAAACTGTAAAACATATATGC 57.711 33.333 12.79 0.00 0.00 3.14
3828 8001 7.651704 GCAACACTTGGAAACTGTAAAACATAT 59.348 33.333 0.00 0.00 0.00 1.78
3829 8002 6.975772 GCAACACTTGGAAACTGTAAAACATA 59.024 34.615 0.00 0.00 0.00 2.29
3830 8003 5.810074 GCAACACTTGGAAACTGTAAAACAT 59.190 36.000 0.00 0.00 0.00 2.71
3831 8004 5.164954 GCAACACTTGGAAACTGTAAAACA 58.835 37.500 0.00 0.00 0.00 2.83
3832 8005 4.565166 GGCAACACTTGGAAACTGTAAAAC 59.435 41.667 0.00 0.00 0.00 2.43
3833 8006 4.464597 AGGCAACACTTGGAAACTGTAAAA 59.535 37.500 0.00 0.00 41.41 1.52
3834 8007 4.020543 AGGCAACACTTGGAAACTGTAAA 58.979 39.130 0.00 0.00 41.41 2.01
3835 8008 3.380004 CAGGCAACACTTGGAAACTGTAA 59.620 43.478 0.00 0.00 41.41 2.41
3836 8009 2.948979 CAGGCAACACTTGGAAACTGTA 59.051 45.455 0.00 0.00 41.41 2.74
3837 8010 1.750778 CAGGCAACACTTGGAAACTGT 59.249 47.619 0.00 0.00 41.41 3.55
3838 8011 1.536709 GCAGGCAACACTTGGAAACTG 60.537 52.381 0.00 0.00 41.41 3.16
3839 8012 0.746659 GCAGGCAACACTTGGAAACT 59.253 50.000 0.00 0.00 41.41 2.66
3840 8013 0.459489 TGCAGGCAACACTTGGAAAC 59.541 50.000 0.00 0.00 41.41 2.78
3841 8014 0.459489 GTGCAGGCAACACTTGGAAA 59.541 50.000 0.00 0.00 41.41 3.13
3842 8015 0.395586 AGTGCAGGCAACACTTGGAA 60.396 50.000 6.61 0.00 46.01 3.53
3843 8016 1.227102 AGTGCAGGCAACACTTGGA 59.773 52.632 6.61 0.00 46.01 3.53
3844 8017 3.846180 AGTGCAGGCAACACTTGG 58.154 55.556 6.61 0.00 46.01 3.61
3848 8021 0.380378 TCGAAAAGTGCAGGCAACAC 59.620 50.000 0.00 2.02 41.41 3.32
3849 8022 1.317613 ATCGAAAAGTGCAGGCAACA 58.682 45.000 0.00 0.00 41.41 3.33
3850 8023 2.724839 CGTATCGAAAAGTGCAGGCAAC 60.725 50.000 0.00 0.00 0.00 4.17
3851 8024 1.463056 CGTATCGAAAAGTGCAGGCAA 59.537 47.619 0.00 0.00 0.00 4.52
3852 8025 1.075542 CGTATCGAAAAGTGCAGGCA 58.924 50.000 0.00 0.00 0.00 4.75
3853 8026 1.355971 TCGTATCGAAAAGTGCAGGC 58.644 50.000 0.00 0.00 31.06 4.85
3863 8036 6.110543 TCTCTGTATTTCGTTCGTATCGAA 57.889 37.500 0.40 0.40 43.75 3.71
3864 8037 5.723492 TCTCTGTATTTCGTTCGTATCGA 57.277 39.130 0.00 0.00 35.50 3.59
3865 8038 4.376279 GCTCTCTGTATTTCGTTCGTATCG 59.624 45.833 0.00 0.00 0.00 2.92
3866 8039 5.271625 TGCTCTCTGTATTTCGTTCGTATC 58.728 41.667 0.00 0.00 0.00 2.24
3867 8040 5.244785 TGCTCTCTGTATTTCGTTCGTAT 57.755 39.130 0.00 0.00 0.00 3.06
3868 8041 4.690184 TGCTCTCTGTATTTCGTTCGTA 57.310 40.909 0.00 0.00 0.00 3.43
3869 8042 3.570926 TGCTCTCTGTATTTCGTTCGT 57.429 42.857 0.00 0.00 0.00 3.85
3870 8043 4.903638 TTTGCTCTCTGTATTTCGTTCG 57.096 40.909 0.00 0.00 0.00 3.95
3871 8044 6.888430 TCTTTTTGCTCTCTGTATTTCGTTC 58.112 36.000 0.00 0.00 0.00 3.95
3872 8045 6.861065 TCTTTTTGCTCTCTGTATTTCGTT 57.139 33.333 0.00 0.00 0.00 3.85
3873 8046 6.092807 GGATCTTTTTGCTCTCTGTATTTCGT 59.907 38.462 0.00 0.00 0.00 3.85
3874 8047 6.092670 TGGATCTTTTTGCTCTCTGTATTTCG 59.907 38.462 0.00 0.00 0.00 3.46
3875 8048 7.383102 TGGATCTTTTTGCTCTCTGTATTTC 57.617 36.000 0.00 0.00 0.00 2.17
3876 8049 7.765695 TTGGATCTTTTTGCTCTCTGTATTT 57.234 32.000 0.00 0.00 0.00 1.40
3877 8050 7.667219 TCTTTGGATCTTTTTGCTCTCTGTATT 59.333 33.333 0.00 0.00 0.00 1.89
3878 8051 7.170965 TCTTTGGATCTTTTTGCTCTCTGTAT 58.829 34.615 0.00 0.00 0.00 2.29
3879 8052 6.533730 TCTTTGGATCTTTTTGCTCTCTGTA 58.466 36.000 0.00 0.00 0.00 2.74
3880 8053 5.380043 TCTTTGGATCTTTTTGCTCTCTGT 58.620 37.500 0.00 0.00 0.00 3.41
3881 8054 5.954296 TCTTTGGATCTTTTTGCTCTCTG 57.046 39.130 0.00 0.00 0.00 3.35
3882 8055 6.966534 TTTCTTTGGATCTTTTTGCTCTCT 57.033 33.333 0.00 0.00 0.00 3.10
3883 8056 7.373493 TGATTTCTTTGGATCTTTTTGCTCTC 58.627 34.615 0.00 0.00 0.00 3.20
3884 8057 7.294017 TGATTTCTTTGGATCTTTTTGCTCT 57.706 32.000 0.00 0.00 0.00 4.09
3885 8058 8.440833 CAATGATTTCTTTGGATCTTTTTGCTC 58.559 33.333 0.00 0.00 0.00 4.26
3886 8059 7.935210 ACAATGATTTCTTTGGATCTTTTTGCT 59.065 29.630 9.99 0.00 35.91 3.91
3887 8060 8.091385 ACAATGATTTCTTTGGATCTTTTTGC 57.909 30.769 9.99 0.00 35.91 3.68
3889 8062 9.276590 GGAACAATGATTTCTTTGGATCTTTTT 57.723 29.630 9.99 0.00 35.91 1.94
3890 8063 8.431222 TGGAACAATGATTTCTTTGGATCTTTT 58.569 29.630 9.99 0.00 35.91 2.27
3891 8064 7.965718 TGGAACAATGATTTCTTTGGATCTTT 58.034 30.769 9.99 0.00 35.91 2.52
3892 8065 7.543359 TGGAACAATGATTTCTTTGGATCTT 57.457 32.000 9.99 0.00 35.91 2.40
3911 8084 7.657336 TGGAATAGTTTTGTTCTTGATGGAAC 58.343 34.615 0.00 0.00 43.97 3.62
3912 8085 7.831691 TGGAATAGTTTTGTTCTTGATGGAA 57.168 32.000 0.00 0.00 0.00 3.53
3913 8086 7.831691 TTGGAATAGTTTTGTTCTTGATGGA 57.168 32.000 0.00 0.00 0.00 3.41
3914 8087 9.143631 GATTTGGAATAGTTTTGTTCTTGATGG 57.856 33.333 0.00 0.00 0.00 3.51
3915 8088 8.853345 CGATTTGGAATAGTTTTGTTCTTGATG 58.147 33.333 0.00 0.00 0.00 3.07
3916 8089 8.576442 ACGATTTGGAATAGTTTTGTTCTTGAT 58.424 29.630 0.00 0.00 0.00 2.57
3917 8090 7.936584 ACGATTTGGAATAGTTTTGTTCTTGA 58.063 30.769 0.00 0.00 0.00 3.02
3918 8091 7.860373 TGACGATTTGGAATAGTTTTGTTCTTG 59.140 33.333 0.00 0.00 0.00 3.02
3919 8092 7.936584 TGACGATTTGGAATAGTTTTGTTCTT 58.063 30.769 0.00 0.00 0.00 2.52
3920 8093 7.228706 ACTGACGATTTGGAATAGTTTTGTTCT 59.771 33.333 0.00 0.00 0.00 3.01
3921 8094 7.360361 ACTGACGATTTGGAATAGTTTTGTTC 58.640 34.615 0.00 0.00 0.00 3.18
3922 8095 7.272037 ACTGACGATTTGGAATAGTTTTGTT 57.728 32.000 0.00 0.00 0.00 2.83
3923 8096 6.877611 ACTGACGATTTGGAATAGTTTTGT 57.122 33.333 0.00 0.00 0.00 2.83
3924 8097 7.481798 GCTTACTGACGATTTGGAATAGTTTTG 59.518 37.037 0.00 0.00 0.00 2.44
3925 8098 7.361799 GGCTTACTGACGATTTGGAATAGTTTT 60.362 37.037 0.00 0.00 0.00 2.43
3926 8099 6.093633 GGCTTACTGACGATTTGGAATAGTTT 59.906 38.462 0.00 0.00 0.00 2.66
3927 8100 5.585047 GGCTTACTGACGATTTGGAATAGTT 59.415 40.000 0.00 0.00 0.00 2.24
3928 8101 5.116882 GGCTTACTGACGATTTGGAATAGT 58.883 41.667 0.00 0.00 0.00 2.12
3929 8102 5.006746 GTGGCTTACTGACGATTTGGAATAG 59.993 44.000 0.00 0.00 0.00 1.73
3930 8103 4.873827 GTGGCTTACTGACGATTTGGAATA 59.126 41.667 0.00 0.00 0.00 1.75
3931 8104 3.689649 GTGGCTTACTGACGATTTGGAAT 59.310 43.478 0.00 0.00 0.00 3.01
3932 8105 3.071479 GTGGCTTACTGACGATTTGGAA 58.929 45.455 0.00 0.00 0.00 3.53
3933 8106 2.614481 GGTGGCTTACTGACGATTTGGA 60.614 50.000 0.00 0.00 0.00 3.53
3934 8107 1.737793 GGTGGCTTACTGACGATTTGG 59.262 52.381 0.00 0.00 0.00 3.28
3935 8108 2.416547 CTGGTGGCTTACTGACGATTTG 59.583 50.000 0.00 0.00 0.00 2.32
3936 8109 2.301870 TCTGGTGGCTTACTGACGATTT 59.698 45.455 0.00 0.00 0.00 2.17
3937 8110 1.899814 TCTGGTGGCTTACTGACGATT 59.100 47.619 0.00 0.00 0.00 3.34
3938 8111 1.478510 CTCTGGTGGCTTACTGACGAT 59.521 52.381 0.00 0.00 0.00 3.73
3939 8112 0.888619 CTCTGGTGGCTTACTGACGA 59.111 55.000 0.00 0.00 0.00 4.20
3940 8113 0.108615 CCTCTGGTGGCTTACTGACG 60.109 60.000 0.00 0.00 0.00 4.35
3941 8114 3.842869 CCTCTGGTGGCTTACTGAC 57.157 57.895 0.00 0.00 0.00 3.51
3950 8123 3.965539 CTTGAGGCGCCTCTGGTGG 62.966 68.421 46.04 29.69 43.12 4.61
3951 8124 2.435586 CTTGAGGCGCCTCTGGTG 60.436 66.667 46.04 31.31 43.12 4.17
3952 8125 2.604686 TCTTGAGGCGCCTCTGGT 60.605 61.111 46.04 21.59 43.12 4.00
3953 8126 2.186384 CTCTTGAGGCGCCTCTGG 59.814 66.667 46.04 37.26 43.12 3.86
3954 8127 2.186384 CCTCTTGAGGCGCCTCTG 59.814 66.667 46.04 37.73 43.12 3.35
3955 8128 3.080121 CCCTCTTGAGGCGCCTCT 61.080 66.667 46.04 23.23 43.12 3.69
3956 8129 2.660064 TTCCCTCTTGAGGCGCCTC 61.660 63.158 43.07 43.07 43.01 4.70
3957 8130 2.607750 TTCCCTCTTGAGGCGCCT 60.608 61.111 33.48 33.48 0.00 5.52


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

AutoCloner maintained by Alex Coulton.